Epigenetic Homogeneity Within Colorectal Tumors ...

Accepted Manuscript Epigenetic Homogeneity Within Colorectal Tumors Predicts Shorter Relapse-free and Overall Survival Times for Patients With Loco-regional Cancer Anna Martínez-Cardús, Sebastian Moran, Eva Musulen, Cátia Moutinho, Jose L. Manzano, Eva Martinez-Balibrea, Montserrat Tierno, Elena Élez, Stefania Landolfi, Patricia Lorden, Carles Arribas, Fabian Müller, Christoph Bock, Josep Tabernero, Manel Esteller PII: DOI: Reference:

S0016-5085(16)34892-2 10.1053/j.gastro.2016.08.001 YGAST 60617

To appear in: Gastroenterology Accepted Date: 2 August 2016 Please cite this article as: Martínez-Cardús A, Moran S, Musulen E, Moutinho C, Manzano JL, MartinezBalibrea E, Tierno M, Élez E, Landolfi S, Lorden P, Arribas C, Müller F, Bock C, Tabernero J, Esteller M, Epigenetic Homogeneity Within Colorectal Tumors Predicts Shorter Relapse-free and Overall Survival Times for Patients With Loco-regional Cancer, Gastroenterology (2016), doi: 10.1053/ j.gastro.2016.08.001. This is a PDF file of an unedited manuscript that has been accepted for publication. As a service to our customers we are providing this early version of the manuscript. The manuscript will undergo copyediting, typesetting, and review of the resulting proof before it is published in its final form. Please note that during the production process errors may be discovered which could affect the content, and all legal disclaimers that apply to the journal pertain.

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Epigenetic Homogeneity Within Colorectal Tumors Predicts Shorter Relapse-free and Overall Survival

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Times for Patients With Loco-regional Cancer Anna Martínez-Cardús,1,* Sebastian Moran,1,* Eva Musulen,2 Cátia Moutinho,1 Jose L. Manzano,3 Eva Martinez-Balibrea,4 Montserrat Tierno,4 Elena Élez,5 Stefania Landolfi,6 Patricia Lorden,1 Carles Arribas,1 Fabian Müller,7

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Christoph Bock,7,8 Josep Tabernero,5 and Manel Esteller1,9,10 1

Cancer Epigenetics and Biology Program, Bellvitge Biomedical Research Institute,

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L’Hospitalet, Barcelona, Catalonia, Spain; 2Pathology Department, Germans Trias i Pujol University Hospital, Badalona, Catalonia, Spain;

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Medical Oncology Department,

Germans Trias i Pujol University Hospital, Badalona, Catalonia, Spain; 4Catalan Institute of Oncology, Health Sciences Research Institute of the Germans Trias i Pujol Foundation, Barcelona, Catalonia, Spain; 5Medical Oncology Department, Vall d'Hebron University Hospital and Institute of Oncology, Universitat Autònoma de Barcelona, Barcelona,

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Catalonia, Center affiliated to the RTICC (ISCiii), Spain; 6Pathology Department, Vall d'Hebron University Hospital, Barcelona, Catalonia, Spain;

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Max Planck Institute for

Informatics, Saarbrücken, Germany; 8CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences, Vienna, Austria; Department of Laboratory Medicine,

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Medical University of Vienna, 1090 Vienna, Austria;

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Department of Physiological

Sciences II, School of Medicine, University of Barcelona, Barcelona, Catalonia, Spain; 10

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Institucio Catalana de Recerca i Estudis Avançats, Barcelona, Catalonia, Spain.

* Author names in bold designate shared co-first authors. AMC, SM, ME were involved in the study concept and design, study supervision, drafting of the manuscript and critical revision of the manuscript. AMC, SM, EM, CM, JLM, EMB, MT, EE, SL, PL and CA were involved in the acquisition of data. AMC, SM, FM, CB, JB and ME wee involved in analysis and interpretation of data. Conflicts of Interest: The authors disclose no conflicts. Reprint requests: Manel Esteller, M.D., Ph.D., Cancer Epigenetics and Biology Program, Bellvitge Biomedical Research Institute, 3rd Floor, Hospital Duran i Reynals, Avda. Gran Via de L’Hospitalet 199-203, 08908 L’Hospitalet, Barcelona, Catalonia, Spain. e-mail: [email protected]; fax (+34) (93) 2607219.

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Funding The research leading to these results has received funding from European Community's Seventh Framework Programme FP7/2007-2013 under grant agreement HEALTH-F2-2011-259015 – COLTHERES

and HEALTH-F5-2010-

258236 – SYSCOL, European Research Council Advanced Grant #268626–

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EPINORC project, Ministerio de Ciencia e Innovacion grant number SAF201122803, Institute of Health Carlos III (ISCIII) under the Integrated Project of Excellence no. PIE13/00022 (ONCOPROFILE) and the Spanish Cancer Research Network (RTICC) no. RD12/0036/0039, Cellex Foundation, Olga Torres

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Foundation and the Catalan Government (AGAUR-2014SGR633). M.E. is an

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Institucio Catalana de Recerca i Estudis Avançats (ICREA) Research Professor.

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Abstract BACKGROUND & AIMS: There are few validated biomarkers that can be used to predict outcomes of patients with colorectal cancer. Part of the challenge is the genetic and molecular heterogeneity of colorectal tumors not only

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among patients, but also within tumors. We have explored intra-tumor heterogeneity at the epigenetic level, due to its dynamic nature. We analyzed DNA methylation profiles of the digestive tract surface and the central bulk

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and invasive front regions of colorectal tumors.

METHODS: We determined the DNA methylation profiles of more than 450,000 CpG sites in 3 macrodissected regions of 79 colorectal tumors, and

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23 associated liver metastases, obtained from 2 hospitals in Spain. We also analyzed samples for KRAS and BRAF mutations, 499,170 single nucleotide polymorphisms, and performed immunohistochemical analyses.

RESULTS: We observed differences in DNA methylation among the 3 tumor

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sections; regions of tumor–host interface differed the most from the other tumor sections. Interestingly, tumor samples collected from areas closer the gastrointestinal transit most frequently shared methylation events with metastases. When we calculated individual coefficients to quantify

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heterogeneity, we found that epigenetic homogeneity was significantly associated with short time of relapse-free survival (log rank P=.037) and

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short time of overall survival (log rank P=.026) in patients with loco-regional colorectal cancer.

CONCLUSIONS: In an analysis of 79 colorectal tumors, we found significant heterogeneity in patterns of DNA methylation within each tumor; the level of heterogeneity correlates with times of relapse-free and overall survival.

Keywords: Colorectal Cancer; Epigenetics; DNA Methylation; Heterogeneity.

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Colorectal cancer (CRC) is the second most common cancer cause of death in developed countries.1 Despite increased understanding into the molecular pathways underlying CRC, few prognostic biomarkers have been established to estimate survival.2 This is partly due to the heterogeneous nature of the disease.

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At the intertumoral level, different genetic3 and epigenetic4 alterations could define several subtypes of colorectal primary tumors. However, the lack of knowledge of the molecular defects that drive metastatic disease,5 which causes of 90% of cancer morbidity, represents a major drawback in our ability to define accurate

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prognostic markers. Interestingly, it is widely accepted that most tumors operate through clonal sweeps and branched evolution, produced from sequential selection of acquired phenotypic traits,6 and it is also known that intratumoral

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genetic diversity takes place.7,8 But there are important constraints to intratumoral genetic diversity that are less evident with epigenetic changes, which are plastic in nature.9 For this reason, shifts in the DNA methylation patterns have been involved in metastasis formation10 or chemoresistance.11 Thus, we studied the extent of intratumoral epigenetic heterogeneity in CRC and if it has any impact in patient

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prognosis.

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Material and Methods

Clinical, Molecular and Histopathological Characteristics of Colorectal

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Cancer Patients

This was a retrospective study of 79 colorectal cancer patients. Formalin-fixed paraffin-embedded (FFPE) tissue was obtained by surgical resection in two different Spanish hospitals (Hospital Germans Trias i Pujol, Catalan Institute of Oncology, Badalona and Hospital Vall d'Hebron, Barcelona). Signed informed consent was obtained from each patient. Twenty-three of the 79 primary tumors had tissue available from paired liver metastases: ten synchronous and 13 metachronous. Clinical and histopathological characteristics of the patients are shown in Table 1. Briefly, 80% of patients presented local disease (stage I, II or III) at diagnosis, while the remainder had metastases. Microsatellite instability (MSI)

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was present in 14% (11 of 79) of tumors, all of which were from patients with local disease. Complete clinical data necessary for survival analysis was available in 71 of 79 patients, 11% of whom had MSI (8 of 71) and 18% of whom (13 of 71) had advanced disease. Patients who received adjuvant treatment were treated with fluoropirimidines and oxaliplatin based-therapy. An additional set of stage IV CRC

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tumors (n=17) was also included in the study. Histopathological parameters were assessed in the Pathology Unit of Hospital Germans Trias i Pujol (Badalona) using hematoxilin-eosin staining and optic microscope.

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Delimitation of Primary Intratumoral Regions

All 79 FFPE primary tumors underwent macrodissection (Figure 1A). Three different tumor regions were assessed at the Pathology Unit of Hospital Germans

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Trias i Pujol (Badalona), using hematoxilin-eosin staining and optic microscope. All cancer specimens contained at least 80% of carcinoma cells for each intratumoral section. Stromal and inflammatory cells were also counted for each region. Three regions were defined: the region nearest the digestive tract surface (TS), the central bulk (CB), and the invasive front (IF).

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DNA Extraction and Quality Control

After deparaffination by xylene and tissue digestion by proteinase K (Qiagen, Venlo, Netherlands), DNA was extracted using E.Z.N.A FFPE DNA extraction kit

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(Omega Bio-tek Inc, Norcros, GA, USA) following the manufacturer’s instructions. DNA was quantified by fluorometric method (Quant-iT™ PicoGreen® dsDNA Assay, Life Technologies, Carlsbad, CA, USA) and checked for its suitability for

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FFPE restoration, as indicated on Infinium HD FFPE QC Assay (Illumina Inc., San Diego, CA, USA), by performing a quantitative PCR with 2 ng of FFPE DNA. ∆Cq value was calculated by subtracting the average Cq value of the interrogated sample to the Cq value of a standard provided by the manufacturer. All samples resulted in ∆Cq≤5 which is the threshold recommendation for suitability of samples for FFPE Restoration.

DNA Methylation Analysis DNA bisulfite conversion was carried out using 300 ng of DNA randomized on a 96 well plate using EZ-96 DNA Methylation kit (Zymo Research Corp, Irvine, CA,

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USA) following the manufacturer’s recommendations for Infinium assays. Bisulfite-converted DNA (bs-DNA) was processed with the Infinium FFPE restoration process and then hybridized on Infinium HumanMethylation450 BeadChip array following the manufacturer’s instructions for automated processing of the arrays with a liquid handler (Illumina Infinium HD Methylation Assay

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Experienced User Card, Automated Protocol - 15019521 v01). We normalized raw intensity data using manufacturer’s method (GenomeStudio) implemented on minfi package (preprocessIllumina; minfi v1.12), as this method relies on the fact that fixed amounts of the different control oligonucleotides have been added to the

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different reagents used during array sample processing. As the amounts of each control oligonucleotides are the same for all samples and beadchips used, normalization method makes the necessary adjustments so controls intensities are

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comparable among beadchips and samples within it. Normalized intensities were transformed into beta values by computing per marker the quotient between methylated intensity divided by the sum of methylated and unmethylated intensities and a offset of 100 (to avoid dividing with small values). The obtained values were uploaded to GEO repository under accession numbers GSE69550, GSE81359, GSE81362 and GSE81472. After the normalization step, probes

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related to X and Y chromosomes were removed, as well as those probes whose 10 bases nearer the interrogated site contained a SNP(s), as annotated on the product description file (HumanMethylation450 v1.2 manifest file). Moreover, CpG

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sites with associated p-values from channel detection greater than 0.01 were discarded for the analysis. To assert that the three different tumoral types per patient were being correctly used, probes designed within the microarray to target

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65 SNPs were used to ensure proper comparison of patient samples. Technical replicates were obtained for twelve intratumoral samples. Unsupervised heatmap representation of the three different tumoral regions (TS, CB and IF) for the whole cohort of patients, was generated using randomly selected 1% of the CpG sites and organizing them by applying a hierarchical clustering method on Manhattan distances aggregated by Ward's linkage. Similarly, per patient, hierarchical clustering of Manhattan distances aggregated by ward’s linkage over the top 1% of CpG sites with the greatest differences on methylation values among intratumoral regions were considered. The robustness

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of the identified groups was determined using multiscale bootstrap resampling (n=1,000).

Coefficient of Epigenetic Homogeneity In order to estimate the level of intratumoral epigenetic homogeneity, we

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calculated a coefficient based on the epigenetic changes among the 3 regions. SD mean promoters coefficient was used to compute the standard deviation across the three intratumoral regions (TS, CB and IF) for each patient and each marker that passed our filtering procedures, which consisted of the following exclusion

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criteria: probes outside promoters (according to promoter regions of Ensembl genes, version Ensembl Genes 75), probes located in sex chromosomes, probes with detection p-values > 0.01, and probes interrogating non-CpG sites. The score

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for a patient was computed according to the equation:

1 1 = , − ̅ 3−1

where “N” are the total number filtered CpG sites interrogated in the microarray,

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“i” are each one of the filtered CpG sites, “j” are the three intratumoral regions (tract surface, central bulk and invasive front), and β is the methylation value. A similar approach has been used to quantify intratumoral genetic heterogeneity.12

heterogeneity.

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The lowest value indicates the highest level of homogeneity, meaning a lower

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Immunohistochemistry

Immunohistochemistry was performed using EnVision + Dual Link System-

HRP, DAB+ (Dako) according to the manufacturer's instructions, using the PRDM16 (ab118573, Abcam, dilution 1:1000; epidermis as positive control tissue) and OPCML (ab100923, Abcam, dilution 1:200; fetal brain as external positive control) antibodies. Samples were additionally counterstained with hematoxilin.

Mutational Analysis KRAS and BRAF mutational status was determined through standard Sanger sequencing using specific primers for genomic DNA (available upon request). The

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mutational analysis included codons 12 and 13 for KRAS and the V600E mutation for BRAF for the three different intratumoral regions for each tumor.

Single Nucleotide Polymorphism (SNP) Microarray SNP genotypes were determined using the Illumina Infinium OncoArray-500K.

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200 ng of FFPE genomic material were restored using Illumina Restoration Kit. Restored DNA was treated following manufacturer’s protocol for Infinium HTS assay. Genotypes, SNPs GeneTrain scores as well as genotyping call scores were extracted from GenomeStudio (V2011.1; Genotyping module V1.9.4) using Obtained data was

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manufacturers cluster file specific for OncoArray-500K.

processed under R statistical environment (v.3.1.1), filtering out unreliable genotypes (GeneTrain score ≤ 0.6; genotype call score ≤ 0.6). Patient genotype

three intratumoral regions.

Calculation of z-scores

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concordance rates were computed counting the number of markers matching in all

Using the 20 normal colon samples included in our study, mean (µi(N)) and standard deviation (σ i(N)) per probe (i) was computed. Z-scores of each probe and

!, − µ $

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intratumoral region (j) were computed according to the following formula:

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=

%

()

()

− &

Where a regularization parameter, ξ=0.02 was chosen after considering the

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distribution of probe standard deviations in normal samples. This regularization parameter was introduced in the z-score formula to prevent very large values from occurring. Per intratumoral region, the mean of all z-scores of probes located on promoters were calculated and used to analyze if a intratumoral region showed more or less differences with normal tissue than others.

Statistical Analyses Significant differences in percentages distribution were assessed using the ChiSquare goodness of fit test. The chi-square goodness-of-fit test is applied when you have one categorical variable from a single population. The test determine

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whether a distribution of data or scores for one nominal (categorical) variable matches theoretical expectations for that distribution. In our case, we used the test to evaluate which percentages, calculated for all cohort according to which was the most divergent intratumor region, were statistically significant with respect to theoretical expectations for that distribution. In order to evaluate the impact of the

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level of intratumoral epigenetic homogeneity (EH) in CRC prognosis, we performed survival analysis based on Kaplan-Meier plots, estimating the effect of EH level in relapse-free survival (RFS) and overall survival (OS). Epigenetic homogeneity level was calculated using SD mean promoters coefficient, described

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above. Two groups were established (High and Low homogeneity level) using the quartile 50 (median) of SD mean promoters coefficient as threshold value. KaplanMeier plots were drawn and compared with the two-sided Log Rank test. To study

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the role of EH level in survival considering the effect of other clinical, histopathological and molecular covariables, hazard ratios (HRs) and their 95% confidence intervals were estimated using multivariate Cox proportional hazards regression models, considering as independent prognostic factor covariables with p-values under 0.05. Results were further validated by performing a bootstrap resampling procedure among 1,000 new models. Kaplan-Meier plots and Log

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Rank test were also applied for the determination of the effect of which was most divergent intratumoral region (IF, CB or TS) in survival. Concerning the association between the categorical covariables and Low or High epigenetic homogeneity

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level, were assessed by using the Chi-Square or Fisher’s exact test, as required, considering a statistical significant association when p-value was under 0.05. Differences between categorical variables and EH level were assessed by using U

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Mann-Whitney non-parametric test in cases that SD mean promoters were applied as a continuous (quantitative) variable. Pearson's test was calculated to establish the correlation between continuous variables (number of differences in genotype vs in methylation), considering as positive correlation an r value over 0.5 and pvalue under 0.05.

Results Intertumoral Epigenetic Heterogeneity is Higher than Intratumoral Diversity

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We analyzed the DNA methylation profiles of more than 450,000 CpG sites13 of seventy-nine colorectal tumors (Table 1) in three macrodissected regions for each sample. These three intratumoral sections corresponded to a region more exposed to the gastrointestinal transit, the digestive Tract Surface (TS); a region corresponding to the middle of the surgical tumoral piece, the Central Bulk (CB),

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and a region close to the tumor-host interface, the Invasive Front (IF) (Figure 1A). We observed first in the unsupervised analysis that each one of the three tumor sections preferentially clustered within each CRC patient (65.8%; 52 of 79) (multiscale bootstrap resampling, n=1,000, p-value < 0.05), thus, intertumoral

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epigenetic heterogeneity was significantly higher than intratumoral DNA methylation diversity (Chi-Square goodness of fit test: P = 0.005) (Figure 1B). Technical replicates of a subset of the experimental tissue samples (twelve

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intratumoral regions from four CRC patients) showed high reproducibility [Pearson’s coefficient r = 0.98 (0.97-0.99), P = 2.22 x 10-16)] (Supplementary Figure 1). If we only require that at least two of the three intratumoral regions cluster together, the percentage reached the 100% of cases (Figure 1B). Principal Component Analysis (PCA) also showed that the same intratumoral section from different patients did not cluster together (Supplementary Figure 2). In this

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regard, colorectal tumors undergo promoter CpG island methylation of tumor suppressor genes that can differ between patients.14,15 For example, microsatellite instability (MSI) was present in 14% (11 of 79) of tumors and these cases showed

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an enrichment in a specific DNA methylation pattern, that has been previously named as CpG island methylator phenotype (CIMP),16 that distinguished them from the microsatellite stable (MSS) tumors (86%, 68 of 79) (Supplementary

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Figure 3). Examples of hypermethylated CIMP-associated genes in our samples included CRABP1 and NEUROG1.17 These data confirms that there is more intertumoral than intratumoral heterogeneity present as previously described.18 Unsupervised clustering analysis of 20 paired normal colorectal mucosa samples showed that most of them cluster together, not with any intratumoral section of the corresponding patient (Supplementary Figure 4). To further prove that we were measuring tumor-specific methylation differences and not underlying normal tissue epigenetic variation for these patients, we used the 20 available normal matched tissues to calculate a probe z-score statistic as previously described.19 None of the

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different intratumoral regions showed statistically significant differences according to this factor (pairwise t-test P > 0.05) (Supplementary Figure 5).

Invasive Front is the Most Epigenetically Divergent Region We then proceeded to develop individualized unsupervised clustering

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analyses for each CRC patient. This approach showed that there was a common DNA methylation profile among the three studied locations where 90.9% (70.5% 99.4%) of the CpGs had identical methylation levels (standard deviation of CpG sites calculated per patient within the three intratumoral regions lower than 0.1) in

between

the

described

regions

among

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a given case, but 9.1% (0.6%-29.5%) methylation sites were distinct (sd > 0.1) the

interrogated

485,577

CpG

dinucleotides. The most epigenetically divergent region was the Invasive Front

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(Chi-Square goodness of fit test, P = 0.01), a phenomenona occurring in half of the cases (49.4%, 39 of 79), whilst for the remaining cases the most different section was either the central bulk (25.3%, 20 of 79) or the digestive tract surface (25.3%, 20 of 79) (Figure 2A). This observation fits with the idea that the invasive front represents a critical interface for molecular changes in colorectal carcinoma that includes changes in adhesion molecules and EMT.20 We have not observed any

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association between the most and the least divergent region within each patient (Chi-Square Goodness of Fit; P = 0.84). Overall, according to ANOVA analysis after conducting pairwise comparisons across the three intratumoral regions from

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combined probe data in all patients, we observed 3,002 CpGs (Supplementary Table 1) with statistical significant changes (FDR adjusted P < 0.01, ∆β>0.10). For further validation of our assay, we used one of the most accepted

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approaches to study molecular heterogeneity in a tissue, immunohistochemistry (IHC). Our DNA methylation analyses identifies, among other genomic sites, genes with differential DNA methylation status of their promoters that are associated with loss of expression. Thus, we selected two genes with distinct DNA methylation patterns among the three intratumoral sections and tested their expression by IHC. We found that the DNA methylation status in each region was associated with the expected expression patterns for the PRDM16 (n=11) and OPCML (n=5) proteins: hypermethylation was linked to diminished expression and an unmethylated status was associated with high expression. Illustrative examples for the two genes are shown in Figure 2B.

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From a genetic standpoint, we detected the presence of KRAS or BRAF mutation in 29% and 14% of the studied colorectal tumors, respectively, that were present throughout the three intratumoral regions (Supplementary Figure 6). We studied further the contribution of the genetic component in the generation of heterogeneity by interrogating 499,170 SNPs in the three intratumoral sections.

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The unsupervised clustering analysis of the SNP microarray in nine CRC patients from our studied set showed that each of the three tumor sections clustered within each CRC patient (100%; 9 of 9) (multiscale bootstrap resampling, n=1,000, pvalue < 0.05). Thus, as it also occurred with the epigenomic assessment,

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intertumoral heterogeneity was higher than intratumoral diversity at the SNP array level (Figure 3A). Interestingly, the most SNP-divergent intratumoral section was the Invasive Front (Chi-Square goodness of fit test, P=0.01), a phenomenona

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occurring in close to half of the studied cases (44.4%, 4 of 9) (Figure 3B). This is the same region which we found most divergent at the epigenetic level, however, the SNPs associated with heterogeneity (Supplementary Table 2) did not correlate with the CpG dinucleotides displaying methylation heterogeneity (Supplementary Table 1) as shown in Figure 3C (Pearson’s correlation r = 0.062, P = 0.56). Most important, the number of CpGs with intratumoral methylation

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heterogeneity was significantly higher than the number of SNPs that were distinct among the regions (Figure 3D) (two-sided T-test; P = 0.0014), suggesting a relevant and independent contribution of the epigenetic landscape to intratumoral

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heterogeneity. Although for all intratumoral sections the tumoral component was > 80% of the content of the analyzed section, we wondered if the observed epigenetic heterogeneity could come from a different cellular composition.

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Supplementary Table 3 shows the percentage of the tumoral, stromal and inflammatory components for each one of the three studied intratumoral sections. The assignment of the most epigenetically divergent intratumoral region did not correlate with the most different section according to the percentage of cellular components (Chi-Square test: P = 0.56).

Liver Metastasis and Its Epigenetic Resemblance to Intratumoral Sections We further investigated which intratumoral region was most similar to twenty-three liver metastases from the studied cases. Using unsupervised analysis

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for each intratumoral section within a give case and including its corresponding metastasis sample, we observed that the most frequent region of the primary CRC that shared more methylation events with the metastasis was the digestive tract surface (43.5%), followed by the invasive front (30.4%) and the central bulk (26.1%) (Supplementary Figure 7). Similar results were obtained when we

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analyzed metachronous (n=13) and synchronous (n=10) metastases separately (Supplementary Figure 7). These results are interesting because the tract surface constitutes the “oldest” part of the primary tumor,21 suggesting that dissemination, in addition to the most advanced stages, might also occur early in

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the carcinogenesis process. In this regard, the fact that the available metastasis samples can be closely related to the digestive tract region, that is thought to represent ancestral lineages, supports the existance of a proposed parallel

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progression model.22

Higher Epigenetic Homogeneity and Poor Outcome in Locoregional Disease Finally, we studied if the level of epigenetic heterogeneity in CRC had any impact in the outcome of these patients. The effects of heterogeneity in tumor

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progression have been addressed using nucleotide23 and copy number data,24 but it remains largely unexplored at the DNA methylation level. For the seventy-one samples for which we had complete clinical information (relapse and survival

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status, Table 1), we observed from a qualitative manner that knowing which intratumoral region was the more epigenetically divergent did not exhibit prognostic value (Supplementary Figure 8A). Then, we re-analyzed this issue

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from a quantitative manner by determining the degree of heterogeneity within each tumor obtaining a coefficient of homogeneity based on the computation of the standard deviation across the three regions in each patient for each CpG methylation site located in a gene promoter region. Thus, the highest coefficient of homogeneity indicated the lower heterogeneity. We did not observe any correlation between the obtained coefficient of epigenetic homogeneity and the differences in the cellular components (tumoral, stromal and inflammatory) in each intratumoral region (Chi-Square test: P = 0.74). In this regard, 47% (7 of 15) of the low epigenetic homogeneity cases presented the same percentage of cellular composition in each one of their intratumoral regions, whereas these last cases

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constituted 52% (13 of 25) of the tumors in the high epigenetic homogeneity group. For the whole population with clinical data (n = 71), a non-significant trend between epigenetic homogeneity and reduced relapse-free survival and overall survival was observed (Log Rank P = 0.11 and P = 0.08, respectively)

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(Supplementary Figure 8B) that it was also present in the Cox Regression Multivariate analysis (P = 0.12 and P = 0.09, respectively) (Supplementary Figure 8C). In this cohort, among all clinical variables collected for each patient, advanced stage was the only independent prognostic factor (HR, 95% CI: 2.41,

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1.01 – 5.81; P = 0.048) (Supplementary Figure 8C). Therefore, in order to evaluate the effect of epigenetic homogeneity in a more homogeneous CRC population, we stratified the cohort according to this parameter, remaining 58

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patients. We also excluded MSI+ cases (n=8) due to the recognized association of this parameter with good prognosis.25,26 Thus, we were able to determine the influence of tumor epigenetic homogeneity in prognosis in a set of 50 patients with locoregional disease (Stages I, II and III) (Supplementary Table 4). We found that CRC patients with locoregional disease and a higher epigenetic homogeneity coefficient showed a lower Relapse-Free Survival (Log Rank P =0.037) and

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reduced Overall Survival (Log Rank P =0.026) (Figure 4A). According to Cox proportional hazard regression models, higher epigenetic homogeneity showed to be an independent prognostic factor for worse Relapse-Free Survival (hazard ratio

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[HR]=2.91, 95% confidence interval [CI]=1.03 to 8.16, P = 0.043) (Figure 4B). Our results were further validated by performing a bootstrap resampling procedure. Among 1,000 new models, higher epigenetic homogeneity remained to be an

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independent prognostic factor for worse Relapse-Free Survival (hazard ratio [HR]=3.05, 95% confidence interval [CI]= 1.04 to 8.90, P = 0.042). We also wondered if the presence of selective external pressures, such as

cytotoxic drugs, could reverse the value of higher epigenetic homogeneity to predict poor outcome. To address this issue, we included a new set of stage IV CRC tumors where patients received as first line treatment FOLFIRI (folinic acid + 5-fluorouracil + irinotecan) (n=17) (Supplementary Table 5) following the determination of the degree of epigenetic heterogeneity in the surgery specimens with the three described intratumoral sections. Coefficient of homogeneity "SDmean promoter" was calculated and patients were divided in low and high

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epigenetic homogeneity groups, using median as threshold point, as we did above. The association between level of homogeneity and clinical co-variables was determined using χ2-tests or Fisher’s exact test whenever required, considering a P < 0.05 as statistical significant (Supplementary Table 5). Interestingly, and in concordance with our previous results in the CRC cohort with

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locorregional disease, high epigenetic homogeneity was associated with worse response rate to treatment (85.7% of non-responder cases belonged to high epigenetic homogeneity group; Fisher’s exact test; P = 0.049) and poor survival in these new set of patients treated with FOLFIRI (75% of exitus cases belonged to

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high epigenetic homogeneity group whereas for the low epigenetic homogeneity group, a 100% of the patients remained alive; Fisher’s exact test; P = 0.009) (Supplementary Table 5). Overall, these results could pinpoint that those tumors

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with a lower heterogeneity are driven by powerful clonal events that are associated with expansive growth and a more aggressive clinical behavior.

Discussion

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Intertumoral differences in colorectal cancer at the genetic3 and epigenetic4 levels occur and have made

it possible to establish a consensed molecular

classification of potential subtypes of colorectal cancer.26 However, the existence of intratumoral molecular diversity within each CRC patient and its potential impact outcome,

the

generation

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on

of

metastasis

and

the

development

of

chemoresistance has been explored to a lesser degree. In this regard, genomic

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sequencing studies that addressed the presence of distinct mutational profiles between different intratumoral regions of primary and metastases indicate that molecular heterogeneity is a common finding.27,28 Even distinct metastases from the same patient can show a certain degree of genetic diversity.27,28 These different molecular setting can have a relevant role in outcome and response to targeted therapies.29 For example, the therapeutical use of epidermal growth factor receptor blockade in CRC patients could induce the outgrowth of intratumoral regions carrying KRAS mutations or carrying other molecular events associated with activation of mitogen associated protein kinases.30,31

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The contribution of epigenetic changes, such as DNA methylation aberrations, to intratumoral heterogeneity have been less studied despite the wellrecognized contribution to carcinogenesis of these chemical modifications of the genome. For CRC, relevant tumor suppressor genes are inactivated by promoter CpG island hypermethylation32 and some genomic sites acquire frequently

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hypermethylation, mostly in the MSI+ contex, configuring the termed CpG island hypermethylation phenotype (CIMP).16 However, despite that reports reflect the existance of intratumoral epigenetic heterogeneity for other malignancies such as prostate33 and breast34 cancer, we know extremely little about this phenomenon in

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CRC. In this study, the determination of the DNA methylation landcaspe of twohundred eighty-eight intratumoral sections corresponding to ninety-six CRC patients contributes to fill the knowledge gap in the field. Our findings are

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summarized in Figure 5. Our results demonstrates that intertumoral DNA methylation profiles are always more distinct than intratumoral profiles. However, we also show that in CRC primary tumors intratumoral DNA methylation differences occur and, most of the time, are more extensive than the analyzed genetic diversity. Among the three studied intratumoral sections, the invasive front was the most significantly epigenetically divergent. These data agree with the

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proposed role of the invasive front as a critical region in CRC that undergoes expression changes in adhesion and EMT proteins20, some of them in a transient manner.35 This fits with the dynamic nature of the epigenetic changes. Our results

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also show that the corresponding metastasis can resemble any intratumoral region, but were most often similar to the region closest to the gastrointestinal transit, the oldest part of the tumor. This provides a potential explanation for the

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early occurrance of metastasis even for those more localized and small carcinomas. Finally, we also found that those locoregional CRC tumors more homogeneous at the epigenetic level show a poor clinical outcome. The same effect is observed in more advanced cases that received the standard chemotherapy FOLFIRI treatment as first line therapy. Prospective studies are now necessary to demonstrate if the use of the newly developed targeted therapies will have an impact in shifting the described epigenetically divergent regions towards ones that harbour an enriched population of resistant cells.

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References 1. Torre LA, Bray F, Siegel RL, et al. Global cancer statistics, 2012. CA Cancer J Clin 2015;65:87-108. 2. Brenner H, Kloor M, Pox CP. Colorectal cancer. Lancet 2014;383:14901502.

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3. Linnekamp JF, Wang X, Medema JP, et al. Colorectal cancer heterogeneity and targeted therapy: a case for molecular disease subtypes. Cancer Res 2015;75:245-249.

4. Okugawa Y, Grady WM, Goel A. Epigenetic Alterations in Colorectal

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Cancer: Emerging Biomarkers. Gastroenterology 2015; pii: S00165085(15)01005-7.

2006;127:679-695.

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5. Gupta GP, Massagué J. Cancer Metastasis: Building a Framework. Cell

6. Nowell PC. The clonal evolution of tumor cell populations. Science 1976;194(4260):23-8.

7. Gerlinger M, Rowan AJ, Horswell S, et al. Intratumor heterogeneity and branched evolution revealed by multiregion sequencing. N Engl J Med

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2012;366:883-892.

8. Yates LR, Campbell PJ. Evolution of the cancer genome. Nat Rev Genet 2012;13:795-806.

9. Timp W, Feinberg AP. Cancer as a dysregulated epigenome allowing

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cellular growth advantage at the expense of the host. Nat Rev Cancer 2013;13:497-510.

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10. Vizoso M, Ferreira HJ, Lopez-Serra P, et al. Epigenetic activation of a cryptic TBC1D16 transcript enhances melanoma progression by targeting EGFR. Nat Med 2015;21:741-750.

11. Moutinho C, Martinez-Cardus A, Santos C, et al. Epigenetic inactivation of the BRCA1 interactor SRBC and resistance to oxaliplatin in colorectal cancer. J Natl Cancer Inst 2014;106:djt322. 12. Mroz EA, Rocco JW. MATH, a novel measure of intratumor genetic heterogeneity, is high in poor-outcome classes of head and neck squamous cell carcinoma. Oral Oncol. 2013 Mar;49(3):211-5.

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13. Sandoval J, Heyn H, Moran S, et al. Validation of a DNA methylation microarray for 450,000 CpG sites in the human genome. Epigenetics 2011;6:692-702. 14. Heyn H, Esteller M. DNA methylation profiling in the clinic: applications and challenges. Nat Rev Genet 2012;13:679-692.

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15. Berman BP, Weisenberger DJ, Aman JF, et al. Regions of focal DNA hypermethylation and long-range hypomethylation in colorectal cancer coincide with nuclear lamina-associated domains. Nat Genet 2011;44:4046.

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16. Toyota M, Ahuja N, Ohe-Toyota M, et al. CpG island methylator phenotype in colorectal cancer. Proc Natl Acad Sci USA 1999;96:8681-8686. 17. Ogino S, Kawasaki T, Kirkner GJ, et al. Evaluation of markers for CpG

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island methylator phenotype (CIMP) in colorectal cancer by a large population-based sample. J Mol Diagn 2007;9:305-314. 18. Lawrence MS, Stojanov P, Mermel C, et al. Discovery and saturation analysis of cancer genes across 21 tumour types. Nature 2014;505:495501.

19. Bartlett TE, Zaikin A, Olhede SC, et al. Corruption of the intra-gene DNA

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methylation architecture is a hallmark of cancer. PLoS One 2013;8:e68285. 20. Dawson H, Lugli A. Molecular and pathogenetic aspects of tumor budding in colorectal cancer. Front Med (Lausanne) 2015;2:11.

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21. Fearon ER, Vogelstein B. A genetic model for colorectal tumorigenesis. Cell 1990;61:759-767.

22. Naxerova K, Jain RK. Using tumour phylogenetics to identify the roots of

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metastasis in humans. Nat Rev Clin Oncol 2015;12:258-272.

23. Park SY, Gönen M, Kim HJ, et al. Cellular and genetic diversity in the progression of in situ human breast carcinomas to an invasive phenotype. J Clin Invest 2010;120:636-644.

24. Shivakumar BM, Rotti H, Vasudevan TG, et al. Copy number variations are progressively associated with the pathogenesis of colorectal cancer in ulcerative colitis. World J Gastroenterol 2015;21:616-622. 25. Tejpar S, Zacharenia S, Delorenzi M et al. Microsatellite instability, prognosis and drug sensitivity of stage II and III colorectal cancer: more complexity to the puzzle. J Natl Cancer Inst 2011;103:841-844.

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26. Guinney J, Dienstmann R, Wang X, et al. The consensus molecular subtypes of colorectal cancer. Nat Med 2015;21:1350-1356. 27. Vogelstein B, Papadopoulos N, Velculescu VE, et al. Cancer genome landscapes. Science 2013;339:1546–1558. 28. Hiley C, de Bruin EC, McGranahan N, et al. Deciphering intratumor

medicine. Genome Biol 2014;15:453–462.

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heterogeneity and temporal acquisition of driver events to refine precision

29. Fearon ER, Carethers JM. Molecular subtyping of colorectal cancer: time to explore both intertumoral and intratumoral heterogeneity to evaluate patient

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outcome. Gastroenterology 2015;148:10-13.

30. Diaz LA Jr, Williams RT, Wu J, et al. The molecular evolution of acquired

2012;486:537–540.

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resistance to targeted EGFR blockage in colorectal cancers. Nature

31. Bettegowda C, Sausen M, Leary RJ, et al. Detection of circulating tumor DNA in early and late-stage human malignancies. Science Transl Med 2014;6:224ra24.

32. Okugawa Y, Grady WM, Goel A. Epigenetic Alterations in Colorectal Cancer: Emerging Biomarkers. Gastroenterology 2015;149:1204-1225..

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33. Brocks D, Assenov Y, Minner S, et al. Intratumor DNA methylation heterogeneity reflects clonal evolution in aggressive prostate cancer. Cell Rep 2014;8:798-806.

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34. Su Y, Subedee A, Bloushtain-Qimron N, et al. Somatic Cell Fusions Reveal Extensive

Heterogeneity

in

Basal-like

Breast

Cancer.

Cell

Rep

2015;11:1549-1563.

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35. Spaderna S, Schmalhofer O, Hlubek F, et al. A transient, EMT-linked loss of basement membranes indicates metastasis and poor survival in colorectal cancer. Gastroenterology 2006;131:830-840.

Author names in bold designate shared co-first authorship.

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Figure Legends

Figure 1: Analysis of intratumoral DNA methylation heterogeneity. (A) Example of a tumor macrodissection of formalin-fixed paraffin-embedded (FFPE) tissue from

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colorectal cancer (CRC) patients. Different intratumoral regions were assessed using hematoxilin-eosin staining and optic microscope and were described as region nearest digestive tract surface, central bulk and invasive front. (B) Unsupervised clustering analysis of whole CRC primary intratumoral regions (n =237, corresponding to the three intratumoral regions from 79 patients) using

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hierarchical ward agglomeration method for the Manhattan distances of the interrogated CpGs (a 1% randomly selected subset of CpGs from the DNA

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methylation microarray is shown). Above, color coded regions as blue (tract surface), yellow (central bulk) and red (invasive front).

Figure 2: Epigenetically divergent regions and immunohistochemistry validation. (A) Percentage of patients classified according to which is the most DNA divergent

intratumoral

region

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methylation

when

patients

were

assessed

individually: TS (tract surface); CB (central bulk) and IF (invasive front). Divergence was calculated by standard deviation among intratumoral regions,

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using supervised clustering analysis, comparing all CpGs in promoter sequences. (B) Inmunohistochemistry staining in two independent colorectal tumors to show the correlation between methylation levels and protein expression of two candidate

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genes. Protein expression (brown staining) of PRDM16 is observed in the tract surface that was found unmethylated for the PRDM16 promoter, whereas the invasive front was hypermethylated and PRDM16 expression was not detected. For the OPCML gene the opposite pattern is observed in the second tumor: expression is found in the unmethylated invasive front (brown staining), whereas loss of staining is found in the hypermethylated tract surface.

Figure 3. Analysis of genetic vs epigenetic intratumoral heterogeneity. (A) Unsupervised clustering analysis of genotyping differences among primary

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intratumoral regions (TS, CB and IF) in a set of CRC cases (n = 9), using hierarchical ward agglomeration method for the Manhattan distances of the SNPs interrogated with Illumina Infinium OncoArray-500K. Obtained data was filtered out of unreliable genotypes (GeneTrain score ≤ 0.6; genotype call score ≤ 0.6). Color coded regions representing genotypes (AA=0, AB=1, BB=2) and intratumoral

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regions are showed in legends above. (B) Bar plot representation of which is the most frequently genetic divergent intratumoral region in a set of patients assessed individually (n = 9): TS (tract surface); CB (central bulk) and IF (invasive front). Patient genotype discordances were computed counting the number of markers

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for which at least one intratumoral region was discordant with the remaining ones. (C) Scatter plot for CRC patients, using the number of differentially methylated CpGs and the number of SNPs showing genotype differences among intratumoral

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regions (Pearson’s correlation r = -0.062; p-value = 0.56). (D) Graphical representation of individual genotype (left) and epigenetic (middle) differences in a set of samples (n = 9), comparing for each patient the three intratumoral regions. Patient genotype discordances were computed counting the number of markers for which at least one intratumoral region was discordant with the remaining ones. Methylation differences were considered when standard deviation among two

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intratumoral regions was lower than 0.05, and their difference with the third intratumoral region was greater than 10%. In right, box plots representing median values of differences for CpGs and SNPs in the studied nine patients (Two-sided

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T-test P=0.0014).

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Figure 4: Impact of epigenetic heterogeneity in CRC outcome. (A) Kaplan-Meier analysis for Relapse-Free Survival and Overall Survival according to tumor epigenetic homogeneity (EH) level. High and Low EH groups were established using the coefficient SD mean promoters, considering the median as threshold value between both groups of homogeneity. The p-value corresponds to the Log Rank two-sided test. Number of events (RFS: relapse; OS: death) are shown from 2 to 10 years in high and low epigenetic homogeneity groups. (B) Forest plot representation of Cox proportional hazards regression analysis, taking into account different clinical and histopathological covariables in colorectal cancer cohort of patients with locoregional disease. The p-values correspond to Hazard

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Ratios (HR). Concerning overall survival, Cox Regression is not assessed since there were no events (death) in the Low epigenetic homogeneity group.

Figure 5: Summary of our findings in colorectal cancer epigenetics highlighting

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than intertumoral epigenetic heterogeneity is higher than intratumoral diversity; the identification of the invasive front as the most epigenetically divergent region; the epigenetic resemblance of liver metastasis to intratumoral sections; and the impact

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of epigenetic homogeneity in poor clinical outcome.

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n (%)

n (%)

Gender 62 (78%) 17 (22%)

SURVIVAL PARAMETERS

Relapse

Age

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Male Female

Yes No

26 (33%) 45 (57%)

16 (20%) 48 (61%)

Unknown Survival status

8 (10%)

Unknown

15 (19%)

Alive

58 (73%)

Death Unknown

13 (17%) 8 (10%)

Stage Locoregional disease Advanced disease

63 (80%) 16 (20%)

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< 60 > 60

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HISTOPATHOLOGICAL PARAMETERS

Localization Right colon

31 (39%)

Left colon

48 (60%)

MSI status

Histology subtype ADC ADC mucinous or PD Unknown / NA

MSS MSI+

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KRAS status

68 (86%) 11 (14%)

Wild-Type Mutated BRAF status

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Wild-Type Mutated

56 (71%) 23 (29%)

68 (86%) 11 (14%)

13 (16%) 10 (13%)

No metastasis / NA

56 (71%)

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Liver metastasis Metachronous Synchronous

2 (2%)

Type of IF

Expansive Infiltrative Unknown / NA Tumor budding No / Low Medium / High Unknown / NA

Tumor inflamation No / Low Medium / High Unknown / NA

39 (49%) 36 (46%) 4 (5%) 54 (69%) 20 (25%) 5 (6%)

45 (57%) 32 (41%) 2 (2%)

Tumor necrosis

Adjuvant treatment

Yes No Unknown

63 (80%) 14 (18%)

58 (74%) 13 (16%) 8 (10%)

No / Low Medium / High Unknown / NA

MSS = stable tumors; MSI+ = microsatellite instability; NA = not available; ADC = adenocarcinoma; PD = poorly differentiated; IF = invasive front

60 (76%) 14 (18%) 5 (6%)

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Supplementary Figure 1. Scatter plots representing technical replicates for all three intratumoral regions in 4 patients. The X-axis represents methylation values obtained during the first batch, while Y-axis are the methylation values of the technical replicate. For each replicate, regression model is plotted as a straight red line, and Pearson’s correlation was estimate resulting in an average Pearson’s coefficient r = 0.98 (0.97-0.99) with P = 2.22·10-16.

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Supplementary Figure 2: Principal component analysis of a 1% randomly selected CpGs from the 485,577 interrogated CpGs on the HumanMethylation450 array. The color code show the different intratumoral regions, whereas the number reflects the patient ID.

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A

B

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TS CB IF

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CpGs

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U Mann-Whitney; p = 0.84

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79 CRC patients x 3 intratumoral regions (IF, CB, TS)

MSS

MSI+ MSI status

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Supplementary Figure 3: (A) Unsupervised clustering analysis where patients highlighted in purple, show the characteristic hypermetylated phenotype of CRC tumors with MSI+ phenotype (highlighted in light blue, genes characteristics of CIMP phenotype). (B) Box plot representation of level of epigenetic homogeneity of CRC patients with available clinical data (n=71), classified for microsatellite instability status. It was not observed statistical significant differences between MSI+ (microsatellite instability) and MSS (stable tumors) groups (U Mann-Whitney, P = 0.84). Epigenetic homogeneity was assessed by SD mean promoters coefficient (represented in Y-axis). X-axis represents tumors grouped by MSI status: 61 and 8 cases for MSS and MSI+ respectively.

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TS CB

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CpGs

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IF Normal

79 CRC patients x 4 regions (IF, CB, TS, Normal colorectal mucosa)

Supplementary Figure 4. Unsupervised clustering analysis for 79 CRC patients, for which 3 intratumoral regions were included (n=237), and, highlighted in purple, paired normal colon mucosa (n=20), using hierarchical ward agglomeration method for the Manhattan distances of a randomly selected 1% of filtered CpGs. Above, color coded regions as blue (tract surface), yellow (central bulk), red (invasive front) and green (normal colorectal mucosa).

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A

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C

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B

Supplementary Figure 5: Representation of Z-Scores of CRC patients according to the most epigenetically divergent intratumoral region: invasive front (A), central bulk (B) or tract surface (C). Z-Score reflects the effect of normal tissue present in the different intratumoral regions and the impact of this population in epigenetic divergence among zones. None of the different intratumoral regions showed statistically significant differences according to this factor (pairwise t-test p-value > 0.05).

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A

B G12D (GGT>GAT)

BRAF status V600E (GTG>GAG)

Wild-Type

TS

Wild-Type

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TS

CB

IF

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CB

IF

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KRAS status

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Supplementary Figure 6: Chromatograms show examples of the mutations found in KRAS and BRAF genes. (A) KRAS G12D mutation was the most frequently detected in our study. (B) BRAF V600E mutation example. For all the cases if a mutation was present, it was always found in the three different parts of the tumor (TS: tract surface; CB: central bulk; IF: invasive front).

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A

B

C TS CB

IF

IF

TS (n = 10)

IF (n = 3)

CB (n = 4)

TS (n = 6)

40.0%

% of CRC samples indicating the intratumoral region more epigenetically similar to metastasis

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23.1%

IF 40.0%

20.0%

IF (n = 4)

CB (n = 2)

TS (n = 4)

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CB (n = 6)

30.4%

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26.1%

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30.4%

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46.2% % of CRC samples indicating the intratumoral region more epigenetically similar to metastasis

% of CRC samples indicating the intratumoral region more epigenetically similar to metastasis

43.5%

IF (n = 7)

TS CB

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TS CB

Supplementary Figure 7: (A) Percentage of tumor-metastasis pairs (n = 23) classified according to which intratumoral region most resemble the metastasis. (TS: blue; CB: yellow; IF: red). Percentage of tumor-metastasis pairs (n = 23) classified according to which intratumoral region (TS: tract surface; CB: central bulk; IF: invasive front) is nearest the metastasis, stratified in two groups: metachronous (B) or synchronous (C). These distribution of percentages did not reach statistical significance (Chi-Square Goodness of Fit test; p-value > 0.05).

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A

CB (n = 14) TS (n = 9)

IF (n = 27)

IF (n = 27) TS (n = 9)

Log Rank: P = 0.72

Log Rank: P = 0.52 At risk: 27 14 9

22 11 6

20 8 6

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CB (n = 14)

20 7 6

19 7 6

19 7 6

EH

At risk:

IF CB DTS

27 14 9

27 14 9

24 14 8

24 14 8

EH IF CB DTS

23 14 8

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B

26 14 9

Low Epigenetic homogeneity (n = 34)

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Low Epigenetic homogeneity (n = 34)

High Epigenetic homogeneity (n = 37)

High Epigenetic homogeneity (n = 37)

SD mean promoters Log Rank: P = 0.08

SD mean promoters Log Rank: P = 0.11

EH

34 37

C

25 22

25 21

25 20

25 20

Low High

EH

At risk: 34 37

32 37

32 33

31 30

31 29

31 28

Low High

(n=71)

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EP

(n=71)

27 26

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At risk:

Supplementary Figure 8: Survival analysis for Relapse-Free Survival and Overall Survival. (A) Kaplan-Meier curves for CRC patients with local disease and MSS (n=50), according to the most divergent intratumoral region: tract surface (TS), central bulk (CB) or invasive front (IF); (B) Kaplan-Meier curves for CRC patients with available clinical data (n = 71), according to Epigenetic homogeneity (EH) level. P-values correspond to log rank two-sided test and number of events are shown from 2 to 10 years. (C) Forest plot representation of multivariate Cox proportional hazards regression analysis, in CRC cohort with available clinical data (n = 71). Pvalues correspond to Hazard Ratio. All p-values under 0.05 were considered statistical significant.

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Supplementary Table 1: CpG sites selected by ANOVA that differentiates the three intratumoral regions (IF,CB,TS)

7 2 7 2 8 11 2 3 13 8 2 5 6 11 14 16 15 16 2 9 4 9 7 1 22 1 1 16 15 18 15 9 7 15 1 8 16 12

151442351 227515220 151442371 127955156 142238752 1575781 7172097 11267525 29148952 142238691 129200109 73690902 7112846 8816428 92042333 524778 40642998 70473841 173591150 130911792 6695614 130911577 73699346 64170964 31475122 85516568 181012492 11707685 52361955 74826769 74528719 133026047 29609310 67356310 184388675 49612450 85648370 26832094

PRKAG2;PRKAG2

Body;Body

PRKAG2;PRKAG2 CYP27C1 SLC45A4 HCCA2;DUSP8 RNF144A HRH1;HRH1;HRH1

Body;Body Body TSS200 Body;3'UTR Body 5'UTR;TSS200;5'UTR

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1.29E-10 1.29E-10 6.17E-10 1.35E-09 3.46E-09 6.80E-09 1.14E-08 1.45E-08 1.69E-08 2.63E-08 3.85E-08 3.85E-08 3.85E-08 4.84E-08 5.14E-08 5.67E-08 6.88E-08 6.92E-08 8.52E-08 8.52E-08 1.18E-07 1.19E-07 1.26E-07 1.33E-07 1.33E-07 1.49E-07 1.59E-07 1.59E-07 1.59E-07 1.59E-07 1.80E-07 1.82E-07 1.82E-07 1.87E-07 1.89E-07 1.90E-07 2.09E-07 2.64E-07

UCSC_REFGENE_GROUP

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-0.15 -0.11 -0.15 -0.12 -0.13 -0.12 -0.11 -0.12 -0.11 -0.13 -0.10 -0.09 -0.11 -0.10 -0.13 -0.10 -0.11 -0.09 -0.11 -0.11 -0.10 -0.12 -0.09 -0.11 -0.12 -0.11 -0.13 -0.10 -0.11 -0.10 -0.10 -0.11 -0.10 -0.13 -0.11 -0.10 -0.10 -0.15

UCSC_REFGENE_NAME

SLC45A4

TSS200

RREB1;RREB1;RREB1;RREB1 ST5;ST5;ST5 C14orf184 RAB11FIP3;RAB11FIP3 PHGR1 ST3GAL2 LOC91149 LCN2;LCN2 S100P;S100P LCN2

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0.00 -0.01 0.00 0.01 0.00 -0.01 0.01 0.01 0.00 -0.01 -0.01 0.01 0.00 0.01 -0.01 0.01 0.00 0.01 -0.01 0.00 0.01 -0.01 0.01 -0.02 -0.01 -0.01 -0.01 0.00 -0.02 0.01 0.00 -0.01 -0.01 -0.01 -0.01 0.00 0.00 -0.02

CHR MAPINFO

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0.15 0.10 0.15 0.13 0.13 0.11 0.12 0.13 0.11 0.12 0.10 0.10 0.11 0.11 0.12 0.11 0.11 0.11 0.10 0.11 0.11 0.11 0.10 0.09 0.11 0.10 0.12 0.10 0.09 0.11 0.10 0.10 0.10 0.12 0.10 0.10 0.10 0.13

Adj-Pval

MR1

EP

cg06436185 cg15756114 cg01058360 cg24923516 cg01081737 cg16941568 cg13464573 cg17571559 cg15887927 cg15586392 cg08790890 cg20969424 cg24899545 cg01902758 cg16555466 cg09408143 cg07047589 cg05261349 cg10275766 cg22438810 cg26233331 cg14615559 cg24300607 cg03119829 cg10237442 cg11754778 cg01441127 cg09662852 cg20259814 cg27262850 cg02079584 cg02840964 cg13817046 cg20356637 cg22039357 cg22564433 cg13441891 cg19893316

Δβ Δβ Δβ (IF-CB) (TS-CB) (TS-IF)

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TargetID

MBP;MBP CCDC33;CCDC33

5'UTR;5'UTR;5'UTR;5'UTR 5'UTR;5'UTR;5'UTR TSS1500 Body;TSS200 TSS1500 TSS1500 Body 1stExon;5'UTR 1stExon;5'UTR TSS200

RELATION_TO_UCSC_CPG_ISLAND

S_Shore N_Shore N_Shore

S_Shore

S_Shelf S_Shore

S_Shore

N_Shore S_Shelf Body

5'UTR;5'UTR 1stExon;5'UTR

S_Shelf N_Shore S_Shelf N_Shore

C1orf21

5'UTR

KIAA0182;KIAA0182 ITPR2

5'UTR;Body Body

Island

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21 2 2 7 16 5 11 1 1 15 16 19 11 3 5 13 5 6 22 11 7 11 2 1 6 15 6 14 6 2 17 1 1 9 22 11 1 3

45626491 7172297 47404636 47515060 29296693 147240402 2397255 114429965 12193099 39609296 524857 2529022 118550443 58159978 79479211 114880889 132162441 30120031 41684460 112037427 129598625 86748071 151334267 205535232 16576166 62861955 134217795 21089025 74276973 206794410 7742971 207277466 32787489 140501305 38506737 2397350 92293627 72870838

RNF144A CALM2 TNS3

Body TSS1500 5'UTR

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UCSC_REFGENE_GROUP

CD81 BCL2L15 TNFRSF8;TNFRSF8

TSS1500 1stExon 5'UTR;Body

RAB11FIP3;RAB11FIP3;RAB11FIP3 GNG7 TREH SERINC5 RASA3 SHROOM1 TRIM10;TRIM10 TEX12

TMEM135;TMEM135;TMEM135 RND3 ATXN1;ATXN1

KDM6B C4BPA HDAC1 ARRDC1 BAIAP2L2 CD81 TGFBR3 SHQ1

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-0.13 -0.09 -0.11 -0.10 -0.12 -0.11 -0.14 -0.14 -0.10 -0.10 -0.13 -0.12 -0.11 -0.12 -0.12 -0.13 -0.11 -0.11 -0.11 -0.11 -0.09 -0.12 -0.13 -0.12 -0.13 -0.11 -0.10 -0.12 -0.10 -0.11 -0.10 -0.12 -0.10 -0.12 -0.15 -0.12 -0.13 -0.11

UCSC_REFGENE_NAME

1stExon;Body;5'UTR 5'UTR TSS200

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-0.01 0.02 0.00 0.00 -0.01 -0.01 -0.01 -0.01 0.00 0.00 0.01 -0.01 -0.01 -0.01 -0.01 -0.01 -0.01 -0.02 -0.01 -0.01 0.01 0.00 0.01 -0.02 -0.01 0.01 0.00 0.00 0.01 -0.01 0.01 0.00 -0.01 -0.01 0.00 0.00 -0.01 0.00

CHR MAPINFO

TE D

0.12 0.10 0.11 0.10 0.11 0.10 0.14 0.13 0.10 0.11 0.14 0.11 0.10 0.11 0.11 0.12 0.10 0.09 0.10 0.10 0.10 0.11 0.14 0.10 0.12 0.12 0.10 0.12 0.11 0.09 0.11 0.11 0.10 0.12 0.15 0.12 0.12 0.11

Adj-Pval

EP



AC C

TargetID

Body Body TSS1500 3'UTR;3'UTR

RELATION_TO_UCSC_CPG_ISLAND S_Shelf Island S_Shore Island N_Shore

S_Shelf N_Shelf S_Shore S_Shore S_Shore

TSS1500 TSS1500;TSS1500;TSS1500 Body

N_Shore N_Shelf

5'UTR;5'UTR S_Shore N_Shelf

TSS1500 TSS200 Body Body TSS200 TSS1500 Body Body

S_Shelf N_Shelf

S_Shore N_Shore

ACCEPTED MANUSCRIPT


3 15 11 15 16 21 6 8 19 15 9 21 11 11 10 10 11 15 15 3 1 1 15 1 6 3 11 11 2 19 11 5 5 10 1 11 5 16

120401095 62767926 64658903 67356942 11678785 40193056 126235516 124007664 827843 67356838 130484472 43809848 2548920 111178990 51566824 72202215 46739832 78426467 99975141 33841973 236563070 9339683 67342010 193126041 168773658 194754642 59323398 113845487 223891284 827821 68148079 159508665 77252276 114133700 46940325 12188996 125800797 2190356

HGD;HGD

1stExon;5'UTR

MIR194-2;MIR192 SMAD3 LITAF;LITAF;LITAF;LITAF ETS2 NCOA7;NCOA7

Body;TSS200 TSS1500 5'UTR;5'UTR;Body;5'UTR Body Body;Body

RI PT


UCSC_REFGENE_GROUP

AZU1;AZU1 SMAD3 TTC16 TMPRSS3;TMPRSS3;TMPRSS3 KCNQ1;KCNQ1 C11orf93 NCOA4;NCOA4;NCOA4 NODAL F2

SC

-0.12 0.09 -0.13 -0.13 -0.11 -0.11 -0.14 -0.12 -0.11 -0.16 -0.10 -0.10 -0.11 -0.14 -0.11 -0.12 -0.10 -0.13 -0.11 -0.13 -0.13 -0.13 -0.13 -0.14 -0.11 -0.11 0.10 -0.11 -0.11 -0.10 -0.10 -0.10 -0.11 -0.14 0.11 -0.10 -0.12 -0.11

UCSC_REFGENE_NAME

1stExon;5'UTR TSS1500 Body Body;TSS1500;Body Body;Body Body 5'UTR;5'UTR;5'UTR TSS1500 TSS1500

M AN U

0.00 -0.01 -0.01 -0.01 -0.02 0.00 0.01 0.01 -0.01 -0.02 -0.01 -0.01 -0.02 -0.01 0.01 -0.01 -0.01 0.00 -0.01 -0.02 -0.01 0.02 -0.02 -0.02 0.00 -0.01 0.00 0.00 -0.01 0.00 0.00 0.00 0.01 -0.01 0.01 -0.01 -0.01 -0.01

CHR MAPINFO

TE D

0.12 -0.10 0.12 0.12 0.09 0.11 0.15 0.13 0.10 0.14 0.10 0.09 0.09 0.13 0.11 0.12 0.09 0.13 0.10 0.11 0.12 0.14 0.11 0.12 0.11 0.10 -0.10 0.11 0.10 0.10 0.10 0.10 0.12 0.12 -0.11 0.09 0.11 0.11

Adj-Pval

PDCD6IP;PDCD6IP;PDCD6IP EDARADD;EDARADD

Body;Body;Body Body;Body

CDC73

Body

EP



AC C

TargetID


N_Shelf N_Shore N_Shore N_Shore

N_Shore N_Shore

S_Shore S_Shore S_Shelf S_Shore S_Shelf

S_Shelf

HTR3A;HTR3A

TSS1500;TSS1500

AZU1 LRP5 PWWP2A

TSS200 Body Body

ACSL5;ACSL5

TSS1500;TSS1500

N_Shore Island

MICAL2 Body GRAMD3;GRAMD3;GRAMD3;GRAMD3;GRAMD3;GRAMD3 Body;5'UTR;1stExon;5'UTR;Body;Body S_Shelf

ACCEPTED MANUSCRIPT


13 2 4 17 10 5 5 6 11 7 2 6 1 6 1 1 1 17 1 8 22 17 11 7 10 3 4 7 19 7 9 5 5 17 12 17 1 3

73636077 65593761 151178090 64225436 21463858 150486801 76116169 149885006 111789452 25608323 220263615 86100013 203829481 11806115 226067900 207277581 220552108 76184081 167786802 61823275 47081903 40715236 111783327 99601692 45406847 4794020 124340166 55063854 42408316 25608305 131942899 171621698 180325969 38171530 49261012 81047627 57013771 156530506


KLF5 SPRED2;SPRED2;SPRED2 DCLK2;DCLK2 APOH NEBL ANXA6;ANXA6 F2RL1

Body 5'UTR;1stExon;Body 3'UTR;3'UTR 1stExon TSS1500 Body;Body Body

S_Shore

RI PT


UCSC_REFGENE_GROUP

SC

-0.12 -0.11 -0.10 -0.13 -0.10 -0.13 -0.11 -0.13 -0.13 -0.12 -0.11 -0.12 -0.13 -0.15 -0.11 -0.13 -0.12 -0.11 -0.13 -0.12 -0.11 -0.10 0.10 -0.12 -0.09 -0.10 -0.12 -0.12 -0.14 -0.12 -0.11 -0.12 -0.13 -0.11 -0.12 -0.11 -0.10 -0.13

UCSC_REFGENE_NAME

C11orf52

S_Shore S_Shore S_Shore N_Shelf

TSS200

SNRPE TMEM63A C4BPA AFMID;TK1;AFMID;AFMID ADCY10;ADCY10

M AN U

0.00 -0.01 -0.01 -0.01 -0.01 -0.01 -0.01 -0.01 0.00 0.00 -0.02 -0.02 -0.02 -0.03 -0.01 -0.01 -0.01 -0.01 0.00 -0.01 -0.01 -0.01 0.00 0.00 0.01 0.01 -0.02 -0.02 -0.01 -0.01 0.00 -0.01 0.00 -0.01 -0.02 -0.02 0.00 -0.01

CHR MAPINFO

TE D

0.12 0.11 0.09 0.12 0.09 0.12 0.11 0.12 0.12 0.12 0.09 0.10 0.11 0.12 0.10 0.12 0.11 0.10 0.13 0.11 0.10 0.09 -0.10 0.11 0.10 0.11 0.10 0.10 0.13 0.12 0.11 0.11 0.13 0.10 0.10 0.09 0.11 0.13

Adj-Pval

CERK COASY;COASY;COASY;COASY;COASY CRYAB;HSPB2

EP



TMEM72;TMEM72 ITPR1;ITPR1;ITPR1;EGOT

AC C

TargetID

TSS1500

N_Shore

5'UTR TSS200

N_Shore

Body;TSS1500;Body;Body Body;Body

S_Shore N_Shelf S_Shore Island Island

3'UTR 1stExon;Body;Body;Body;5'UTR TSS1500;TSS200 5'UTR;1stExon Body;Body;Body;TSS1500

ARHGEF1;ARHGEF1;ARHGEF1

Body;Body;Body

EFCAB9 BTNL8;BTNL8;BTNL8;BTNL8;BTNL8 CSF3;CSF3;CSF3 RND1 METRNL PPAP2B;PPAP2B PA2G4P4

Body TSS200;TSS200;TSS200;TSS200;TSS200 TSS200;TSS200;TSS200 TSS1500 Body Body;Body TSS1500

Island S_Shore

Island N_Shelf

ACCEPTED MANUSCRIPT


4 21 3 11 1 15 13 16 15 11 12 16 2 5 15 16 11 17 1 17 4 20 1 17 6 11 5 3 4 2 11 12 4 5 4 2 4 19

987303 36412119 12435731 117800062 161059458 90456924 114917586 85600235 40364862 86748241 89744488 4845708 103352342 171591509 74528606 4103225 122517514 16200581 228611269 38657875 1041450 49345687 1384038 80526279 168773775 61449737 94982163 169309425 100736658 188406934 624457 105712307 129482097 141297525 100140474 46269605 82964079 42948183


IDUA;SLC26A1;SLC26A1;SLC26A1 C21orf96;RUNX1 PPARG;PPARG;PPARG;PPARG TMPRSS13;TMPRSS13 PVRL4 C15orf38

Body;TSS200;TSS200;TSS200 TSS1500;Body Body;Body;Body;Body 5'UTR;1stExon TSS200 TSS1500

S_Shore

TMEM135;TMEM135;TMEM135 DUSP6;DUSP6 LOC440335;LOC440335;LOC440335 MFSD9 STK10 CCDC33 ADCY9

RI PT


UCSC_REFGENE_GROUP

SC

-0.14 -0.10 -0.11 -0.10 -0.13 -0.14 -0.10 -0.10 -0.10 -0.10 -0.10 -0.10 -0.12 -0.12 -0.10 -0.13 -0.11 -0.12 -0.12 -0.11 -0.11 -0.11 -0.10 -0.13 -0.10 -0.13 -0.13 -0.10 -0.14 -0.13 -0.11 -0.15 -0.10 -0.11 -0.11 -0.13 -0.12 -0.12

UCSC_REFGENE_NAME

TSS1500;TSS1500;TSS1500 Body;Body Body;Body;Body Body Body TSS200 Body

M AN U

0.00 0.01 0.00 -0.01 -0.01 -0.01 0.00 0.01 -0.01 0.00 0.00 0.00 0.00 0.00 0.00 -0.01 0.01 0.00 -0.02 0.00 -0.01 0.00 -0.01 -0.01 0.01 -0.01 -0.01 -0.01 -0.01 0.00 -0.01 0.00 -0.01 0.00 0.00 -0.02 -0.02 -0.02

CHR MAPINFO

PIGL

S_Shore S_Shelf

N_Shore N_Shore N_Shore

Body

TNS4

ATAD3C FOXK2

TE D

0.14 0.11 0.11 0.09 0.12 0.13 0.11 0.11 0.09 0.10 0.10 0.10 0.12 0.12 0.10 0.12 0.11 0.12 0.10 0.11 0.10 0.11 0.09 0.11 0.11 0.12 0.13 0.09 0.13 0.13 0.10 0.14 0.10 0.11 0.11 0.12 0.10 0.11

Adj-Pval

EP



N_Shore TSS200 N_Shore N_Shore TSS1500 Body

DAGLA RFESD;RFESD;RFESD MECOM DAPP1 TFPI;TFPI MUPCDH;MUPCDH

5'UTR TSS1500;TSS1500;TSS1500 Body TSS1500 5'UTR;5'UTR Body;Body

ADH6;ADH6 PRKCE

TSS200;TSS200 Body

CXCL17

TSS1500

AC C

TargetID

S_Shelf S_Shore N_Shore

N_Shore

S_Shelf

N_Shore

ACCEPTED MANUSCRIPT


5 12 7 7 1 10 6 6 2 2 11 6 6 15 22 11 16 10 15 6 2 7 2 11 5 3 12 12 3 15 10 3 11 5 6 3 2 1

125800366 93096844 55145727 156809644 207262706 31388636 80381447 33795750 166649614 86440464 35915447 157952316 168479975 99966833 31671702 118550485 3027577 51566673 100890907 3053528 135149599 45921668 42596220 2397811 180325954 194119058 12225262 124248926 156837590 42448786 135123337 197249274 15732102 166722513 168702788 193830418 134882048 81918997


GRAMD3;GRAMD3;GRAMD3;GRAMD3;GRAMD3Body;5'UTR;TSS1500;Body;Body C12orf74;C12orf74 5'UTR;1stExon EGFR;EGFR;EGFR;EGFR Body;Body;Body;Body

RI PT


UCSC_REFGENE_GROUP

N_Shore

C4BPB;C4BPB;C4BPB;C4BPB;C4BPB;C4BPB;C4BPB 1stExon;5'UTR;5'UTR;5'UTR;1stExon;5'UTR;5'UTR SH3BGRL2

Body

SC

-0.11 -0.13 -0.10 0.10 -0.10 -0.13 -0.11 -0.11 -0.12 -0.13 -0.10 -0.11 -0.11 -0.09 -0.16 -0.11 -0.13 -0.15 -0.14 -0.11 -0.14 -0.11 -0.11 -0.11 -0.11 0.10 -0.10 -0.13 -0.13 -0.10 -0.15 -0.12 -0.11 -0.11 -0.12 -0.13 -0.12 -0.12

UCSC_REFGENE_NAME

GALNT3 MRPL35;MRPL35 ZDHHC14;ZDHHC14 FRMD1 LIMK2;LIMK2;LIMK2 TREH PKMYT1;PKMYT1 NCOA4;NCOA4;NCOA4 FLJ42289;FLJ42289 MGAT5

5'UTR 3'UTR;3'UTR

M AN U

-0.01 -0.02 0.01 0.01 -0.01 0.00 -0.01 -0.01 0.00 -0.01 0.00 0.00 -0.01 0.01 -0.02 0.00 0.00 -0.02 -0.01 0.00 -0.01 -0.01 -0.02 0.00 -0.01 0.01 -0.01 -0.02 0.01 0.00 -0.01 0.00 -0.02 -0.01 -0.02 -0.01 -0.01 -0.02

CHR MAPINFO

TE D

0.10 0.11 0.12 -0.09 0.10 0.13 0.10 0.10 0.12 0.12 0.10 0.11 0.10 0.10 0.14 0.10 0.13 0.12 0.13 0.10 0.14 0.09 0.09 0.12 0.11 -0.10 0.09 0.11 0.13 0.10 0.13 0.12 0.09 0.11 0.10 0.12 0.11 0.10

Adj-Pval

Body;Body TSS200 Body;Body;Body TSS200 Body;Body 5'UTR;5'UTR;5'UTR TSS1500;Body

N_Shore

S_Shore N_Shore N_Shelf S_Shore S_Shore

Body

CD81 BTNL8;BTNL8;BTNL8;BTNL8;BTNL8 GP5 BCL2L14;BCL2L14;BCL2L14 DNAH10

TSS1500 TSS200;TSS200;TSS200;TSS200;TSS200 5'UTR 5'UTR;5'UTR;5'UTR Body

PLA2G4F;PLA2G4F;PLA2G4F ZNF511;TUBGCP2 BDH1;BDH1;BDH1

5'UTR;Body;1stExon Body;TSS1500 Body;Body;Body

ODZ2

Body

EP



AC C

TargetID

N_Shore S_Shore S_Shore N_Shore Island

S_Shelf

ACCEPTED MANUSCRIPT


5 11 2 2 6 15 6 10 11 11 9 6 5 22 15 13 1 11 8 5 1 15 10 5 1 16 1 11 17 12 11 11 17 1 17 16 2 7

177581512 27417374 8833314 97171449 43894639 41118060 132834914 28968928 19127032 12270286 127148781 30616140 68711519 40391489 78897050 47371987 150808973 115781795 74332112 55761274 6420733 67356387 102731539 177581506 168773313 84403863 94057789 2397538 25879003 123503709 111250093 2397323 46035297 68283821 70216332 86009621 182656091 73247613


NHP2;NHP2 LGR4

TSS1500;TSS1500 Body

S_Shore

NEURL3 LOC100132354 PPP1R14D;PPP1R14D STX7 BAMBI

Body Body Body;Body TSS1500 Body

N_Shelf

RI PT


UCSC_REFGENE_GROUP

MICAL2 PSMB7 C6orf136;C6orf136;C6orf136 MARVELD2;MARVELD2 FAM83F CHRNA3;CHRNA3 ESD ARNT;ARNT;ARNT

SC

-0.10 -0.11 -0.10 -0.11 -0.11 -0.12 -0.10 -0.12 -0.12 -0.10 -0.13 -0.13 -0.11 -0.10 -0.11 -0.10 -0.12 -0.13 -0.15 -0.12 -0.11 -0.12 -0.13 -0.11 -0.15 -0.12 -0.11 -0.10 -0.11 -0.11 0.11 -0.10 -0.14 -0.12 0.11 -0.12 -0.11 -0.13

UCSC_REFGENE_NAME

Body Body Body;Body;Body 5'UTR;5'UTR 1stExon Body;Body TSS1500 Body;Body;Body

M AN U

0.00 -0.01 0.00 0.00 -0.01 -0.02 0.01 -0.01 -0.01 0.00 -0.01 -0.01 -0.01 0.00 -0.02 0.01 -0.02 -0.02 -0.02 0.00 -0.02 -0.01 -0.01 -0.01 -0.02 -0.02 -0.01 0.00 0.00 0.00 0.02 0.00 -0.02 -0.01 0.02 -0.01 -0.01 -0.02

CHR MAPINFO

TE D

0.10 0.10 0.10 0.11 0.10 0.10 0.11 0.11 0.11 0.10 0.13 0.12 0.11 0.10 0.10 0.11 0.11 0.11 0.13 0.12 0.10 0.11 0.12 0.10 0.13 0.10 0.11 0.10 0.11 0.12 -0.10 0.11 0.12 0.11 -0.09 0.11 0.10 0.11

Adj-Pval

ACOT7;ACOT7;ACOT7;ACOT7

Body;5'UTR;1stExon;Body

SEMA4G NHP2;NHP2

TSS1500 TSS1500;TSS1500

EP



ATP2C2 BCAR3 CD81 KSR1 PITPNM2 POU2AF1;POU2AF1 CD81 PRR15L GNG12

AC C

TargetID

Body Body TSS1500 5'UTR Body 1stExon;5'UTR TSS1500 TSS200 5'UTR

S_Shore S_Shore

S_Shore Island Island S_Shelf S_Shore

N_Shore S_Shore S_Shore S_Shore N_Shore

N_Shore

S_Shore S_Shore

ACCEPTED MANUSCRIPT


2 15 2 11 9 1 11 1 8 4 2 10 5 10 19 5 22 17 18 11 5 16 10 1 19 1 1 19 6 16 8 2 17 2 22 11 5 7

239050834 42130650 26045244 94826095 5436819 151346400 2397201 182586153 40010443 11429036 162931638 101542449 132209201 105846002 39303775 125800916 29977677 77128623 61557735 65415260 156486186 89920010 3330480 8319945 16604089 7842159 214613732 18385409 3404079 85925699 38627889 190387206 79785991 55391421 36806655 48110045 125800764 967038


KLHL30 JMJD7-PLA2G4B;JMJD7-PLA2G4B;PLA2G4B ASXL2 ENDOD1 C9orf46 SELENBP1 CD81

Body Body;Body;TSS1500 Body Body 5'UTR TSS1500 TSS1500

S_Shore

RI PT


UCSC_REFGENE_GROUP

SC

-0.10 -0.12 0.10 -0.12 -0.12 -0.10 -0.12 -0.11 -0.11 0.11 -0.15 -0.12 -0.12 -0.10 -0.12 -0.11 -0.10 -0.11 -0.09 -0.10 -0.10 -0.11 -0.11 -0.09 -0.10 -0.10 -0.11 -0.11 -0.11 -0.13 0.10 -0.12 -0.11 -0.14 -0.10 -0.10 -0.10 -0.10

UCSC_REFGENE_NAME

C8orf4 TSS1500 HS3ST1 5'UTR DPP4 TSS1500 ABCC2 TSS200 LEAP2 TSS200 COL17A1 TSS1500 LGALS4 TSS200 GRAMD3;GRAMD3;GRAMD3;GRAMD3;GRAMD3Body;5'UTR;5'UTR;Body;Body NIPSNAP1 TSS1500 HRNBP3 5'UTR SERPINB2;SERPINB2 5'UTR;5'UTR SIPA1;SIPA1 Body;Body HAVCR1;HAVCR1 TSS1500;TSS1500 SPIRE2 Body

M AN U

0.00 -0.01 0.01 -0.01 -0.01 0.00 0.01 0.00 -0.01 0.01 -0.03 -0.01 -0.01 -0.02 -0.01 0.00 -0.01 -0.01 0.01 0.00 0.01 -0.01 0.00 0.01 -0.01 0.01 0.00 0.00 -0.01 -0.01 0.00 -0.02 -0.01 -0.01 0.00 0.01 0.00 -0.01

CHR MAPINFO

TE D

0.10 0.11 -0.10 0.11 0.10 0.10 0.13 0.11 0.10 -0.10 0.12 0.11 0.11 0.09 0.11 0.11 0.09 0.10 0.10 0.10 0.11 0.10 0.11 0.10 0.09 0.11 0.11 0.10 0.10 0.13 -0.11 0.10 0.10 0.12 0.10 0.10 0.10 0.09

Adj-Pval

EP



CALR3

Body

PTPN14 KIAA1683;KIAA1683;KIAA1683 SLC22A23;SLC22A23

Body TSS200;TSS200;TSS200 Body;Body

TACC1

5'UTR

FAM195B;FAM195B

5'UTR;5'UTR

AC C

TargetID

S_Shelf N_Shore N_Shore S_Shore N_Shore S_Shore

S_Shore S_Shore S_Shore N_Shore

N_Shelf N_Shore

S_Shelf S_Shore

PTPRJ;PTPRJ Body;Body GRAMD3;GRAMD3;GRAMD3;GRAMD3;GRAMD3Body;5'UTR;TSS200;Body;Body ADAP1 Body

S_Shore

ACCEPTED MANUSCRIPT


5 4 14 7 13 5 11 19 16 11 5 6 10 4 6 6 2 22 1 10 11 11 17 16 1 2 8 8 2 8 3 11 6 10 11 17 1 16

180326142 2763026 21155679 130125836 24736095 141600994 95658469 552948 85678884 117606219 149546073 36515676 80327890 40193114 169399760 71121859 31637348 23487048 16393791 73849626 58953689 60619624 76850198 68268462 43751497 10975305 49836230 81020215 236377597 120885511 159505040 133906693 138426712 90612228 2397655 34309207 20807386 30413324


BTNL8;BTNL8;BTNL8;BTNL8;BTNL8;BTNL8;BTNL8;BTNL8;BTNL8;BTNL8 1stExon;5'UTR;1stExon;5'UTR;1stExon;5'UTR;1stExon;1stExon;5'UTR;5'UTR N_Shelf RNASE4;ANG;ANG;RNASE4 TSS1500;TSS1500;5'UTR;5'UTR S_Shelf MEST TSS1500 N_Shore SPATA13;MIR2276;SPATA13 5'UTR;TSS1500;5'UTR S_Shore MTMR2;MTMR2;MTMR2;MTMR2 KIAA0182;KIAA0182 DSCAML1 CDX1 STK38

FAM135A;FAM135A XDH RAB36 FAM131C SPOCK2;SPOCK2 DTX4 GPR44 TIMP2 ESRP2 C1orf210;C1orf210

RI PT


UCSC_REFGENE_GROUP

TSS1500;TSS1500;TSS1500;TSS1500

SC

-0.14 -0.10 -0.11 -0.10 -0.10 -0.11 -0.11 -0.12 -0.14 -0.11 -0.12 -0.11 -0.12 -0.12 -0.11 -0.10 -0.13 -0.11 -0.10 -0.14 -0.10 -0.13 -0.12 -0.11 -0.11 -0.10 -0.10 -0.13 -0.12 -0.10 -0.12 0.11 -0.10 -0.11 -0.12 -0.10 -0.11 -0.12

UCSC_REFGENE_NAME

5'UTR;Body Body TSS1500 TSS1500

M AN U

-0.02 -0.01 0.00 -0.02 0.01 -0.01 -0.01 0.00 -0.02 -0.03 0.00 0.00 -0.01 -0.02 0.00 0.00 -0.01 -0.01 -0.01 -0.02 -0.01 -0.01 0.00 -0.01 -0.01 -0.02 0.00 0.00 -0.01 0.00 -0.02 0.00 -0.01 -0.01 -0.01 0.01 -0.03 0.00

CHR MAPINFO

TE D

0.12 0.09 0.11 0.09 0.11 0.10 0.10 0.11 0.12 0.08 0.12 0.11 0.11 0.10 0.11 0.10 0.12 0.10 0.09 0.12 0.10 0.12 0.12 0.09 0.10 0.08 0.10 0.13 0.11 0.10 0.09 -0.11 0.09 0.10 0.11 0.10 0.08 0.12

Adj-Pval

EP



AC C

TargetID

TSS1500;TSS1500 Body TSS1500 Body TSS1500;TSS1500 Body 3'UTR 3'UTR Body TSS1500;TSS1500

S_Shore S_Shore S_Shelf Island S_Shore

N_Shore N_Shore S_Shore N_Shore N_Shore N_Shore

Island

TPD52;TPD52

Body;Body

DEPDC6 SCHIP1 LOC100128239 PERP ANKRD22 CD81 CCL16

TSS1500 Body Body Body TSS1500 TSS1500 TSS1500

N_Shore N_Shore N_Shore N_Shore N_Shelf S_Shore

ACCEPTED MANUSCRIPT


3 3 1 6 4 12 1 10 17 16 12 6 5 16 6 4 15 5 20 1 6 11 17 1 9 1 15 10 12 19 4 13 14 9 19 3 12 7

14941947 171791143 114429815 134357577 87895137 66442412 191740297 14716589 78152232 552754 121678558 43303332 154033185 72258237 158896790 7973701 89658904 177876930 35972957 24348512 167786592 34876740 79005047 44318844 38074955 220097971 89157815 85898649 93096819 18497143 154167187 47240378 24579958 139438290 46385115 120401058 121417986 1596260

FGD5 FNDC3B;FNDC3B BCL2L15 SLC2A12 AFF1

Body 5'UTR;5'UTR Body Body Body


RI PT


UCSC_REFGENE_GROUP

FAM107B CARD14 RAB11FIP3;RAB11FIP3 CAMKK2;CAMKK2;CAMKK2;CAMKK2;CAMKK2

SC

-0.13 -0.15 -0.13 -0.11 -0.12 -0.10 -0.14 -0.10 -0.13 -0.14 0.13 -0.13 -0.10 -0.12 -0.12 -0.11 -0.11 -0.11 -0.12 -0.11 -0.11 -0.12 -0.10 -0.11 -0.10 -0.11 -0.11 -0.12 -0.11 -0.13 -0.14 -0.13 -0.11 -0.11 -0.11 -0.12 -0.11 -0.10

UCSC_REFGENE_NAME

Body TSS200 Body;Body Body;3'UTR;3'UTR;Body;3'UTR

N_Shelf

M AN U

-0.01 -0.02 -0.01 -0.01 0.01 -0.01 -0.02 0.01 -0.01 -0.01 0.00 -0.02 0.00 -0.01 -0.02 0.00 -0.01 0.02 0.00 0.00 -0.01 0.00 -0.02 -0.01 0.01 -0.01 0.00 -0.02 -0.01 -0.01 -0.01 -0.02 0.00 0.00 0.00 0.01 -0.01 -0.01

CHR MAPINFO

TULP4;TULP4 Body;Body ABLIM2;ABLIM2;ABLIM2;ABLIM2;ABLIM2;ABLIM2 Body;Body;Body;Body;Body;Body ABHD2;ABHD2 5'UTR;5'UTR COL23A1 Body SRC TSS200 TCP10

TE D

0.12 0.13 0.11 0.10 0.13 0.10 0.12 0.11 0.12 0.13 -0.13 0.12 0.10 0.11 0.10 0.10 0.11 0.13 0.12 0.11 0.10 0.12 0.08 0.10 0.10 0.11 0.11 0.10 0.10 0.12 0.14 0.11 0.11 0.11 0.11 0.12 0.11 0.09

Adj-Pval

N_Shore

3'UTR

FLJ90757 Body N_Shore ST3GAL3;ST3GAL3;ST3GAL3;ST3GAL3;ST3GAL3;ST3GAL3;ST3GAL3;ST3GAL3;ST3GAL3;ST3GAL3 Body;Body;Body;Body;Body;Body;Body;Body;Body;Body

EP



SLC30A10

Body

N_Shelf

GHITM C12orf74 GDF15 TRIM2;TRIM2 LRCH1;LRCH1;LRCH1

TSS1500 TSS200 1stExon Body;5'UTR Body;Body;Body

N_Shore

NOTCH1

Body

N_Shelf N_Shore N_Shore

HGD;HGD HNF1A TMEM184A

1stExon;5'UTR Body TSS200

S_Shore

AC C

TargetID

Island N_Shelf

ACCEPTED MANUSCRIPT


17 6 17 12 1 11 16 12 7 1 16 12 11 5 6 1 19 19 11 4 4 12 11 6 7 14 3 1 5 1 4 21 2 9 12 1 2 15

71258589 158432894 25822056 54446019 45801852 118900111 68741748 6421667 95099917 203147367 69385827 7073240 625833 149546366 127798974 19614429 35607221 58220662 69706285 100140396 6695380 93096780 9160869 43478692 107608007 89886941 156838181 151520213 1113320 54822031 15907489 40174791 97200489 88358772 12223947 207924482 233320796 57616123

CPSF4L TSS1500 SYNJ2 Body KSR1 5'UTR HOXC4 5'UTR MUTYH;MUTYH;MUTYH;MUTYH;MUTYH;MUTYH5'UTR;Body;Body;Body;5'UTR;5'UTR SLC37A4;SLC37A4;SLC37A4;SLC37A4;SLC37A4;SLC37A4 5'UTR;5'UTR;5'UTR;1stExon;5'UTR;5'UTR

RI PT


UCSC_REFGENE_GROUP

PLEKHG6;PLEKHG6;PLEKHG6

SC

-0.12 -0.10 -0.11 -0.13 -0.14 -0.10 -0.12 -0.14 -0.10 -0.12 -0.13 -0.11 -0.11 -0.10 -0.12 -0.12 -0.11 0.12 -0.15 -0.11 -0.11 -0.11 -0.10 -0.10 -0.12 -0.12 -0.11 -0.13 -0.10 -0.13 -0.11 -0.14 -0.11 -0.14 -0.10 -0.12 -0.11 -0.11

UCSC_REFGENE_NAME

TSS200;Body;Body

TMED6 TSS200 MIR141 TSS200 MUPCDH;MUPCDH TSS1500;TSS1500 CDX1;CDX1 1stExon;5'UTR C6orf174 Body AKR7A3 Body FXYD3;FXYD3;FXYD3;FXYD3;FXYD3;FXYD3;FXYD3;FXYD3 5'UTR;5'UTR;5'UTR;5'UTR;5'UTR;5'UTR;5'UTR;5'UTR ZNF154 TSS200

M AN U

-0.01 0.00 -0.01 0.00 -0.01 0.01 -0.02 -0.01 -0.03 -0.03 0.00 -0.01 0.00 0.01 -0.01 0.00 -0.02 0.01 -0.02 -0.01 0.00 -0.01 -0.02 0.00 0.00 0.00 0.02 -0.02 -0.02 0.00 -0.01 -0.02 -0.01 -0.02 -0.02 -0.01 -0.02 -0.01

CHR MAPINFO

TE D

0.11 0.10 0.10 0.12 0.12 0.10 0.10 0.13 0.08 0.09 0.12 0.10 0.10 0.11 0.11 0.12 0.10 -0.10 0.13 0.10 0.11 0.10 0.08 0.10 0.12 0.12 0.13 0.11 0.09 0.13 0.10 0.12 0.09 0.12 0.08 0.11 0.09 0.10

Adj-Pval

ADH6;ADH6;ADH6;ADH6 S100P C12orf74 DENND5A C6orf154 LAMB1 FOXN3

EP



AC C

TargetID

TUFT1;TUFT1 SLC12A7 SSBP3;SSBP3;SSBP3

5'UTR;5'UTR;1stExon;1stExon TSS200 TSS200 3'UTR TSS1500 Body 5'UTR Body;Body TSS1500 Body;Body;Body


Island N_Shelf N_Shore S_Shore

N_Shore Island S_Shore N_Shore S_Shore N_Shore

S_Shore S_Shelf Island S_Shore Island N_Shelf N_Shore S_Shore

BCL2L14;BCL2L14;BCL2L14;BCL2L14 5'UTR;TSS1500;1stExon;TSS1500 CD46;CD46;CD46;CD46;CD46;CD46;CD46;CD46;CD46;CD46;CD46;CD46;CD46;CD46 TSS1500;TSS1500;TSS1500;TSS1500;TSS1500;TSS1500;TSS1500;TSS1500;TSS1500;TSS1500;TSS1500;TSS1500; N_Shore ALPI TSS200 N_Shelf N_Shelf

ACCEPTED MANUSCRIPT


1 11 15 16 10 17 15 6 5 18 1 7 2 10 1 2 1 22 1 7 5 5 4 11 6 17 15 16 6 16 14 19 1 1 7 17 6 12

246378510 655445 69817071 1138344 33299147 15869607 67356641 43734839 110427112 29769853 165880082 55197704 135117574 73849124 234445489 70008161 39873697 41684706 43751504 7962810 149564715 142252159 186435488 119239105 168773765 37896175 40364524 89169744 110606628 69757867 31699236 54979339 177939546 115301208 27161624 76501475 157254584 53321588

SMYD3;SMYD3 DEAF1

Body;Body Body

C1QTNF8

3'UTR

ADORA2B

Body

RI PT


UCSC_REFGENE_GROUP

SC

-0.13 -0.13 -0.11 -0.12 -0.11 -0.13 -0.13 -0.11 -0.13 -0.12 -0.11 -0.11 -0.12 -0.10 -0.11 -0.11 -0.10 -0.13 -0.11 -0.13 -0.10 -0.13 -0.11 -0.12 -0.09 -0.10 -0.09 -0.14 -0.11 -0.12 -0.10 -0.13 -0.11 -0.11 -0.11 -0.10 -0.10 -0.11

UCSC_REFGENE_NAME

WDR36 MEP1B

TSS1500 TSS200

EGFR;EGFR;EGFR;EGFR MGAT5 SPOCK2;SPOCK2 SLC35F3 ANXA4 KIAA0754;MACF1;MACF1

M AN U

-0.01 -0.02 0.00 -0.02 -0.01 -0.01 -0.02 -0.01 -0.01 0.00 -0.01 -0.01 -0.01 -0.02 -0.02 -0.01 -0.01 -0.02 0.00 -0.01 0.00 -0.01 -0.01 -0.02 0.01 0.00 0.01 0.00 -0.02 0.00 -0.01 -0.01 -0.02 0.00 0.00 0.00 0.00 -0.01

CHR MAPINFO

Body;Body;Body;Body Body TSS1500;TSS1500 Body 5'UTR TSS1500;Body;Body

C1orf210;C1orf210

TSS1500;TSS1500

ARHGAP26;ARHGAP26 PDLIM3;PDLIM3 USP2

Body;Body Body;Body Body

GRB7;GRB7

5'UTR;5'UTR

TE D

0.12 0.11 0.11 0.10 0.10 0.12 0.11 0.10 0.12 0.12 0.10 0.10 0.11 0.08 0.09 0.10 0.09 0.11 0.11 0.12 0.10 0.12 0.09 0.11 0.10 0.10 0.10 0.13 0.09 0.12 0.09 0.12 0.09 0.10 0.11 0.10 0.10 0.09

Adj-Pval

EP



AC C

TargetID


N_Shore

N_Shore N_Shelf N_Shore

S_Shore

N_Shore S_Shelf

S_Shelf S_Shelf

ACSF3;ACSF3;ACSF3 C6orf186 NQO1;NQO1;NQO1

Body;Body;Body Body Body;Body;Body

S_Shore

CDC42EP5 SEC16B CSDE1;CSDE1;CSDE1 HOXA3 DNAH17 ARID1B;ARID1B;ARID1B

5'UTR TSS1500 TSS1500;TSS1500;TSS1500 5'UTR Body Body;Body;Body

N_Shelf

N_Shelf

N_Shore S_Shelf

ACCEPTED MANUSCRIPT


9 11 7 10 17 1 4 11 19 3 4 3 19 12 6 4 5 3 17 21 16 10 16 18 11 15 15 12 9 10 11 12 5 21 1 10 1 17

129678298 64658622 95115163 126844994 48846189 16062915 110621006 45001657 4339217 153840536 151178205 169384034 5046567 7072765 137366346 84050796 71234940 119500902 16281514 40176597 69385761 3805326 21245151 3457201 126275997 93210555 86233220 109460299 130675438 11056954 93583973 16500077 1119648 36062813 26857774 21274961 19392447 38074753


RALGPS1 MIR192 ASB4;ASB4 CTBP2;CTBP2 C17orf73 SLC25A34;SLC25A34 CASP6;CASP6

5'UTR Body TSS200;TSS200 5'UTR;5'UTR TSS1500 5'UTR;1stExon Body;Body

S_Shore N_Shelf

STAP2;STAP2 SGEF DCLK2;DCLK2

RI PT


UCSC_REFGENE_GROUP

SC

-0.10 -0.12 -0.12 -0.10 -0.10 -0.11 -0.12 -0.11 -0.10 0.12 -0.12 0.11 -0.12 -0.10 -0.15 -0.12 -0.10 -0.12 -0.13 -0.10 -0.10 -0.10 -0.15 -0.13 -0.11 -0.11 0.13 -0.10 -0.11 -0.11 -0.11 -0.11 -0.11 -0.14 -0.11 -0.13 -0.12 -0.11

UCSC_REFGENE_NAME

TSS1500;TSS1500 Body 3'UTR;3'UTR

KDM4B MIR141;MIR200C IL20RA

M AN U

0.01 -0.01 0.00 0.00 -0.01 -0.01 0.00 -0.01 0.00 0.00 -0.01 0.00 -0.02 -0.01 -0.01 -0.01 -0.02 0.00 -0.02 -0.01 0.00 0.00 -0.01 0.00 0.00 -0.01 0.00 -0.02 0.00 0.00 -0.01 -0.01 -0.01 -0.01 0.00 0.00 -0.02 -0.01

CHR MAPINFO

NR1I2;NR1I2;NR1I2;NR1I2;NR1I2 ETS2 TMED6

TE D

0.10 0.11 0.12 0.10 0.09 0.11 0.12 0.10 0.11 -0.12 0.12 -0.11 0.11 0.09 0.14 0.12 0.09 0.11 0.11 0.09 0.11 0.10 0.14 0.13 0.11 0.10 -0.13 0.08 0.10 0.10 0.10 0.10 0.10 0.13 0.10 0.12 0.10 0.10

Adj-Pval

Body TSS1500;TSS200 TSS200

N_Shelf

N_Shelf

S_Shore S_Shore N_Shelf N_Shore S_Shore

1stExon;5'UTR;TSS1500;5'UTR;1stExon TSS1500 TSS200

N_Shelf N_Shore

ANKS4B 1stExon TGIF1;TGIF1;TGIF1;TGIF1;TGIF1;TGIF1;TGIF1;TGIF1 Body;Body;Body;Body;Body;Body;Body;Body ST3GAL4 5'UTR

EP



AKAP13;AKAP13;AKAP13 SVOP ST6GALNAC4;ST6GALNAC4 CUGBP2 C11orf90 MGST1;MGST1;MGST1;MGST1

Body;Body;Body TSS1500 5'UTR;Body Body TSS1500 TSS1500;5'UTR;1stExon;TSS1500

CLIC6 RPS6KA1 NEBL

Body Body Body

GSDMB;GSDMB;GSDMB;GSDMB

TSS1500;5'UTR;5'UTR;5'UTR

AC C

TargetID

S_Shore N_Shelf S_Shore

S_Shore

ACCEPTED MANUSCRIPT


6 13 5 5 1 11 10 12 2 16 17 2 5 17 11 5 1 5 14 11 6 17 11 15 1 5 3 17 2 3 16 13 17 11 11 6 1 1

30299968 74192469 179235209 135389705 154904804 76856176 126211892 130824831 238499464 81481448 43922240 233877932 176728620 73642503 70508329 173198932 160002698 125706443 99701416 1320497 46761035 16999983 129150329 42130735 17907024 143847362 182402080 76171191 75067716 156543471 71755733 40690368 4692287 65242576 46957977 47487173 168058592 51779655

TRIM39;TRIM39

Body;Body

SQSTM1;SQSTM1;MGAT4B TGFBI PMVK MYO7A;MYO7A;MYO7A LHPP;LHPP PIWIL1 RAB17;RAB17 CMIP LOC100128977;IMP5 NGEF;NGEF RAB24;RAB24 RECQL5;LOC100130933 SHANK2;SHANK2

5'UTR;5'UTR;TSS1500 Body Body Body;Body;Body Body;Body 5'UTR 1stExon;5'UTR Body Body;TSS200 1stExon;5'UTR 3'UTR;3'UTR Body;TSS200 Body;TSS1500

S_Shore

TSS1500 Body Body;Body Body TSS200 Body;Body

S_Shore

PIGM GRAMD3 BCL11B;BCL11B TOLLIP MEP1A MPRIP;MPRIP

RI PT


UCSC_REFGENE_GROUP

SC

-0.12 -0.12 -0.10 -0.11 -0.13 -0.10 -0.10 -0.10 -0.11 -0.11 -0.10 -0.10 -0.10 -0.11 0.10 -0.10 -0.11 -0.11 0.11 -0.10 -0.12 -0.12 -0.10 -0.12 -0.12 -0.11 -0.11 -0.12 -0.12 -0.10 -0.11 -0.11 -0.10 -0.12 -0.11 -0.11 -0.15 -0.11

UCSC_REFGENE_NAME

M AN U

0.00 -0.01 0.00 -0.01 -0.01 0.00 -0.01 0.00 0.00 -0.01 -0.01 -0.02 0.00 -0.02 0.00 -0.01 -0.01 -0.01 0.00 0.01 -0.01 0.00 -0.01 -0.01 0.00 0.00 -0.01 0.00 -0.01 0.00 -0.02 -0.02 0.01 -0.01 -0.01 -0.01 -0.02 -0.01

CHR MAPINFO

TE D

0.12 0.12 0.10 0.09 0.12 0.10 0.09 0.10 0.11 0.10 0.09 0.08 0.10 0.09 -0.10 0.10 0.10 0.09 -0.11 0.11 0.11 0.11 0.10 0.12 0.12 0.11 0.10 0.11 0.10 0.11 0.09 0.10 0.11 0.11 0.10 0.10 0.13 0.10

Adj-Pval

JMJD7-PLA2G4B;JMJD7-PLA2G4B;PLA2G4B ARHGEF10L;ARHGEF10L KCTD16

EP



AC C

TargetID


N_Shelf S_Shore S_Shelf

N_Shore Island

S_Shelf

S_Shore Body;Body;TSS1500 TSS200;5'UTR Body S_Shore

TK1 HK2 LEKR1

Body Body TSS1500

GLTPD2;GLTPD2

5'UTR;1stExon

C11orf49;C11orf49;C11orf49;C11orf49 CD2AP GPR161 TTC39A;TTC39A

TSS1500;TSS1500;TSS1500;TSS1500 Body Body Body;Body

N_Shore N_Shore Island N_Shelf N_Shore

ACCEPTED MANUSCRIPT


11 14 2 17 1 9 7 5 7 8 16 1 6 1 10 19 13 5 17 17 15 6 6 8 2 8 17 11 1 9 1 2 17 17 13 12 2 6

61793285 59296690 71131629 43484399 1099563 116107799 150074779 17158319 11012873 82644012 81328089 56880606 76078187 183154778 101690668 45116903 114917640 94982161 7163136 76850277 31691214 128799557 135572024 38586183 44473071 48385636 40936767 46298408 200864307 136201061 114430031 37375682 19649191 38657934 101169917 2743239 155089854 14622793

VAX2 ARHGAP27;ARHGAP27

Body TSS1500;5'UTR

RI PT


UCSC_REFGENE_GROUP

SC

-0.13 -0.12 0.10 -0.13 -0.12 -0.14 -0.10 -0.11 -0.10 -0.11 -0.10 -0.11 -0.10 -0.12 -0.11 -0.13 -0.10 -0.11 -0.12 -0.09 -0.11 -0.12 -0.12 0.10 -0.12 -0.11 0.11 -0.10 -0.11 -0.11 -0.14 -0.13 -0.11 -0.12 -0.11 -0.14 -0.11 -0.10

UCSC_REFGENE_NAME

LOC285696 PHF14;PHF14 CHMP4C

Body TSS1500;TSS1500 TSS1500

FILIP1 LAMC2;LAMC2 NCRNA00093;DNMBP

M AN U

-0.01 -0.02 0.00 -0.02 -0.01 -0.01 0.00 -0.01 0.00 0.00 0.00 0.00 -0.01 -0.03 -0.01 -0.01 0.00 0.00 -0.01 0.01 -0.02 -0.02 -0.01 0.00 -0.01 -0.01 0.01 -0.02 -0.02 0.00 0.00 0.00 0.00 -0.01 0.01 -0.02 -0.02 -0.01

CHR MAPINFO

TSS1500;TSS1500;TSS1500 3'UTR;3'UTR;3'UTR;3'UTR 3'UTR

PTPRK;PTPRK

Body;Body

TACC1;TACC1


Island S_Shore Island N_Shelf N_Shore N_Shore N_Shore

Body TSS1500;TSS1500 Body;Body

RFESD;RFESD;RFESD C17orf81;C17orf81;C17orf81;C17orf81 TIMP2

TE D

0.12 0.10 -0.10 0.11 0.11 0.13 0.10 0.10 0.10 0.11 0.10 0.11 0.09 0.09 0.10 0.12 0.10 0.11 0.11 0.10 0.08 0.10 0.11 -0.11 0.11 0.10 -0.10 0.08 0.09 0.11 0.14 0.13 0.10 0.11 0.12 0.13 0.09 0.10

Adj-Pval

EP



S_Shelf N_Shore N_Shore N_Shore S_Shore

1stExon;5'UTR

KIAA0146 Body WNK4 Body N_Shore CREB3L1 TSS1500 N_Shore C1orf106;C1orf106 5'UTR;Body S_Shelf SURF6 Body N_Shore BCL2L15;BCL2L15 1stExon;5'UTR EIF2AK2;EIF2AK2;EIF2AK2 TSS1500;5'UTR;5'UTR ALDH3A1;ALDH3A1;ALDH3A1 TSS1500;5'UTR;TSS1500 S_Shore TNS4 TSS200 PCCA;PCCA Body;Body CACNA1C;CACNA1C;CACNA1C;CACNA1C;CACNA1C;CACNA1C;CACNA1C;CACNA1C;CACNA1C;CACNA1C;CACNA1C;CACNA1C;CACNA1C;CACNA1C;CACNA1C;CAC Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;B GALNT13 Body

AC C

TargetID

ACCEPTED MANUSCRIPT


11 8 12 1 17 1 10 4 16 3 6 16 10 10 4 14 22 1 5 1 10 18 6 6 12 19 3 9 10 5 17 7 7 1 11 15 2 16

61449886 58138048 66324092 116653093 7284049 6421246 71672083 38491918 21245235 99772843 2244766 82068980 73849167 117886935 3313636 60032511 37914685 200861254 167743144 159870326 105333067 61143993 41715593 150690143 6419412 49199029 177397780 130877638 86004704 146184364 66452343 27199726 95115289 42630567 57197699 66336157 220325375 88683903


DAGLA

5'UTR

S_Shore

RI PT


UCSC_REFGENE_GROUP

HMGA2 Body C1orf161 TSS1500 TNK1 TSS1500 N_Shore ACOT7;ACOT7;ACOT7 Body;TSS1500;Body COL13A1;COL13A1;COL13A1;COL13A1;COL13A1;COL13A1;COL13A1;COL13A1;COL13A1;COL13A1;COL13A1;COL13A1;COL13A1;COL13A1;COL13A1;COL13A1;C Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;B ANKS4B C3orf26;FILIP1L;FILIP1L GMDS HSD17B2;HSD17B2 SPOCK2;SPOCK2 GFRA1;GFRA1;GFRA1 C14orf38 CARD10 C1orf106 WWC1;WWC1;WWC1 CCDC19 NEURL SERPINB5 PGC;PGC IYD;IYD;IYD;IYD;IYD;IYD PLEKHG6;PLEKHG6 FUT2;FUT2

SC

-0.11 -0.14 -0.13 -0.12 -0.11 -0.11 -0.13 -0.10 -0.10 -0.13 -0.10 -0.12 -0.11 -0.12 -0.12 -0.13 -0.12 -0.10 -0.10 -0.12 -0.12 -0.13 -0.11 -0.11 -0.12 -0.11 0.11 -0.12 -0.12 -0.11 -0.09 -0.12 -0.12 -0.10 -0.11 -0.13 0.12 -0.13

UCSC_REFGENE_NAME

Body Body;5'UTR;5'UTR Body 5'UTR;1stExon TSS1500;TSS1500 Body;Body;Body

M AN U

-0.03 -0.02 -0.01 0.00 -0.02 0.00 -0.01 0.00 0.00 -0.01 0.00 -0.02 -0.01 -0.02 -0.01 -0.02 -0.02 0.00 -0.01 -0.01 -0.01 -0.01 -0.01 -0.01 -0.01 -0.01 0.01 -0.01 -0.02 -0.01 0.01 0.00 -0.01 -0.01 0.00 -0.02 0.02 -0.02

CHR MAPINFO

TE D

0.09 0.12 0.11 0.13 0.09 0.11 0.12 0.10 0.10 0.12 0.10 0.10 0.10 0.10 0.11 0.11 0.10 0.10 0.09 0.11 0.11 0.12 0.09 0.10 0.10 0.10 -0.10 0.11 0.10 0.10 0.10 0.12 0.11 0.09 0.11 0.10 -0.10 0.11

Adj-Pval

EP



AC C

TargetID

Body Body Body Body;Body;Body TSS1500 Body TSS200 TSS1500;TSS1500 5'UTR;1stExon;1stExon;1stExon;5'UTR;5'UTR TSS1500;TSS200 TSS200;TSS200

RGR;RGR;RGR TSS200;TSS200;TSS200 PPP2R2B;PPP2R2B;PPP2R2B;PPP2R2B;PPP2R2B;PPP2R2B;PPP2R2B Body;Body;Body;Body;Body;Body;Body WIPI1 Body ASB4;ASB4 GUCA2A

1stExon;1stExon TSS200

MEGF11 SPEG ZC3H18

Body Body Body

N_Shore S_Shore S_Shore S_Shelf N_Shore S_Shore S_Shore

N_Shore N_Shore

N_Shore Island

S_Shelf S_Shelf

ACCEPTED MANUSCRIPT


1 11 17 1 5 12 11 22 11 19 12 10 11 11 10 11 5 12 2 8 18 7 3 1 7 11 5 22 14 10 12 6 22 15 9 2 6 17

1080611 64659060 76522937 86174607 16881431 48302191 111783563 46660593 96065844 58220657 52641212 96442154 46740032 124790815 85712041 393938 87955618 50596347 147789639 74332435 21453131 27162294 27086812 162351976 29648885 112035945 94982211 38506771 92041829 115514781 13025369 30131971 38506712 78609021 75213807 242833228 138821354 76164111

MIR192;MIR194-2 DNAH17 ZNHIT6;ZNHIT6 MYO10

TSS1500;TSS200 Body TSS1500;TSS1500 Body

CRYAB;HSPB2 PKDREJ MAML2 ZNF154 KRT7 CYP2C18;CYP2C18 F2 HEPACAM

TSS1500;1stExon TSS1500 Body TSS200 Body TSS1500;TSS1500 TSS1500 3'UTR

PKP3 LOC645323 LIMA1;LIMA1;LIMA1

RI PT


UCSC_REFGENE_GROUP

SC

-0.15 -0.11 -0.12 -0.13 -0.12 -0.12 0.12 -0.10 -0.10 0.11 -0.10 -0.11 -0.11 0.10 -0.10 -0.11 0.11 -0.14 -0.13 -0.11 -0.10 -0.11 -0.12 -0.11 -0.12 -0.10 -0.12 -0.11 -0.11 -0.13 -0.10 -0.12 -0.11 -0.11 -0.10 -0.11 -0.11 -0.11

UCSC_REFGENE_NAME

M AN U

-0.03 -0.01 -0.01 -0.01 -0.01 -0.01 0.01 0.01 0.01 0.01 -0.01 -0.02 -0.01 0.00 0.00 -0.01 0.02 -0.01 -0.02 -0.01 0.00 -0.01 0.01 -0.01 -0.02 0.00 0.00 0.00 -0.02 -0.01 -0.01 -0.02 0.00 -0.02 0.00 -0.01 0.00 -0.01

CHR MAPINFO

TE D

0.13 0.10 0.11 0.12 0.11 0.11 -0.11 0.11 0.11 -0.09 0.09 0.09 0.10 -0.10 0.10 0.10 -0.09 0.13 0.10 0.11 0.10 0.10 0.13 0.10 0.10 0.11 0.12 0.11 0.09 0.12 0.10 0.10 0.11 0.09 0.11 0.10 0.11 0.10

Adj-Pval

TSS1500 Body Body;Body;Body

LAMA3;LAMA3;LAMA3;LAMA3 HOXA3

1stExon;1stExon;Body;Body 5'UTR

C1orf226;C1orf226

Body;1stExon

IL18 RFESD;RFESD;RFESD BAIAP2L2 C14orf184 C10orf81

TSS1500 TSS1500;TSS1500;TSS1500 TSS200 TSS1500 5'UTR

TRIM15 BAIAP2L2

Body TSS200

TMC1

5'UTR

NHSL1;NHSL1 SYNGR2

TSS1500;Body TSS1500

EP



AC C

TargetID


N_Shelf S_Shore S_Shelf S_Shore S_Shore S_Shore

Island N_Shore N_Shore

Island

N_Shore S_Shore

Island N_Shore

ACCEPTED MANUSCRIPT


15 2 4 2 11 1 12 17 10 19 13 7 7 11 6 17 4 8 17 15 4 1 15 5 1 17 1 21 6 10 12 6 17 8 8 5 16 15

69457701 97171383 6695698 210822981 2482142 54742754 53320632 80796712 105127192 36303880 114103452 143106577 16887412 64658726 31025949 26127438 87812668 102898712 56454528 79471484 11428985 199996237 57414740 43412465 226068334 76138514 204301278 42614392 106434131 82050672 57443622 168789714 57642749 82607505 22963367 179468715 52596676 50116359


MIR548H4;GLCE NEURL3 S100P UNC80;UNC80 KCNQ1;KCNQ1 SSBP3;SSBP3;SSBP3

Body;5'UTR Body 1stExon Body;Body TSS1500;Body Body;Body;Body

S_Shelf N_Shelf

RI PT


UCSC_REFGENE_GROUP

TBCD;ZNF750 TAF5 PRODH2 ADPRHL1;ADPRHL1;ADPRHL1 EPHA1

SC

-0.12 -0.10 -0.10 -0.13 -0.11 -0.11 -0.13 -0.12 -0.11 -0.10 -0.11 -0.13 -0.12 -0.13 -0.11 -0.10 -0.11 -0.10 -0.14 -0.10 0.10 -0.14 -0.12 -0.11 -0.11 -0.11 -0.12 -0.11 0.11 -0.11 -0.12 -0.10 0.12 -0.10 -0.11 -0.11 -0.12 -0.12

UCSC_REFGENE_NAME

Body;5'UTR TSS1500 Body 1stExon;5'UTR;Body TSS1500

M AN U

-0.02 -0.01 0.01 -0.02 0.00 0.00 -0.01 -0.01 -0.02 0.01 -0.01 0.00 -0.01 -0.02 -0.01 -0.02 -0.01 0.00 -0.01 -0.01 0.00 -0.03 0.00 -0.01 -0.01 -0.01 -0.01 0.00 0.01 0.00 -0.01 0.00 0.02 0.02 -0.01 -0.01 -0.01 0.01

CHR MAPINFO

MIR192 TSS200 HCG22 Body NOS2;NOS2 1stExon;5'UTR C4orf36 Body NCALD;NCALD;NCALD;NCALD;NCALD;NCALD;NCALD 5'UTR;5'UTR;5'UTR;5'UTR;5'UTR;5'UTR;5'UTR RNF43 Body

TE D

0.10 0.09 0.10 0.11 0.11 0.11 0.12 0.11 0.10 0.11 0.10 0.12 0.11 0.11 0.10 0.08 0.10 0.10 0.13 0.09 -0.10 0.11 0.11 0.09 0.11 0.09 0.11 0.12 -0.10 0.11 0.11 0.10 -0.10 0.11 0.10 0.09 0.11 0.13

Adj-Pval

HS3ST1 NR5A2;NR5A2 TCF12;TCF12;TCF12;TCF12 CCL28;CCL28 TMEM63A TMC8 PLEKHA6 BACE2;BACE2;BACE2

5'UTR TSS1500;TSS1500 Body;Body;Body;Body 5'UTR;1stExon 5'UTR 3'UTR 5'UTR Body;Body;Body

MAT1A MYO1A

TSS1500 5'UTR

DHX40;DHX40 SLC10A5 TNFRSF10C RNF130

TSS200;TSS200 TSS1500 Body Body

EP



AC C

TargetID

N_Shore

N_Shelf N_Shelf

N_Shore

N_Shore

N_Shore S_Shore N_Shelf Island

Island S_Shelf

ACCEPTED MANUSCRIPT


7 12 1 19 1 18 1 11 20 4 16 7 19 6 17 2 3 1 2 8 17 11 17 5 20 15 1 6 5 15 11 7 16 1 14 2 7 12

95060347 6421806 8087590 45512122 116854912 55466071 42630436 2397614 30196714 153943474 21244898 73244836 38757961 131386869 48581622 238392110 71084634 154736223 219187374 144094955 39685524 66138472 43922210 601900 56272862 53087232 942161 137366492 1239687 40364740 1855746 966081 15993454 95561502 100795263 134326366 2669915 94577837


PON2;PON2 PLEKHG6;PLEKHG6;PLEKHG6 ERRFI1 RELB

Body;Body TSS200;Body;Body TSS1500 Body

N_Shelf S_Shore S_Shore N_Shelf

GUCA2A CD81

TSS200 TSS1500

ANKS4B CLDN4 SPINT2;SPINT2

FOXP1 KCNN3;KCNN3 PNKD;PNKD LOC100133669 KRT19 SLC29A2 LOC100128977;IMP5

RI PT


UCSC_REFGENE_GROUP

SC

-0.11 -0.10 -0.11 -0.12 -0.11 -0.13 -0.12 -0.11 -0.10 -0.12 -0.13 -0.11 -0.10 -0.11 -0.10 -0.11 -0.11 -0.11 -0.15 -0.11 -0.10 -0.10 -0.10 -0.11 -0.11 0.12 -0.11 -0.11 -0.12 -0.11 -0.11 -0.11 -0.12 -0.11 -0.11 -0.10 -0.10 -0.12

UCSC_REFGENE_NAME

TSS200 TSS1500 Body;Body

M AN U

-0.01 -0.01 0.01 0.00 -0.01 -0.02 -0.01 0.00 0.00 -0.02 -0.01 -0.01 -0.01 -0.01 -0.01 0.00 0.00 0.01 -0.03 0.00 -0.02 -0.01 -0.02 -0.01 0.00 0.02 -0.01 -0.02 -0.01 -0.01 -0.01 -0.01 -0.03 0.00 -0.01 -0.02 0.00 0.00

CHR MAPINFO

TE D

0.10 0.09 0.12 0.12 0.10 0.12 0.10 0.11 0.10 0.10 0.12 0.10 0.10 0.10 0.10 0.10 0.11 0.12 0.12 0.11 0.09 0.09 0.08 0.10 0.11 -0.10 0.10 0.10 0.12 0.09 0.10 0.10 0.09 0.11 0.09 0.09 0.10 0.12

Adj-Pval

EP



PMEPA1;PMEPA1;PMEPA1;PMEPA1

AC C

TargetID

Body Body;Body TSS1500;Body Body TSS1500 Body Body;TSS200

N_Shelf N_Shore S_Shore

N_Shore S_Shelf S_Shelf N_Shelf N_Shelf S_Shelf N_Shore S_Shore N_Shore N_Shore

5'UTR;5'UTR;Body;Body Island

IL20RA SLC6A18

TSS200 Body

S_Shore N_Shelf

SYT8;SYT8 ADAP1

1stExon;5'UTR Body

Island

C14orf68 NCKAP5;NCKAP5

Body TSS1500;TSS1500

PLXNC1

Body

Island N_Shore N_Shelf

ACCEPTED MANUSCRIPT


15 2 4 13 20 9 1 11 5 10 10 1 17 5 4 21 2 22 4 12 8 6 17 1 11 12 17 16 16 13 2 16 16 15 11 6 1 18

43785974 46925129 6695319 73635568 17512795 138624832 1100493 2397562 16738125 32478850 121077022 43158097 19649293 52283760 88340947 43098901 70784562 38506589 128981252 53955664 95221197 26017939 55483894 94789974 117947555 51701979 37789575 3211519 19727911 46717068 135011522 2769484 84076834 73077046 117947877 30132133 226078135 61143945


TP53BP1;TP53BP1;TP53BP1 SOCS5;SOCS5 S100P KLF5 BFSP1;BFSP1 KCNT1

TSS1500;TSS1500;5'UTR TSS1500;TSS1500 TSS1500 Body Body;TSS1500 Body

S_Shore N_Shore

RI PT


UCSC_REFGENE_GROUP

CD81 MYO10

SC

-0.11 -0.10 -0.11 -0.09 -0.10 -0.10 -0.10 -0.10 -0.15 -0.11 -0.11 -0.14 -0.12 -0.11 -0.12 -0.10 -0.10 -0.14 -0.12 -0.12 -0.12 0.12 -0.10 -0.13 -0.12 -0.13 -0.12 -0.13 -0.11 -0.12 -0.11 -0.10 -0.10 -0.10 -0.10 -0.11 -0.11 -0.14

UCSC_REFGENE_NAME

TSS1500 Body

GRK5 YBX1 ALDH3A1;ALDH3A1;ALDH3A1 ITGA2 NCRNA00111

Body Body TSS1500;5'UTR;TSS1500 TSS1500

M AN U

-0.01 0.00 0.01 0.02 0.00 0.00 -0.01 0.01 -0.01 -0.01 -0.02 -0.02 -0.01 -0.01 -0.01 0.00 0.00 -0.01 -0.02 -0.01 0.01 0.02 -0.02 -0.04 -0.01 -0.01 0.00 -0.02 -0.01 0.00 0.01 -0.01 -0.01 -0.01 -0.01 -0.01 -0.01 -0.02

CHR MAPINFO

S_Shore S_Shore N_Shore Island N_Shore

S_Shore N_Shore N_Shelf

TSS1500

BAIAP2L2;BAIAP2L2 LARP1B;LARP1B;LARP1B ATF7;ATF7;ATF7 CDH17;CDH17 HIST1H1A MSI2;MSI2

TE D

0.10 0.10 0.11 0.11 0.10 0.10 0.10 0.11 0.13 0.11 0.10 0.12 0.11 0.10 0.11 0.10 0.10 0.13 0.11 0.10 0.13 -0.10 0.08 0.10 0.11 0.12 0.11 0.11 0.10 0.12 0.12 0.09 0.09 0.09 0.09 0.10 0.09 0.12

Adj-Pval

EP



TMPRSS4;TMPRSS4 BIN2 PPP1R1B;PPP1R1B

AC C

TargetID

IQCK;C16orf88 LCP1 MGAT5 PRSS27 SLC38A8 ADPGK;ADPGK;ADPGK TMPRSS4;TMPRSS4;TMPRSS4;TMPRSS4 TRIM15 LEFTY1 SERPINB5

1stExon;5'UTR TSS1500;TSS1500;TSS1500 Body;Body;Body TSS1500;5'UTR 1stExon Body;Body TSS200;TSS200 Body Body;Body 5'UTR;5'UTR Body TSS1500 Body TSS1500 TSS1500;TSS1500;TSS1500 5'UTR;1stExon;1stExon;5'UTR Body TSS1500 TSS200

S_Shelf N_Shore

N_Shelf

N_Shelf S_Shelf N_Shore

N_Shore S_Shore

S_Shelf

ACCEPTED MANUSCRIPT


11 19 7 7 1 11 4 16 19 13 3 17 5 1 2 19 1 1 9 1 11 11 12 8 4 17 11 3 15 17 1 2 13 12 7 8 12 20

624603 4835716 135458419 130600075 153588782 45733155 76640579 85455911 46418849 76279228 99721850 36813786 601540 205645246 85696201 51195418 212457424 213831368 84202866 17907265 117800255 86508399 89915527 40010631 68995759 40715244 96012039 42172097 72039838 76501381 26217268 164800141 111178359 53300293 8482235 67688534 104679483 35973064


MUPCDH;MUPCDH

Body;Body

N_Shore S_Shelf

S100A14;S100A14

5'UTR;1stExon

NANOS2 LMO7 C3orf26;FILIP1L;FILIP1L

SLC45A3 SHANK1 PPP2R5A

RI PT


UCSC_REFGENE_GROUP

SC

-0.10 -0.10 -0.13 -0.12 -0.11 -0.10 0.10 -0.12 -0.11 -0.12 -0.10 -0.10 -0.10 -0.11 -0.14 -0.10 -0.11 -0.11 -0.13 -0.11 -0.12 -0.11 -0.11 -0.11 -0.10 -0.10 -0.11 -0.14 -0.14 -0.13 -0.12 -0.11 -0.10 -0.12 0.11 -0.11 -0.12 -0.12

UCSC_REFGENE_NAME

TSS1500 Body Body;5'UTR;5'UTR

M AN U

-0.01 -0.01 -0.01 -0.02 -0.01 -0.01 0.02 0.00 -0.02 -0.02 0.00 -0.01 -0.01 0.01 -0.02 0.00 -0.01 -0.01 -0.02 -0.01 -0.02 -0.02 0.00 -0.01 0.00 0.00 -0.01 -0.02 -0.03 -0.02 -0.02 -0.02 -0.01 -0.01 0.01 0.00 -0.01 0.00

CHR MAPINFO

S_Shore

5'UTR

N_Shore N_Shelf

Body TSS1500

N_Shelf N_Shore

TLE1 ARHGEF10L;ARHGEF10L TMPRSS13

Body Body;Body TSS200

WDR51B;GALNT4;GALNT4 C8orf4 TMPRSS11F COASY;COASY;COASY;COASY;COASY MAML2 TRAK1 THSD4 DNAH17 STMN1

Body;3'UTR;1stExon TSS1500 TSS200 1stExon;Body;Body;Body;5'UTR Body Body Body Body Body

RAB20 KRT8 NXPH1 SGK3;SGK3;SGK3 TXNRD1;TXNRD1;TXNRD1;TXNRD1;TXNRD1 SRC;SRC

Body TSS1500 Body 5'UTR;5'UTR;5'UTR TSS1500;TSS1500;Body;TSS1500;TSS1500 TSS1500;TSS200

TE D

0.10 0.10 0.11 0.10 0.11 0.09 -0.09 0.11 0.09 0.10 0.10 0.09 0.10 0.11 0.12 0.10 0.10 0.10 0.11 0.10 0.10 0.10 0.11 0.10 0.10 0.10 0.10 0.12 0.11 0.11 0.10 0.08 0.09 0.11 -0.09 0.11 0.11 0.12

Adj-Pval

EP



AC C

TargetID

N_Shelf N_Shelf

Island

S_Shelf

S_Shelf Island S_Shore N_Shore N_Shore

ACCEPTED MANUSCRIPT


1 11 15 10 3 4 11 17 11 11 1 12 7 12 16 3 16 17 9 14 17 5 16 2 10 8 5 3 19 3 2 11 6 6 10 2 17 12

116653300 117947459 69853722 63382047 38175456 106473040 63137152 37784895 64659044 128318549 27187994 53343514 74024953 12223661 82068803 138683375 2587080 40949811 138136386 65409452 39929383 149546331 21244915 21320297 22040307 95221342 127294693 119065177 3671118 14331576 192711243 2464954 11188760 150689918 52645408 213777611 38290796 52115678

C1orf161 TMPRSS4;TMPRSS4 LOC145837

TSS1500 TSS1500;TSS1500 TSS1500

ACAA1;ACAA1;ACAA1 FLJ20184 SLC22A9 PPP1R1B;PPP1R1B;PPP1R1B MIR192;MIR194-2

Body;Body;Body TSS1500 TSS200 5'UTR;Body;1stExon TSS1500;TSS200

KRT18;KRT18

Body;Body

BCL2L14;BCL2L14;BCL2L14 HSD17B2 PDPK1;PDPK1 CNTD1;CCDC56 GPX2;GPX2 JUP;JUP CDX1 ANKS4B

RI PT


UCSC_REFGENE_GROUP

SC

-0.12 -0.11 -0.11 -0.11 -0.12 -0.12 -0.11 -0.13 -0.11 -0.10 -0.11 -0.11 -0.10 -0.13 -0.10 -0.12 -0.10 -0.13 -0.11 -0.11 -0.11 -0.11 -0.12 -0.11 -0.12 -0.11 -0.11 -0.12 0.11 -0.11 0.11 -0.11 -0.15 -0.15 -0.13 -0.10 -0.11 0.11

UCSC_REFGENE_NAME

M AN U

-0.01 -0.02 -0.01 0.00 -0.02 -0.02 -0.01 -0.01 -0.01 0.01 -0.02 -0.01 -0.01 -0.01 -0.01 -0.02 0.00 0.00 -0.01 0.00 -0.01 0.00 -0.01 -0.01 -0.01 -0.01 -0.01 -0.01 0.01 -0.01 0.00 -0.01 -0.02 -0.02 -0.01 -0.01 0.01 0.01

CHR MAPINFO

TE D

0.11 0.10 0.11 0.11 0.10 0.10 0.09 0.11 0.09 0.10 0.09 0.10 0.10 0.12 0.09 0.11 0.10 0.12 0.10 0.11 0.10 0.11 0.11 0.10 0.12 0.10 0.10 0.11 -0.10 0.09 -0.11 0.10 0.13 0.13 0.12 0.09 0.12 -0.09

Adj-Pval

EP



CDH17;CDH17


N_Shelf

S_Shore N_Shelf N_Shelf N_Shore S_Shore S_Shelf

TSS1500;TSS1500;TSS1500 TSS200 TSS1500;TSS1500 TSS1500;3'UTR 1stExon;5'UTR 5'UTR;5'UTR TSS200 TSS200

S_Shelf N_Shore N_Shore S_Shore

Island

TSS1500;5'UTR

AC C

TargetID

CDGAP PIP5K1C

Body Body

SDPR KCNQ1 NEDD9;NEDD9 IYD;IYD;IYD A1CF;A1CF;A1CF;A1CF;A1CF;A1CF

1stExon TSS1500 Body;Body TSS200;TSS200;TSS200 5'UTR;1stExon;5'UTR;5'UTR;1stExon;1stExon

MSL1 SCN8A

3'UTR Body

N_Shore

N_Shore

Island

ACCEPTED MANUSCRIPT


12 11 6 13 3 12 6 1 11 11 16 17 19 12 16 1 12 2 17 16 1 13 11 1 22 5 14 17 5 17 3 16 11 2 17 6 4 19

13159685 131903650 168592971 28025757 13465878 13200089 76073316 233495166 102664716 67442249 89164953 73553911 57751591 65044027 4103161 151486487 49189285 228678693 76171208 11690918 156030809 111468250 129907308 59280290 21310727 160061746 100655244 19649004 1107577 46034455 193272561 72034122 8190152 238795355 26127480 30538179 154064784 36523584

NTM;NTM;NTM;NTM

Body;Body;Body;Body

MTIF3;MTIF3;MTIF3;MTIF3

TSS1500;TSS1500;TSS1500;TSS1500

KIAA1467 FILIP1 KIAA1804 MMP1;MMP1 ALDH3B2;ALDH3B2 ACSF3;ACSF3;ACSF3 LLGL2;LLGL2;LLGL2 ZNF805;ZNF805 RASSF3 ADCY9 CGN

Body Body Body Body;Body 5'UTR;TSS200 Body;5'UTR;5'UTR Body;Body;Body TSS1500;TSS1500 Body Body 5'UTR

CCL20;CCL20 TK1 RAB25

RI PT


UCSC_REFGENE_GROUP

SC

-0.11 -0.12 -0.11 -0.10 -0.12 -0.12 -0.11 -0.12 -0.11 -0.10 -0.10 -0.12 0.10 -0.10 -0.17 -0.12 -0.11 -0.12 -0.12 -0.10 -0.11 -0.10 -0.11 -0.13 -0.10 -0.12 -0.10 -0.13 -0.10 -0.10 -0.12 -0.11 0.11 0.10 -0.11 -0.10 -0.10 0.12

UCSC_REFGENE_NAME

M AN U

-0.01 -0.01 -0.01 0.01 -0.01 -0.01 -0.01 -0.04 -0.01 -0.01 -0.01 -0.01 0.01 -0.01 -0.01 -0.01 -0.01 -0.01 0.00 -0.01 -0.01 0.00 -0.02 -0.01 -0.01 -0.01 0.00 -0.02 -0.01 -0.01 -0.02 0.00 0.01 0.00 -0.01 0.00 -0.01 0.01

CHR MAPINFO

TE D

0.10 0.11 0.10 0.11 0.11 0.11 0.10 0.08 0.09 0.09 0.09 0.12 -0.10 0.09 0.17 0.11 0.09 0.12 0.11 0.09 0.09 0.11 0.09 0.12 0.09 0.11 0.10 0.11 0.09 0.10 0.10 0.11 -0.09 -0.10 0.09 0.10 0.09 -0.11

Adj-Pval

EP



ATP10B

AC C

TargetID


S_Shore S_Shore S_Shelf S_Shelf N_Shelf

N_Shelf N_Shore

S_Shelf

1stExon;1stExon Body TSS200 S_Shelf N_Shelf Island N_Shore Body

ALDH3A1;ALDH3A1;ALDH3A1 SLC12A7 PRR15L ATP13A4 PKD1L3 RIC3;RIC3 RAMP1 NOS2;NOS2 ABCF1;ABCF1

5'UTR;TSS1500;TSS200 Body 5'UTR 1stExon TSS1500 Body;Body Body 1stExon;5'UTR TSS1500;TSS1500

CLIP3

5'UTR

N_Shelf S_Shore N_Shore

N_Shore

N_Shore Island

ACCEPTED MANUSCRIPT


1 2 2 17 10 2 7 4 20 14 17 4 3 19 7 4 7 8 1 1 2 1 14 7 20 3 9 11 6 2 2 12 11 20 2 9 11 17

209825731 21269910 74153195 56496039 123923066 201124405 95115232 100140325 3149278 94759646 80289631 154125720 30734274 35607180 6313050 143470771 16844606 37822562 177939251 1179747 157195307 203671140 54687160 27199752 61002657 111804343 132371257 63057478 64226341 17938848 233878150 2743145 75133593 49345567 201242945 86236624 704987 78152466

LAMB3;LAMB3;LAMB3;LAMB3

1stExon;TSS1500;5'UTR;TSS200

DGUOK;DGUOK RNF43 TACC2;TACC2;TACC2;TACC2

TSS1500;TSS1500 TSS1500 Body;TSS200;TSS200;Body

RI PT


UCSC_REFGENE_GROUP

ASB4;ASB4 TSS200;TSS200 ADH6;ADH6;ADH6;ADH6 5'UTR;5'UTR;1stExon;1stExon ProSAPiP1 TSS200 SERPINA10;SERPINA10 TSS1500;TSS200 SECTM1 5'UTR TRIM2;TRIM2 Body;5'UTR TGFBR2;TGFBR2 3'UTR;3'UTR FXYD3;FXYD3;FXYD3;FXYD3;FXYD3;FXYD3;FXYD3;FXYD3 5'UTR;5'UTR;5'UTR;5'UTR;5'UTR;5'UTR;5'UTR;5'UTR CYTH3 TSS1500 INPP4B;INPP4B 5'UTR;5'UTR AGR2;AGR2 5'UTR;1stExon ADRB3 Body SEC16B TSS1500 FAM132A Body

SC

-0.10 -0.10 -0.12 -0.11 0.12 -0.11 -0.12 -0.11 -0.09 -0.12 -0.12 -0.13 -0.11 -0.11 -0.11 -0.12 -0.11 0.11 -0.12 -0.12 -0.11 -0.12 0.11 -0.11 -0.11 -0.13 -0.12 -0.10 -0.11 -0.11 -0.11 -0.12 -0.10 -0.12 -0.11 -0.14 -0.10 -0.10

UCSC_REFGENE_NAME

M AN U

0.00 0.01 0.01 -0.02 0.01 0.00 -0.01 -0.01 0.02 -0.01 -0.01 -0.01 -0.02 -0.01 0.00 -0.02 -0.01 0.01 -0.02 -0.02 -0.01 -0.03 0.00 0.01 -0.01 -0.01 -0.01 -0.01 0.00 -0.01 -0.01 -0.02 0.00 -0.01 0.00 -0.01 0.01 -0.01

CHR MAPINFO

TE D

0.10 0.11 0.13 0.09 -0.12 0.11 0.11 0.10 0.11 0.10 0.10 0.11 0.09 0.10 0.11 0.10 0.10 -0.10 0.11 0.10 0.10 0.09 -0.11 0.12 0.10 0.12 0.10 0.10 0.11 0.10 0.10 0.09 0.10 0.11 0.11 0.13 0.10 0.09

Adj-Pval

ATP2B4;ATP2B4

EP



C20orf151 C3orf52

AC C

TargetID

SLC22A10;SLC22A10


S_Shelf N_Shore Island

S_Shore N_Shore

S_Shore

Island S_Shore N_Shelf

Body;Body Island TSS200 TSS1500

N_Shore N_Shore

5'UTR;1stExon

GEN1;GEN1 5'UTR;5'UTR S_Shelf NGEF TSS200 CACNA1C;CACNA1C;CACNA1C;CACNA1C;CACNA1C;CACNA1C;CACNA1C;CACNA1C;CACNA1C;CACNA1C;CACNA1C;CACNA1C;CACNA1C;CACNA1C;CACNA1C;CAC Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;Body;B KLHL35 3'UTR N_Shelf N_Shore SPATS2L;SPATS2L;SPATS2L;SPATS2L 5'UTR;5'UTR;5'UTR;5'UTR C9orf103 TSS1500 N_Shore EPS8L2 TSS1500 N_Shore CARD14 5'UTR N_Shelf

ACCEPTED MANUSCRIPT


1 1 1 6 5 2 7 1 19 13 9 5 6 1 2 20 1 7 10 12 11 7 12 15 10 1 8 12 6 3 1 12 7 1 17 18 9 2

209825849 220132315 162351664 144982324 173930869 233877857 87855714 100436724 39303993 111561018 92050313 175976214 137366432 16470667 219840349 43036036 20307002 95115194 85958429 51794933 2397597 2731774 130821453 69854024 114846876 200863686 102090315 123446272 26018074 128723491 20141781 107774298 66105984 1646882 39678394 61144150 116150138 200604518

LAMB3;LAMB3;LAMB3

TSS200;TSS1500;TSS200

C1orf226;C1orf226;C1orf226 UTRN

5'UTR;Body;1stExon Body

NGEF;NGEF SRI SLC35A3 LGALS4 ANKRD10 SEMA4D;SEMA4D PCDH24 IL20RA EPHA2 LOC151300;LOC151300 HNF4A;HNF4A;HNF4A;HNF4A;HNF4A;HNF4A PLA2G2A;PLA2G2A;PLA2G2A;PLA2G2A ASB4;ASB4 PCDH21

1stExon;5'UTR Body 5'UTR TSS1500 Body 5'UTR;5'UTR TSS200 TSS200 Body TSS1500;TSS1500 Body;Body;Body;Body;Body;Body TSS1500;TSS200;TSS200;TSS200 TSS200;TSS200 Body

CD81 AMZ1 PIWIL1 LOC145837 TCF7L2;TCF7L2;TCF7L2;TCF7L2;TCF7L2;TCF7L2 C1orf106;C1orf106

TSS1500 5'UTR TSS1500 TSS200 Body;Body;Body;Body;Body;Body TSS1500;Body

ABCB9;ABCB9;ABCB9 5'UTR;5'UTR;5'UTR HIST1H1A TSS200 CCDC48 Body RNF186 TSS200 BTBD11 Body KCTD7;KCTD7 3'UTR;3'UTR CDK11A;CDK11B;CDK11B;CDK11B;CDK11B;CDK11A;CDK11B;CDK11B Body;Body;Body;Body;Body;Body;Body;5'UTR SERPINB5;SERPINB5 ALAD


RI PT


UCSC_REFGENE_GROUP

SC

-0.11 -0.15 -0.12 -0.14 -0.10 -0.12 -0.13 -0.11 -0.11 -0.11 -0.11 -0.10 -0.12 -0.11 -0.10 -0.10 -0.12 -0.11 -0.12 -0.13 -0.10 -0.10 -0.11 -0.11 -0.12 -0.11 -0.11 -0.12 0.11 -0.12 -0.11 -0.11 -0.11 -0.11 -0.10 -0.13 -0.13 -0.10

UCSC_REFGENE_NAME

M AN U

0.00 -0.01 -0.01 -0.02 -0.02 -0.01 -0.01 -0.01 -0.01 0.00 -0.01 -0.01 0.00 0.00 0.00 0.00 -0.03 -0.01 -0.02 -0.02 0.01 0.00 -0.01 0.00 -0.02 -0.01 -0.01 -0.01 0.00 -0.02 -0.02 -0.03 0.00 -0.01 -0.01 -0.01 -0.01 -0.01

CHR MAPINFO

TE D

0.11 0.14 0.11 0.11 0.09 0.10 0.12 0.10 0.10 0.11 0.10 0.10 0.12 0.10 0.10 0.10 0.09 0.10 0.10 0.11 0.11 0.10 0.10 0.11 0.11 0.11 0.11 0.11 -0.11 0.11 0.09 0.08 0.11 0.10 0.10 0.12 0.12 0.09

Adj-Pval

EP



AC C

TargetID

1stExon;5'UTR 3'UTR

S_Shore

S_Shore

S_Shelf N_Shore S_Shelf N_Shore

S_Shelf N_Shelf S_Shore N_Shelf S_Shore

S_Shelf

ACCEPTED MANUSCRIPT


1 6 19 11 20 9 7 1 11 9 15 17 22 6 10 12 2 15 17 1 15 4 2 3 10 1 2 1 1 1 6 1 15 4 1 4 11 3

1099630 160675744 48389562 2464851 62727043 100952835 35043782 151170306 94270260 22203744 45671155 38347816 30812642 32087190 101754325 93096811 53331760 40641810 4042717 220132478 62853598 22516158 55458694 172416062 7383727 183484105 55366440 26504548 27189270 19661425 170575662 40033143 29963223 26240502 3376815 170173209 125933690 169587454

SLC22A2 SULT2A1;SULT2A1 KCNQ1 OPRL1;OPRL1 CORO2A DPY19L1 PIP5K1A;PIP5K1A;PIP5K1A;PIP5K1A

Body 1stExon;5'UTR TSS1500 Body;Body 5'UTR Body TSS1500;TSS1500;TSS1500;TSS1500

LOC145663;GATM RAPGEFL1 SEC14L2;SEC14L2 ATF6B;ATF6B DNMBP C12orf74 PHGR1 ZZEF1

RI PT


UCSC_REFGENE_GROUP

SC

-0.10 -0.11 -0.11 -0.10 -0.10 -0.11 -0.13 -0.10 -0.10 -0.11 0.10 0.11 -0.11 -0.10 0.10 -0.11 -0.10 -0.11 -0.13 -0.10 -0.11 -0.11 -0.11 -0.11 -0.10 -0.14 -0.11 -0.10 -0.11 -0.12 -0.11 -0.11 -0.11 -0.10 -0.10 -0.13 -0.10 -0.14

UCSC_REFGENE_NAME

Body;TSS200 Body Body;3'UTR Body;Body 5'UTR TSS200

M AN U

-0.01 -0.01 -0.02 -0.01 -0.01 -0.01 -0.02 0.01 0.00 -0.01 0.01 -0.02 -0.01 0.00 0.00 -0.01 0.00 -0.02 0.00 -0.02 -0.01 0.01 -0.03 -0.01 0.01 -0.02 -0.01 -0.01 -0.01 -0.02 0.00 -0.02 0.00 0.00 -0.01 -0.01 0.02 -0.02

CHR MAPINFO

TE D

0.09 0.09 0.09 0.10 0.09 0.10 0.11 0.11 0.10 0.10 -0.09 -0.13 0.11 0.10 -0.10 0.10 0.11 0.09 0.13 0.09 0.10 0.12 0.09 0.10 0.11 0.12 0.11 0.09 0.10 0.10 0.11 0.09 0.11 0.10 0.09 0.12 0.12 0.11

Adj-Pval

GPR125 C2orf63;RPS27A;RPS27A;C2orf63 NCEH1;NCEH1;NCEH1;NCEH1 SFMBT2 SMG7;SMG7;SMG7

EP



AC C

TargetID

TSS1500 Body

Body 5'UTR;TSS1500;TSS1500;5'UTR 5'UTR;Body;Body;5'UTR Body 5'UTR;Body;Body

CNKSR1;CNKSR1 SFN

Body;Body TSS1500

PABPC4;PABPC4;PABPC4;SNORA55

Body;Body;Body;Body

ARHGEF16 SH3RF1 CDON LRRC31

RELATION_TO_UCSC_CPG_ISLAND Island N_Shelf N_Shore N_Shelf N_Shore N_Shore

S_Shore S_Shore

N_Shelf

N_Shore

N_Shore N_Shelf N_Shore N_Shelf

5'UTR Body TSS1500 1stExon

S_Shore

ACCEPTED MANUSCRIPT


17 21 16 11 10 2 16 2 1 6 7 3 3 6 15 1 1 1 11 17 1 1 13 6 10 19 10 9 11 3 8 14 4 10 7 6 2 5

45927893 27372446 89489058 2925847 115511153 110872729 50069454 242713790 20142706 150461119 6524998 53878642 151309377 53579798 45671018 213189641 207225128 177939484 125933698 80796693 6520194 3373794 24736518 147527113 36222804 16394638 126827000 85676358 2397831 121903520 118629000 102290370 16142263 695844 95115246 146349312 97200904 97833812


SP6 APP;APP;APP;APP;APP ANKRD11 SLC22A18;SLC22A18;SLC22A18AS C10orf81 MALL TMEM188

5'UTR Body;Body;Body;Body;Body 5'UTR Body;Body;TSS1500 TSS200 Body 3'UTR

N_Shore

RNF186

RI PT


UCSC_REFGENE_GROUP

SC

-0.11 -0.10 0.11 -0.11 -0.12 -0.14 -0.11 -0.11 -0.12 -0.13 -0.13 -0.14 -0.10 -0.11 0.14 -0.13 -0.12 -0.10 -0.10 -0.11 0.10 -0.11 -0.12 -0.10 -0.10 0.12 -0.11 -0.13 -0.11 0.14 -0.12 0.10 -0.12 -0.11 -0.13 0.11 -0.10 -0.12

UCSC_REFGENE_NAME

S_Shore S_Shelf N_Shore S_Shelf

TSS1500

KDELR2;KDELR2 CHDH

LOC145663;GATM ANGEL2 PFKFB2;PFKFB2;YOD1 SEC16B CDON TBCD;ZNF750 ESPN ARHGEF16 SPATA13;MIR2276;SPATA13 STXBP5;STXBP5

CTBP2;CTBP2 RASEF CD81 CASR

TSS1500;TSS1500 5'UTR

M AN U

-0.01 0.00 0.01 0.00 -0.01 -0.02 0.00 -0.02 -0.03 -0.03 0.00 -0.01 0.00 -0.02 0.02 -0.01 -0.01 0.00 0.02 0.00 0.00 -0.01 0.00 0.00 0.01 0.00 0.00 -0.01 0.00 0.02 -0.01 0.01 0.00 -0.02 0.00 0.02 -0.01 -0.02

CHR MAPINFO

TE D

0.10 0.10 -0.10 0.11 0.11 0.12 0.11 0.09 0.09 0.10 0.13 0.13 0.10 0.09 -0.12 0.11 0.11 0.10 0.12 0.11 -0.10 0.09 0.12 0.10 0.11 -0.11 0.11 0.11 0.11 -0.12 0.11 -0.10 0.12 0.09 0.13 -0.09 0.09 0.10

Adj-Pval

EP



AC C

TargetID

Body;TSS200 TSS1500 TSS1500;TSS1500;TSS1500 TSS1500 TSS1500 Body;5'UTR Body 5'UTR 5'UTR;TSS200;5'UTR Body;Body

N_Shelf S_Shore N_Shore

Island S_Shore N_Shore S_Shore N_Shore S_Shelf S_Shore S_Shore Island

5'UTR;5'UTR Body TSS1500 5'UTR

N_Shore N_Shore Island

PPP2R5C;PPP2R5C;PPP2R5C;PPP2R5C;PPP2R5C Body;Body;Body;Body;Body DIP2C;C10orf108;C10orf108 ASB4;ASB4 GRM1;GRM1

Body;TSS200;TSS200 TSS200;TSS200 5'UTR;5'UTR

N_Shore N_Shore

ACCEPTED MANUSCRIPT


7 1 6 14 6 2 3 12 2 1 15 17 10 1 19 16 3 10 4 5 22 20 11 13 6 22 19 15 8 15 11 17 13 19 2 14 11 1

95957175 17846756 168069162 58862146 3998297 219153935 57313955 12031304 205147389 228401758 99328792 80847546 123923081 27190330 5829172 1138489 93747410 94792635 8110246 169409235 25510988 33462683 3901552 24650209 109778433 42734695 33867079 92459058 101966860 78556512 67113285 80847662 113426270 56195465 135149666 76002440 117947657 153510896

TOMM20L

TSS1500

N_Shore

PNKD;TMBIM1 ASB14;ASB14 ETV6

Body;5'UTR TSS1500;Body Body

N_Shelf

Body;Body Body Body Body;TSS200;TSS200;Body 1stExon

Island

OBSCN;OBSCN IGF1R TBCD TACC2;TACC2;TACC2;TACC2 SFN

RI PT


UCSC_REFGENE_GROUP

SC

-0.11 -0.10 -0.10 -0.10 -0.10 -0.11 -0.11 -0.10 -0.11 0.11 -0.11 -0.11 0.11 -0.12 0.10 -0.11 -0.14 -0.12 -0.11 -0.10 -0.11 -0.12 -0.11 -0.10 -0.11 -0.10 -0.10 -0.11 -0.11 -0.11 -0.12 -0.11 -0.14 -0.13 -0.11 -0.11 -0.12 -0.11

UCSC_REFGENE_NAME

M AN U

-0.02 -0.01 0.00 0.01 0.01 0.00 -0.01 -0.01 -0.01 -0.01 0.00 0.00 0.00 -0.01 0.00 -0.02 -0.02 -0.02 -0.01 -0.01 -0.01 -0.01 0.00 -0.01 -0.01 0.00 -0.01 -0.01 0.01 0.00 -0.01 -0.01 0.00 0.01 -0.02 -0.01 -0.01 -0.01

CHR MAPINFO

C1QTNF8 3'UTR STX19;ARL13B;STX19;ARL13B 1stExon;Body;5'UTR;Body EXOC6;EXOC6 Body;Body ABLIM2;ABLIM2;ABLIM2;ABLIM2;ABLIM2;ABLIM2;ABLIM2 Body;Body;Body;Body;Body;Body;Body FAM196B;DOCK2 TSS1500;Body KIAA1671 Body ACSS2 TSS200 STIM1 Body

TE D

0.09 0.09 0.10 0.10 0.11 0.10 0.10 0.09 0.10 -0.12 0.10 0.11 -0.11 0.11 -0.10 0.09 0.12 0.10 0.10 0.09 0.10 0.11 0.11 0.09 0.10 0.10 0.09 0.10 0.11 0.11 0.11 0.10 0.15 0.13 0.09 0.10 0.11 0.10

Adj-Pval

EP



MICAL1;MICAL1

TSS1500;TSS1500

CEBPG SLCO3A1;SLCO3A1 YWHAZ DNAJA4;DNAJA4;DNAJA4 LOC100130987 TBCD ATP11A;ATP11A EPN1;EPN1;EPN1 MGAT5 BATF TMPRSS4;TMPRSS4 S100A5

5'UTR Body;Body TSS1500 5'UTR;1stExon;TSS1500 Body Body Body;Body Body;Body;Body Body Body TSS200;TSS200 Body

AC C

TargetID


Island N_Shore Island N_Shore

S_Shelf N_Shore

S_Shore Island S_Shelf N_Shore S_Shore Island

S_Shore N_Shore

S_Shelf

ACCEPTED MANUSCRIPT


1 3 6 3 1 1 11 4 5 14 17 17 2 2 2 1 12 1 1 15 1 15 2 1 16 6 16 5 6 15 1 12 9 1 6 10 2 3

7739043 149192304 30131283 124653632 184566345 156626749 18544818 380396 140800586 102021751 37335148 48845009 8833307 54773290 98701516 203643084 29195033 54590530 168466986 85526198 46645968 42866523 128293021 220292590 66413010 43478829 83829911 124223911 30616105 59576097 20141778 115137993 101136882 6421502 138426958 559468 38302587 67047651


CAMTA1 TM4SF4 TRIM15;TRIM15 MUC13 C1orf21 BCAN TSG101

Body TSS200 5'UTR;1stExon TSS200 Body Body Body

N_Shore

RI PT


UCSC_REFGENE_GROUP

N_Shore N_Shelf Island PCDHGA4;PCDHGA9;PCDHGA1;PCDHGB1;PCDHGB6;PCDHGA11;PCDHGA11;PCDHGA11;PCDHGB3;PCDHGA11;PCDHGB7;PCDHGA6;PCDHGA8;PCDHGA11;PCDH Body;Body;Body;Body;Body;5'UTR;5'UTR;5'UTR;Body;1stExon;Body;Body;Body;1stExon;Body;Body;Body;Body N_Shore DIO3OS Body CACNB1;CACNB1;CACNB1 Body;Body;Body S_Shelf C17orf73 TSS200 SPTBN1

SC

-0.10 -0.11 -0.10 -0.13 -0.12 0.11 -0.11 0.11 0.11 -0.12 -0.13 -0.14 -0.10 -0.11 -0.11 0.10 -0.11 -0.11 -0.11 -0.11 -0.12 -0.10 -0.10 -0.13 -0.13 -0.12 -0.11 -0.10 -0.11 -0.12 -0.12 0.10 -0.11 -0.12 -0.13 -0.12 0.11 -0.11

UCSC_REFGENE_NAME

M AN U

-0.01 -0.01 -0.01 -0.02 -0.02 0.00 -0.02 0.01 0.00 -0.01 -0.01 -0.01 -0.01 0.01 -0.01 0.01 -0.01 0.01 -0.02 -0.01 -0.02 0.01 -0.01 -0.01 -0.01 -0.01 0.00 -0.01 -0.01 0.00 -0.01 0.02 -0.01 -0.01 -0.01 -0.01 0.02 0.00

CHR MAPINFO

Body

ATP2B4;ATP2B4

TE D

0.09 0.10 0.09 0.11 0.10 -0.11 0.10 -0.10 -0.10 0.10 0.11 0.13 0.09 0.12 0.09 -0.10 0.10 0.12 0.08 0.10 0.10 0.11 0.09 0.12 0.11 0.11 0.11 0.09 0.10 0.12 0.10 -0.08 0.10 0.11 0.11 0.10 -0.09 0.11

Adj-Pval

PDE8A;PDE8A TSPAN1 STARD9 MYO7B IARS2;MIR194-1;MIR215 CDH5 C6orf154 CDH13

N_Shore

5'UTR;5'UTR S_Shelf

Body;Body 5'UTR TSS1500 TSS1500 Body;TSS1500;TSS1500 5'UTR TSS1500 3'UTR

S_Shore

C6orf136;C6orf136;C6orf136 MYO1E RNF186

Body;Body;Body Body TSS200

S_Shore

GABBR2 ACOT7;ACOT7;ACOT7 PERP DIP2C CYP1B1 KBTBD8

Body Body;TSS1500;Body Body Body 5'UTR TSS1500

EP



AC C

TargetID

N_Shore

S_Shore

Island

N_Shore Island N_Shore

ACCEPTED MANUSCRIPT


16 18 5 2 5 11 11 11 17 1 20 1 11 7 6 3 1 11 19 12 16 7 3 16 20 2 19 11 22 17 7 15 7 3 9 1 15 2

2846005 61143961 149546471 179058157 140810106 117947628 69469820 2464959 57642752 19596472 30449856 1610660 74870640 75586348 30130698 137361532 201369650 94480096 12266489 16039824 71716385 97983916 184971183 8979028 35973098 233878015 35606877 125363617 38506781 6918952 150653195 90456619 16945442 72435597 97317179 20142497 78556534 79347474


N_Shelf SERPINB5 TSS200 CDX1 1stExon Island OSBPL6 TSS1500 N_Shore PCDHGA4;PCDHGA11;PCDHGA11;PCDHGA9;PCDHGA1;PCDHGB1;PCDHGB6;PCDHGA12;PCDHGB3;PCDHGB7;PCDHGA6;PCDHGA8;PCDHGA10;PCDHGA5;PCDH Body;Body;Body;Body;Body;Body;Body;TSS200;Body;Body;Body;Body;Body;Body;Body;Body;Body;TSS200;Bo N_Shore TMPRSS4;TMPRSS4 TSS200;TSS200 S_Shore KCNQ1 TSS1500 N_Shore DHX40;DHX40 TSS200;TSS200 Island AKR7L;AKR7L Body;Body N_Shelf DUSP15;DUSP15;DUSP15 Body;Body;Body S_Shore CDK11B;CDK11B;CDK11B;CDK11B;CDK11B;LOC728661;CDK11B Body;Body;Body;Body;Body;5'UTR;5'UTR S_Shelf SLCO2B1;SLCO2B1;SLCO2B1 Body;Body;TSS1500 POR Body TRIM15 TSS1500

RI PT


UCSC_REFGENE_GROUP

SC

-0.10 -0.15 -0.10 -0.10 0.10 -0.12 -0.11 -0.12 0.11 -0.11 -0.11 -0.13 -0.10 -0.12 -0.12 0.10 -0.10 -0.11 0.11 -0.11 -0.13 -0.12 -0.12 -0.11 -0.11 -0.11 -0.12 -0.11 -0.12 0.10 0.10 -0.10 -0.10 -0.13 -0.12 -0.11 -0.12 -0.10

UCSC_REFGENE_NAME

M AN U

-0.02 0.00 0.01 0.00 -0.01 -0.01 -0.01 -0.01 0.01 -0.02 0.00 -0.02 0.01 0.01 -0.02 0.01 -0.01 -0.01 0.00 -0.02 -0.01 -0.01 -0.01 -0.02 -0.01 -0.01 -0.01 -0.02 -0.01 0.00 0.01 0.00 -0.02 0.00 -0.01 -0.01 -0.01 0.00

CHR MAPINFO

LAD1 ZNF625 STRAP PHLPP2 BAIAP2L1 EHHADH;EHHADH

TE D

0.08 0.15 0.10 0.10 -0.11 0.10 0.10 0.11 -0.10 0.09 0.11 0.11 0.11 0.13 0.10 -0.09 0.10 0.10 -0.11 0.09 0.11 0.11 0.10 0.09 0.10 0.11 0.11 0.08 0.10 -0.10 -0.10 0.10 0.08 0.12 0.11 0.10 0.11 0.10

Adj-Pval

TSS1500

S_Shore

5'UTR Body Body Body 5'UTR;Body

N_Shore S_Shelf

EP



SRC;SRC;SRC TSS1500;1stExon;5'UTR NGEF TSS200 FXYD3;FXYD3;FXYD3;FXYD3;FXYD3;FXYD3;FXYD3;FXYD3 5'UTR;5'UTR;5'UTR;5'UTR;5'UTR;5'UTR;5'UTR;5'UTR FEZ1;FEZ1 5'UTR;5'UTR BAIAP2L2 TSS200 C17orf49;C17orf49;C17orf49 Body;Body;Body KCNH2;KCNH2;KCNH2 Body;Body;TSS1500 C15orf38 TSS1500

AC C

TargetID

RYBP

Body

RNF186 DNAJA4;DNAJA4;DNAJA4 REG1A

TSS1500 5'UTR;1stExon;TSS1500 TSS200

N_Shore N_Shore

N_Shore S_Shore N_Shore S_Shore

Island

ACCEPTED MANUSCRIPT


10 11 1 17 6 2 4 1 11 5 6 2 5 2 7 19 19 2 1 16 12 20 5 6 4 6 8 3 10 2 3 14 11 10 2 7 17 4

31308092 67442408 171106397 42908410 155649609 233878004 38867304 54199825 30752003 140810109 30095549 161056520 126412432 122776847 73246406 49197853 39303698 234545110 151810899 318694 7072727 52786323 16895511 135826776 108909664 109760831 2006915 31330036 135123239 224873911 150237138 97370064 61731930 126211704 201388625 16700959 64225346 74963112

ZNF438;ZNF438;ZNF438;ZNF438;ZNF438;ZNF438;ZNF438 5'UTR;5'UTR;5'UTR;5'UTR;5'UTR;5'UTR;Body ALDH3B2;ALDH3B2 TSS1500;5'UTR FMO6P TSS1500 GJC1;GJC1 TSS1500;TSS1500 NGEF

TSS200

RI PT


UCSC_REFGENE_GROUP

SC

-0.10 -0.11 -0.11 -0.09 -0.11 -0.11 -0.11 -0.12 -0.11 0.10 0.12 -0.12 -0.10 -0.10 -0.11 -0.11 -0.11 -0.11 0.11 -0.14 -0.10 -0.11 -0.11 -0.13 -0.11 -0.11 -0.11 -0.12 -0.11 -0.12 -0.11 -0.09 -0.10 -0.11 -0.12 -0.11 -0.11 -0.10

UCSC_REFGENE_NAME

GLIS1;GLIS1

5'UTR;1stExon


S_Shore

N_Shelf N_Shelf

PCDHGA4;PCDHGA11;PCDHGA11;PCDHGA9;PCDHGA1;PCDHGB1;PCDHGB6;PCDHGA12;PCDHGB3;PCDHGB7;PCDHGA6;PCDHGA8;PCDHGA10;PCDHGA5;PCDH Body;Body;Body;Body;Body;Body;Body;TSS200;Body;Body;Body;Body;Body;Body;Body;Body;Body;TSS200;Bo N_Shore Island ITGB6 1stExon S_Shelf CLDN4;CLDN4 FUT2;FUT2 LGALS4;LGALS4 UGT1A10;UGT1A8 C2CD4D;LOC100132111 RGS11;RGS11 MIR141;MIR200C CYP24A1;CYP24A1 MYO10 C6orf217 HADH PPIL6;PPIL6;SMPD2 MYOM2

M AN U

0.00 0.00 0.00 0.02 0.01 -0.01 0.00 0.00 0.00 0.00 0.00 -0.01 0.00 -0.01 0.00 0.00 0.00 -0.01 0.01 -0.01 -0.01 -0.01 -0.01 0.00 0.00 -0.01 -0.01 -0.02 -0.02 -0.02 -0.01 0.01 0.00 -0.01 -0.01 -0.01 -0.02 -0.03

CHR MAPINFO

3'UTR;1stExon TSS1500;TSS1500 5'UTR;1stExon TSS200;Body Body;TSS200 3'UTR;3'UTR TSS1500;TSS200 Body;Body Body Body TSS1500 Body;Body;TSS1500 Body

S_Shore N_Shelf

ZNF511;TUBGCP2 SERPINE2;SERPINE2;SERPINE2;SERPINE2

Body;TSS1500 5'UTR;Body;5'UTR;5'UTR

Island

BEST1;FTH1 LHPP;LHPP

3'UTR;3'UTR Body;Body

N_Shelf

BZW2;BZW2;BZW2 APOH CXCL2

Body;5'UTR;5'UTR Body 3'UTR

TE D

0.10 0.11 0.11 0.10 0.11 0.10 0.10 0.12 0.11 -0.10 -0.12 0.11 0.10 0.10 0.10 0.10 0.12 0.11 -0.10 0.13 0.09 0.10 0.10 0.13 0.12 0.11 0.10 0.10 0.09 0.10 0.10 0.10 0.10 0.10 0.11 0.10 0.10 0.07

Adj-Pval

EP



AC C

TargetID

Island Island N_Shelf

N_Shore N_Shore S_Shelf

N_Shelf

N_Shore

ACCEPTED MANUSCRIPT


12 16 7 4 17 11 12 6 19 4 2 9 5 4 5 2 1 15 11 20 11 5 16 1 3 2 3 2 8 18 1 2 17 17 7 4 19 15

7818585 90040387 21986672 108745325 46712052 125753373 68041322 31845721 53540902 74465188 113976143 139968626 54518745 139162808 59783906 144519856 59280489 44068246 117382759 61002857 72489173 149546087 15820745 180240035 9944537 106227623 24279519 161503843 37218068 55024674 25495326 121496875 46667725 73636184 42265517 144275126 39108609 59903968

APOBEC1 AFG3L1;CENPBD1;AFG3L1;AFG3L1 CDCA7L;CDCA7L;CDCA7L SGMS2

TSS200 Body;TSS1500;Body;Body TSS1500;TSS1500;TSS1500 TSS1500

HYLS1 DYRK2;DYRK2 SLC44A4

TSS200 TSS1500;TSS1500 Body

RASSF6;RASSF6 PAX8;PAX8;PAX8;PAX8;PAX8;LOC440839

RI PT


UCSC_REFGENE_GROUP

SC

-0.11 -0.10 -0.12 -0.10 -0.10 -0.11 -0.11 -0.12 0.12 -0.10 -0.12 -0.12 0.11 -0.11 -0.10 -0.12 -0.11 -0.11 -0.11 -0.12 -0.11 -0.11 -0.10 -0.12 -0.10 -0.12 -0.11 -0.12 -0.10 -0.10 -0.11 -0.11 -0.10 -0.16 -0.10 -0.13 0.10 -0.11

UCSC_REFGENE_NAME


S_Shore S_Shore N_Shore N_Shore N_Shelf N_Shore Island

Body;Body 3'UTR;Body;3'UTR;Body;3'UTR;Body

M AN U

-0.01 -0.02 -0.02 0.00 -0.01 -0.02 0.00 -0.01 0.00 -0.01 -0.01 -0.03 0.02 0.00 0.01 -0.02 0.00 0.00 -0.01 -0.01 0.00 -0.01 0.01 -0.02 -0.01 -0.01 0.00 -0.01 0.00 -0.01 -0.01 -0.01 0.01 -0.03 0.01 -0.02 0.00 0.00

CHR MAPINFO

SLC7A11 PART1;PART1;PDE4D;PART1;PDE4D ARHGAP15

Body Body;Body;5'UTR;Body;1stExon Body

ELL3 DSCAML1 C20orf151 STARD10 CDX1 MYH11;MYH11;MYH11;MYH11 LHX4 IL17RE;IL17RE;IL17RE;IL17RE;IL17RE

Body Body TSS1500 Body TSS1500 Body;Body;Body;Body Body 1stExon;5'UTR;1stExon;5'UTR;5'UTR

THRB;THRB;THRB

5'UTR;5'UTR;5'UTR

TE D

0.09 0.09 0.10 0.10 0.09 0.09 0.10 0.11 -0.12 0.09 0.11 0.08 -0.09 0.11 0.10 0.10 0.11 0.11 0.10 0.11 0.10 0.10 0.10 0.10 0.09 0.10 0.11 0.11 0.10 0.09 0.10 0.10 0.11 0.14 0.10 0.11 -0.10 0.11

Adj-Pval

EP



AC C

TargetID

ST8SIA3

Body

LOC404266;LOC404266 RECQL5;LOC643008;LOC643008 GLI3 GAB1;GAB1 MAP4K1;MAP4K1;MAP4K1;MAP4K1;EIF3K GCNT3

TSS200;TSS200 Body;Body;5'UTR 5'UTR Body;Body 1stExon;5'UTR;1stExon;5'UTR;TSS1500 TSS200

N_Shelf N_Shore

Island N_Shore

N_Shelf Island

S_Shelf S_Shore N_Shore N_Shelf N_Shore

ACCEPTED MANUSCRIPT


14 1 1 16 15 1 10 9 13 16 3 6 16 6 20 7 17 19 13 2 6 17 6 2 12 17 8 1 17 8 4 1 12 19 1 11 5 10

59260097 110306507 245209111 1138697 95562141 243577377 82300600 92291210 50513235 14766421 71499629 38690157 69385606 108323282 42983920 107443898 72581014 42409117 24736455 143999025 155428138 80796743 119105122 20431435 6484729 4379584 80943347 244466428 17579346 144801088 169242366 201374614 125577625 9609422 172351357 33399978 154092109 85898700

RI PT


UCSC_REFGENE_GROUP

EPS8L3;EPS8L3;EPS8L3;EPS8L3;EPS8L3;EPS8L3 5'UTR;1stExon;5'UTR;1stExon;1stExon;5'UTR EFCAB2;EFCAB2;EFCAB2;EFCAB2;EFCAB2 Body;Body;Body;Body;Body C1QTNF8 3'UTR SDCCAG8 SH2D4B;SH2D4B;SH2D4B LOC100129066 PLA2G10 FOXP1;FOXP1 DNAH8 TMED6

Body Body;1stExon;5'UTR Body

SC

-0.13 -0.12 -0.12 -0.10 -0.12 -0.11 -0.11 -0.10 -0.11 -0.12 -0.11 -0.11 -0.11 -0.12 -0.11 -0.11 -0.11 -0.10 -0.10 -0.10 0.10 -0.11 -0.11 -0.11 -0.11 -0.11 -0.11 -0.10 -0.10 -0.11 -0.11 -0.11 -0.12 0.11 -0.11 -0.10 -0.12 -0.10

UCSC_REFGENE_NAME


N_Shore

N_Shore S_Shelf

3'UTR 5'UTR;5'UTR TSS1500 1stExon

M AN U

0.00 -0.01 -0.02 -0.02 -0.01 -0.02 -0.01 -0.01 0.01 0.00 0.00 0.00 -0.01 -0.02 -0.01 -0.01 -0.01 -0.01 0.01 0.00 0.02 0.00 -0.01 -0.01 -0.01 0.00 0.00 -0.01 -0.01 -0.01 -0.02 -0.01 0.00 0.00 0.00 -0.01 0.00 -0.01

CHR MAPINFO

HNF4A;HNF4A;HNF4A SLC26A3 C17orf77;CD300LD ARHGEF1;ARHGEF1;ARHGEF1 SPATA13;MIR2276;SPATA13 ARHGAP15 TIAM2 TBCD;ZNF750

TE D

0.13 0.11 0.09 0.08 0.11 0.09 0.10 0.10 0.12 0.11 0.11 0.11 0.10 0.10 0.10 0.10 0.10 0.09 0.11 0.11 -0.09 0.11 0.10 0.11 0.09 0.11 0.10 0.09 0.09 0.09 0.10 0.09 0.11 -0.11 0.11 0.09 0.11 0.09

Adj-Pval

EP



SCNN1A;SCNN1A;SCNN1A;SCNN1A SPNS3 MRPS28

AC C

TargetID

TSS1500;TSS1500;TSS1500 TSS1500 TSS200;Body Body;Body;Body 5'UTR;TSS200;5'UTR Body 5'UTR Body;5'UTR

Body;TSS1500;1stExon;5'UTR Body TSS1500

MAPK15

Body

TNNI1 AACS ZNF560 DNM3;DNM3

3'UTR Body TSS200 Body;Body

LARP1 GHITM

TSS1500 TSS1500

S_Shore S_Shore

S_Shore

Island S_Shelf N_Shore S_Shore S_Shore N_Shore

ACCEPTED MANUSCRIPT


12 9 4 1 6 6 3 15 14 4 16 8 19 10 5 11 1 17 3 2 11 5 10 1 1 11 5 21 7 3 17 4 17 5 16 9 5 3

24533168 79625269 99668618 218524558 48039722 26296575 19987665 77519170 104554808 1303491 4103167 142217405 58095424 118349430 88188704 67442067 43158569 55484600 101808873 110872620 34675402 150461913 87403707 942198 1099166 65621695 154092426 43100703 20818887 67698057 80847270 15939862 76849030 140098392 90110798 116143143 175976342 182970719

SOX5

5'UTR

RI PT


UCSC_REFGENE_GROUP

TGFB2;TGFB2

RAB5A C15orf5;SGK269 ASPG MAEA;MAEA ADCY9

ZIK1 PNLIPRP1 MEF2C ALDH3B2;ALDH3B2;ALDH3B2 YBX1 MSI2;MSI2 MALL EHF TNIP1 GRID1


N_Shelf

Body;Body

TSS1500 TSS1500;5'UTR Body Body;Body Body

SC

-0.10 -0.13 -0.12 0.11 -0.10 -0.12 -0.11 -0.11 -0.12 0.10 -0.14 -0.12 0.10 -0.10 -0.10 -0.11 -0.11 -0.12 -0.11 -0.12 -0.12 -0.10 -0.11 -0.13 -0.14 -0.11 -0.12 -0.10 0.10 -0.10 -0.10 -0.10 -0.11 -0.12 -0.11 -0.11 -0.11 -0.10

UCSC_REFGENE_NAME

M AN U

0.00 -0.01 0.00 0.02 -0.02 -0.01 -0.02 -0.01 -0.01 0.02 -0.01 -0.01 0.02 0.00 -0.02 -0.01 -0.02 0.00 -0.01 -0.02 -0.02 0.00 -0.01 -0.02 -0.02 0.00 -0.01 -0.01 0.00 -0.01 -0.01 -0.01 -0.01 -0.01 -0.02 -0.02 0.00 -0.01

CHR MAPINFO

TE D

0.10 0.12 0.12 -0.09 0.08 0.11 0.10 0.10 0.11 -0.08 0.13 0.11 -0.08 0.10 0.09 0.10 0.09 0.12 0.10 0.11 0.09 0.11 0.09 0.11 0.13 0.11 0.11 0.09 -0.10 0.09 0.09 0.09 0.09 0.11 0.09 0.09 0.11 0.09

Adj-Pval

EP



TSS1500 TSS1500 5'UTR 1stExon;5'UTR;5'UTR Body Body;Body Body Body TSS1500 Body

S_Shelf N_Shore S_Shelf Island N_Shore Island S_Shelf

N_Shore S_Shore

Island N_Shelf

LARP1 NCRNA00111

TSS200 Body

SUCLG2 TBCD FGFBP1

Body Body 5'UTR

VTRNA1-2 LOC100130015;GAS8;LOC100130015;GAS8

TSS200 Body;3'UTR;Body;Body

PCDH24 MCF2L2;B3GNT5

TSS200 Body;TSS1500

AC C

TargetID

S_Shore

N_Shelf

S_Shelf N_Shore

ACCEPTED MANUSCRIPT


11 2 1 16 15 19 7 5 20 10 11 3 17 5 8 1 1 4 20 1 2 6 17 7 3 4 18 1 4 21 10 4 4 3 11 8 3 15

128893851 241807747 151168668 77874011 62356512 45663415 985719 132707300 17512652 52645399 126055303 189983744 12877227 154092360 128755270 207205525 45155097 111562545 52687365 6531813 27665711 30131915 20105626 41733448 184278268 106477599 61144250 26603970 99580849 46126104 22536731 154125439 187148688 185302692 62272972 145642024 147098568 42449015

RICS;RICS;RICS AGXT

1stExon;Body;5'UTR TSS1500

VAT1L

Body

NKPD1 ADAP1 FSTL4 BFSP1;BFSP1 A1CF;A1CF;A1CF;A1CF;A1CF;A1CF

TSS200 Body Body Body;TSS1500 5'UTR;1stExon;5'UTR;5'UTR;1stExon;1stExon

RICH2 LARP1

RI PT


UCSC_REFGENE_GROUP

SC

-0.11 -0.10 -0.11 -0.13 -0.13 -0.10 -0.11 -0.11 -0.10 -0.11 -0.11 -0.11 0.11 -0.11 -0.13 -0.12 -0.12 0.12 -0.09 -0.12 -0.10 -0.10 -0.13 -0.11 -0.11 -0.11 -0.11 -0.11 -0.13 0.11 -0.11 -0.11 -0.10 -0.10 -0.09 -0.10 0.11 -0.10

UCSC_REFGENE_NAME

M AN U

-0.03 -0.01 -0.04 -0.02 -0.02 -0.01 -0.01 -0.01 0.01 0.00 0.00 -0.02 0.02 -0.01 -0.01 -0.01 -0.02 0.01 0.01 -0.02 -0.02 -0.01 -0.03 -0.01 -0.02 -0.02 -0.01 0.00 -0.04 0.02 0.00 -0.01 0.00 0.00 0.01 -0.01 0.01 0.00

CHR MAPINFO

Body TSS200

C1orf116;C1orf116 C1orf228


N_Shelf N_Shelf Island S_Shore

N_Shore S_Shelf

5'UTR;5'UTR 5'UTR

BCAS1 TSS200 PLEKHG5;PLEKHG5;PLEKHG5;PLEKHG5;PLEKHG5Body;Body;Body;Body;Body KRTCAP3;KRTCAP3 Body;Body TRIM15 Body CYTSB;CYTSB;CYTSB;CYTSB Body;Body;Body;Body LOC285954;LOC285954;INHBA TSS200;TSS200;Body EPHB3 TSS1500 FLJ20184 Body SERPINB5;SERPINB5 1stExon;5'UTR CCDC21 3'UTR TSPAN5 TSS1500 C21orf29 Body

TE D

0.08 0.10 0.07 0.10 0.11 0.09 0.11 0.10 0.10 0.11 0.11 0.09 -0.08 0.10 0.12 0.11 0.10 -0.11 0.10 0.10 0.09 0.09 0.10 0.09 0.10 0.09 0.10 0.11 0.09 -0.10 0.11 0.10 0.10 0.10 0.10 0.09 -0.10 0.10

Adj-Pval

EP



AC C

TargetID

TRIM2;TRIM2 KLKB1;KLKB1 SENP2 AHNAK SLC39A4;SLC39A4

TSS200;5'UTR 1stExon;5'UTR TSS1500 Body 1stExon;TSS200

PLA2G4F;PLA2G4F

TSS200;TSS200

S_Shore Island S_Shore

N_Shore

N_Shelf S_Shore N_Shore N_Shelf

N_Shore Island

ACCEPTED MANUSCRIPT


5 1 4 10 1 10 1 15 16 5 2 9 8 1 19 11 9 6 12 1 1 11 8 1 14 10 16 4 19 6 1 2 3 6 6 6 10 2

1003134 145727720 6754822 114133235 166572716 105438008 204346643 67340505 49918219 16743265 100466754 707387 8238774 16062894 4535582 67442075 140147188 137366369 6473643 110306642 15751063 64736754 144815204 44031826 31496854 33553435 89165300 10658271 5851762 32165917 20308066 192208955 142844036 30175792 111975261 136869967 5558309 56192635

PDZK1

TSS200

ACSL5 FMO9P SH3PXD2A

TSS1500 TSS1500 Body

RELATION_TO_UCSC_CPG_ISLAND N_Shore

MYO10 AFF3;AFF3 KANK1;KANK1 PRAGMIN SLC25A34;SLC25A34 PLIN5 ALDH3B2;ALDH3B2;ALDH3B2 C9orf173 IL20RA SCNN1A;SCNN1A;SCNN1A EPS8L3;EPS8L3;EPS8L3 EFHD2

RI PT


UCSC_REFGENE_GROUP

SC

-0.13 -0.10 -0.11 -0.10 -0.11 0.10 -0.12 -0.12 -0.10 -0.11 -0.11 0.10 -0.13 -0.10 -0.11 -0.13 -0.12 -0.14 -0.10 -0.11 -0.13 -0.12 -0.10 0.11 -0.09 -0.11 -0.10 -0.11 -0.10 -0.10 -0.11 -0.12 -0.10 -0.12 -0.11 -0.12 -0.11 -0.11

UCSC_REFGENE_NAME

Body Body;Body 5'UTR;Body Body 5'UTR;1stExon TSS1500 1stExon;5'UTR;5'UTR Body TSS200 Body;Body;Body TSS200;TSS200;TSS200 Body

M AN U

-0.01 0.00 -0.02 -0.02 0.00 0.01 -0.02 -0.02 -0.01 -0.02 -0.01 -0.01 -0.01 -0.01 -0.01 -0.02 -0.03 -0.03 -0.01 -0.01 -0.01 -0.01 0.00 0.01 0.01 0.00 -0.02 -0.01 -0.01 -0.01 -0.01 -0.01 0.00 -0.03 -0.01 -0.02 -0.02 -0.01

CHR MAPINFO

TE D

0.12 0.10 0.09 0.09 0.12 -0.09 0.11 0.10 0.09 0.09 0.10 -0.11 0.12 0.09 0.10 0.10 0.09 0.11 0.09 0.10 0.11 0.11 0.10 -0.09 0.11 0.10 0.09 0.10 0.09 0.09 0.11 0.11 0.10 0.09 0.10 0.10 0.10 0.10

Adj-Pval

FAM83H PTPRF;PTPRF STRN3;AP4S1;STRN3;AP4S1 NRP1;NRP1;NRP1 ACSF3;ACSF3;ACSF3 CLNK FUT3;FUT3;FUT3;FUT3 NOTCH4 PLA2G2A;PLA2G2A;PLA2G2A MYO1B;MYO1B;MYO1B

5'UTR Body;Body TSS1500;5'UTR;TSS1500;5'UTR Body;Body;Body Body;5'UTR;5'UTR Body TSS1500;TSS1500;TSS1500;TSS1500 Body TSS1500;TSS1500;TSS1500 Body;Body;Body

TRIM26

5'UTR

MAP7

Body

EP



AC C

TargetID

N_Shore

Island

S_Shore N_Shelf S_Shore S_Shore

N_Shelf Island Island S_Shore N_Shore

S_Shore

S_Shelf

N_Shore S_Shelf

ACCEPTED MANUSCRIPT


8 7 15 2 16 11 3 17 20 3 1 19 10 10 3 7 11 4 6 1 2 10 11 3 4 9 1 14 5 16 5 9 8 10 17 20 22 1

28227321 27161749 85987419 7342228 524414 32912719 35986831 38347603 61002595 12521775 183436878 58220080 81319751 44754714 4908643 95115354 2428431 154125637 30850913 67600428 169073609 98624529 2226480 191991630 170897214 112970463 205313833 94789777 139143972 644081 179221059 6779450 126698738 45497470 34328396 42984324 20858742 113798121


ZNF395 HOXA3 AKAP13;AKAP13

5'UTR 5'UTR 5'UTR;5'UTR

N_Shore

RAB11FIP3;RAB11FIP3

Body;TSS1500

RI PT


UCSC_REFGENE_GROUP

SC

-0.11 -0.12 -0.12 -0.12 -0.10 -0.10 -0.11 0.10 -0.11 -0.12 -0.12 0.10 -0.11 -0.10 -0.10 -0.12 -0.12 -0.09 -0.10 0.11 -0.11 -0.10 -0.11 -0.10 -0.11 -0.13 -0.10 -0.11 0.12 -0.12 0.11 -0.11 -0.10 -0.11 -0.11 -0.12 -0.10 -0.13

UCSC_REFGENE_NAME

RAPGEFL1 C20orf151

Body TSS200

ZNF154 SFTPA2

M AN U

-0.01 -0.01 -0.02 -0.02 -0.01 0.01 0.00 0.00 -0.01 -0.02 -0.01 -0.01 -0.02 0.00 -0.01 0.00 -0.01 0.02 -0.01 0.02 -0.01 0.00 -0.01 -0.02 -0.02 -0.01 0.00 -0.01 0.02 -0.02 0.01 0.00 0.00 0.00 -0.01 -0.01 0.00 -0.01

CHR MAPINFO

Body 5'UTR

ASB4;ASB4 TRPM5 TRIM2;TRIM2;TRIM2 DDR1;DDR1

TE D

0.10 0.10 0.10 0.10 0.09 0.12 0.10 -0.10 0.10 0.10 0.11 -0.11 0.08 0.10 0.09 0.12 0.10 0.11 0.09 -0.09 0.10 0.10 0.09 0.09 0.09 0.11 0.10 0.09 -0.10 0.10 -0.09 0.11 0.10 0.11 0.10 0.11 0.10 0.11

Adj-Pval

1stExon;1stExon Body 5'UTR;1stExon;5'UTR TSS1500;TSS1500

STK39 LCOR;LCOR;LCOR

Body 5'UTR;5'UTR;5'UTR

FGF12;FGF12

Body;Body

EP



C9orf152 KLHDC8A SERPINA6

TSS200 5'UTR TSS200

RAB40C LTC4S;LTC4S KDM4C;KDM4C;KDM4C;KDM4C

Body 1stExon;5'UTR 5'UTR;5'UTR;5'UTR;Body

ZNF22;C10orf25 CCL15;CCL14-CCL15;CCL14-CCL15 HNF4A;HNF4A;HNF4A

5'UTR;TSS1500 Body;Body;Body TSS200;TSS200;TSS200

AC C

TargetID

N_Shore Island N_Shelf N_Shelf N_Shore

N_Shore

N_Shore Island

S_Shore Island S_Shelf N_Shore

S_Shore

N_Shelf

ACCEPTED MANUSCRIPT


15 5 5 3 12 2 19 17 8 8 2 14 14 8 9 16 10 15 6 6 14 11 16 4 22 10 2 4 5 13 7 19 1 5 10 8 5 12

59568712 126377273 1003897 186781783 123378142 169658981 38795051 76849093 144965812 49835988 152120787 65409659 106003359 144346762 133453231 75520165 106346105 52161438 132216033 80310885 21271313 23811425 89913618 77507651 37414044 11206870 101034825 140656794 102591535 41064545 144422234 35606732 226078237 159492309 1509859 145697495 154092321 105839243

MYO1E

Body

RI PT


UCSC_REFGENE_GROUP

ST6GAL1;ST6GAL1;ST6GAL1 Body;Body;Body VPS37B Body NOSTRIN;NOSTRIN;NOSTRIN;NOSTRIN 5'UTR;TSS200;TSS200;TSS200 C19orf33;YIF1B;YIF1B;YIF1B;YIF1B;YIF1B;YIF1B;YIF1B Body;3'UTR;3'UTR;3'UTR;3'UTR;3'UTR;3'UTR;3'UTR TIMP2 3'UTR

SC

-0.14 -0.11 -0.11 -0.11 -0.12 -0.10 -0.12 -0.10 -0.10 -0.11 -0.10 -0.12 -0.10 -0.11 -0.11 -0.13 -0.11 -0.10 -0.12 -0.10 -0.11 -0.10 -0.10 -0.10 -0.13 0.11 -0.09 0.11 -0.10 -0.10 -0.13 -0.10 -0.11 -0.11 -0.10 -0.10 -0.12 -0.10

UCSC_REFGENE_NAME

GPX2

M AN U

-0.03 -0.01 -0.01 -0.02 -0.01 -0.01 0.01 -0.01 -0.01 0.00 0.01 -0.01 -0.01 0.00 0.00 -0.02 -0.01 0.00 -0.01 -0.01 -0.01 0.01 -0.01 0.01 -0.01 0.01 0.03 -0.01 0.01 -0.02 -0.01 -0.01 -0.01 0.00 0.01 0.00 -0.01 0.01

CHR MAPINFO


N_Shore N_Shelf

N_Shelf N_Shore Island S_Shelf

TSS200

LOC100272217 CHST6 TMOD3 ENPP1

TE D

0.11 0.11 0.10 0.09 0.11 0.09 0.13 0.09 0.10 0.11 0.11 0.11 0.09 0.11 0.10 0.12 0.10 0.10 0.11 0.10 0.11 0.10 0.09 0.11 0.12 -0.10 0.12 -0.13 0.10 0.08 0.12 0.10 0.10 0.11 0.11 0.10 0.11 0.10

Adj-Pval

Body 5'UTR

N_Shelf N_Shore

Body 3'UTR

RNASE1;RNASE1;RNASE1;RNASE1

TSS1500;TSS1500;TSS1500;TSS1500

SPIRE2 SHROOM3 TST CUGBP2;CUGBP2;CUGBP2;CUGBP2 CHST10 MAML3

Body Body Body TSS200;Body;Body;TSS200 TSS1500 Body

EP



AC C

TargetID

N_Shelf S_Shore N_Shore N_Shore S_Shore Island N_Shelf

TPK1;TPK1 Body;Body FXYD3;FXYD3;FXYD3;FXYD3;FXYD3;FXYD3;FXYD3;FXYD3;FXYD3;FXYD3;FXYD3;FXYD3;FXYD3;FXYD3;FXYD3;FXYD3 5'UTR;5'UTR;1stExon;5'UTR;1stExon;5'UTR;1stExon;1stExon;1stExon;5'UTR;1stExon;5'UTR;5'UTR;1stExon;1st LEFTY1 TSS1500 S_Shelf TTC1 3'UTR ADARB2 Body S_Shelf KIFC2 Body N_Shore LARP1 TSS200

ACCEPTED MANUSCRIPT


10 2 17 5 11 13 1 1 12 13 14 2 6 5 15 2 1 6 5 7 4 12 1 19 4 9 6 2 2 18 2 17 20 20 4 8 2 8

102730130 159921094 40949954 154230438 2397523 113651420 215740071 209825678 121416796 46041747 65408480 85640001 30123198 115907570 67355497 66672841 116653399 46761090 16721797 127547490 111115795 52848214 214153645 16830749 86850721 112852486 22718216 145247292 112808038 61144339 38155843 72423543 56273259 11668225 79057742 8960015 182543233 142217653

TANC1;TANC1 CNTD1;CCDC56 C5orf4 CD81 MCF2L;MCF2L KCTD3 LAMB3;LAMB3;LAMB3 HNF1A COG3 GPX2

5'UTR;5'UTR TSS1500;3'UTR TSS1500 TSS1500 Body;Body TSS1500 TSS1500;5'UTR;TSS200 1stExon Body Body

RELATION_TO_UCSC_CPG_ISLAND S_Shore

TRIM10;TRIM10 SEMA6A MEIS1 C1orf161 MEP1A MYO10 SND1 ELOVL6;ELOVL6

RI PT


UCSC_REFGENE_GROUP

SC

-0.12 -0.11 -0.10 0.11 -0.10 -0.11 -0.10 -0.11 -0.10 -0.10 -0.10 -0.10 -0.11 -0.11 -0.10 0.09 -0.13 -0.12 -0.12 -0.12 -0.12 -0.10 0.12 -0.11 -0.11 -0.11 -0.11 -0.10 -0.12 -0.11 -0.11 -0.11 -0.10 -0.11 -0.11 -0.10 0.10 -0.10

UCSC_REFGENE_NAME

M AN U

-0.01 -0.01 0.00 0.03 0.00 -0.01 -0.01 -0.01 -0.02 0.01 -0.01 0.00 0.00 -0.01 -0.01 -0.01 0.00 -0.01 -0.01 -0.02 -0.02 -0.01 0.01 -0.02 -0.01 0.01 0.00 -0.01 0.00 -0.01 -0.01 -0.01 0.00 -0.01 -0.02 0.00 0.01 0.00

CHR MAPINFO

TE D

0.11 0.10 0.10 -0.09 0.10 0.10 0.09 0.10 0.08 0.11 0.10 0.10 0.11 0.11 0.10 -0.10 0.13 0.11 0.11 0.10 0.10 0.09 -0.11 0.10 0.09 0.11 0.11 0.10 0.12 0.10 0.10 0.10 0.10 0.10 0.09 0.10 -0.09 0.10

Adj-Pval

NWD1 ARHGAP24;ARHGAP24;ARHGAP24 AKAP2;PALM2-AKAP2;PALM2-AKAP2

EP



AC C

TargetID

Body;Body 5'UTR Body TSS1500 TSS200 Body Body Body;Body

N_Shore N_Shore S_Shore N_Shore Island S_Shelf N_Shore N_Shore N_Shore Island

N_Shore Island

TSS200 Body;Body;TSS1500 Body;Body;Body

ZEB2;ZEB2

Body;Body

SERPINB5 FAM82A1;FAM82A1

5'UTR TSS200;5'UTR

PMEPA1;PMEPA1;PMEPA1;PMEPA1

5'UTR;5'UTR;Body;Body

FRAS1;FRAS1

Body;Body

NEUROD1

Body

N_Shelf S_Shelf N_Shelf S_Shore

N_Shore

ACCEPTED MANUSCRIPT


9 6 12 16 20 17 15 17 1 2 6 2 14 16 11 6 3 1 3 2 2 6 5 1 6 12 21 13 6 20 1 10 10 13 17 20 8 10

132943992 126310825 93484239 4838658 42984320 38657310 57818971 74911481 65220165 234526295 31845879 8850020 34906118 11629183 22696306 142352423 195446859 114430280 47485244 219902901 11529264 1624978 10479730 43751363 30900299 53319217 43786824 39211186 166722773 25059984 165345040 74714935 82050793 113650155 45929657 34195484 30244571 13534652


FREQ TRMT11

Body Body

S_Shelf

SEPT12;SEPT12;LOC440335;LOC440335 HNF4A;HNF4A;HNF4A TNS4 CGNL1 MGAT5B;MGAT5B RAVER2 UGT1A8;UGT1A8 SLC44A4

TSS1500;TSS1500;Body;Body TSS200;TSS200;TSS200 5'UTR Body Body;Body Body 5'UTR;1stExon Body

C14orf147

Body

GAS2;GAS2;GAS2 MUC20 BCL2L15 SCAP CCDC108;CCDC108 GMDS

RI PT


UCSC_REFGENE_GROUP

SC

-0.11 -0.10 -0.11 -0.13 -0.11 -0.11 -0.11 -0.13 -0.12 -0.11 -0.10 -0.14 -0.12 -0.11 -0.12 -0.11 -0.12 -0.10 -0.13 -0.13 -0.10 0.10 -0.10 -0.12 -0.12 -0.12 -0.10 -0.12 -0.10 -0.10 -0.10 -0.13 -0.12 -0.11 0.10 -0.10 0.11 -0.12

UCSC_REFGENE_NAME

M AN U

0.00 -0.02 -0.02 -0.01 -0.01 -0.02 -0.02 -0.01 -0.03 0.00 -0.01 0.00 0.00 0.00 -0.01 -0.02 -0.02 0.01 -0.01 -0.02 0.01 0.01 0.00 -0.01 -0.01 -0.01 0.00 0.00 -0.01 -0.01 -0.01 -0.03 -0.01 -0.01 -0.01 -0.01 -0.03 -0.01

CHR MAPINFO

TE D

0.11 0.08 0.09 0.12 0.10 0.10 0.09 0.12 0.10 0.11 0.10 0.14 0.11 0.10 0.11 0.09 0.10 0.10 0.12 0.11 0.11 -0.09 0.10 0.10 0.10 0.10 0.10 0.12 0.09 0.10 0.09 0.11 0.11 0.10 -0.11 0.09 -0.14 0.10

Adj-Pval

5'UTR;5'UTR;TSS200 TSS1500 TSS200 5'UTR Body;Body

N_Shelf

Body

Island

C1orf210;C1orf210 SFTA2

TSS200;TSS200 TSS1500

TFF1

TSS200

EP



AC C

TargetID

PRR18 VSX1;VSX1

TSS1500 Body;Body

PLA2G12B MAT1A MCF2L;MCF2L SP6 FER1L4 RBPMS;RBPMS;RBPMS;RBPMS BEND7;BEND7

TSS1500 TSS1500 Body;Body 5'UTR TSS200 Body;Body;Body;Body Body;Body

S_Shore N_Shore

S_Shore S_Shore S_Shore

ACCEPTED MANUSCRIPT


1 8 11 19 4 14 3 8 1 5 10 19 2 17 3 13 6 15 1 17 7 4 3 3 12 2 4 22 20 4 12 7 7 9 1 12 3 19

27317434 144343915 85453669 49055390 124468530 89889372 159386992 17555302 201347550 130219926 11206868 58220837 38302674 48971001 189040394 113411561 112525703 41138160 120311542 73449360 16921699 184679386 153385052 36424308 7818635 66218712 25867290 43463123 35973318 54458246 56415271 6313058 155411902 33130375 183009347 107039089 195447691 3835664

ZFP41 SYTL2;SYTL2;SYTL2 SULT2B1

3'UTR Body;Body;Body TSS200

FOXN3 SCHIP1 MTUS1;MTUS1;MTUS1;MTUS1;MTUS1 TNNT2;TNNT2;TNNT2;TNNT2

5'UTR Body Body;TSS200;Body;Body;Body TSS1500;TSS1500;TSS1500;TSS1500

RELATION_TO_UCSC_CPG_ISLAND N_Shelf

CUGBP2;CUGBP2;CUGBP2;CUGBP2 ZNF154 CYP1B1

RI PT


UCSC_REFGENE_GROUP

SC

-0.11 -0.12 -0.14 -0.10 -0.10 -0.10 -0.10 0.11 -0.10 -0.12 0.11 0.10 0.12 -0.11 -0.12 -0.10 -0.12 -0.10 -0.10 -0.10 -0.11 -0.11 -0.11 -0.10 -0.12 -0.12 -0.11 -0.11 -0.11 -0.10 0.12 -0.09 -0.11 -0.10 0.10 -0.10 -0.12 -0.10

UCSC_REFGENE_NAME

TSS200;Body;Body;TSS200 TSS1500 5'UTR

M AN U

-0.02 0.00 -0.03 0.00 -0.01 0.01 -0.01 0.00 -0.02 -0.01 0.01 0.00 0.00 0.00 0.00 -0.01 -0.01 -0.01 -0.01 -0.01 0.00 0.00 -0.02 -0.01 -0.02 -0.01 -0.02 -0.02 0.00 0.01 0.02 0.01 0.00 -0.01 0.01 -0.01 -0.02 -0.01

CHR MAPINFO

TPRG1 ATP11A;ATP11A LAMA4;LAMA4;LAMA4 SPINT1;SPINT1;SPINT1 HMGCS2;HMGCS2;HMGCS2;HMGCS2

3'UTR Body;Body Body;Body;Body Body;Body;Body 1stExon;5'UTR;5'UTR;1stExon

AGR3

TSS200

STAC APOBEC1

TE D

0.09 0.12 0.11 0.10 0.09 0.11 0.09 -0.11 0.09 0.11 -0.10 -0.10 -0.12 0.11 0.12 0.10 0.12 0.09 0.09 0.09 0.10 0.11 0.10 0.09 0.09 0.11 0.09 0.09 0.11 0.11 -0.11 0.10 0.11 0.09 -0.09 0.09 0.10 0.09

Adj-Pval

EP



AC C

TargetID

N_Shore S_Shore Island

S_Shore S_Shore N_Shelf N_Shore

Body TSS200

S_Shelf

S_Shore

TTLL1;TTLL1 SRC;SRC LNX1 IKZF4;IKZF4 CYTH3

Body;Body TSS1500;5'UTR TSS1500 1stExon;5'UTR TSS1500

B4GALT1 LAMC1 RFX4;RFX4 MUC20 ZFR2

Body Body Body;Body TSS200 Body

N_Shore

S_Shore

S_Shore

ACCEPTED MANUSCRIPT


4 17 2 5 4 17 1 8 14 20 5 13 17 1 12 17 5 3 5 6 4 21 20 1 14 16 17 16 1 22 10 8 8 3 8 1 12 19

186425697 46678719 106959868 108478303 186508880 7287740 20141662 8469173 99729088 43029732 140811102 25485381 46035272 44031300 68959172 27505845 110427072 12586368 38640041 30131634 124468536 27540220 42187632 151811364 62216830 31142523 43321328 8895870 162319575 46770195 115511135 108314948 144821641 190037695 41522721 28202173 57443357 17908598

PDLIM3;PDLIM3 Body;Body LOC404266;LOC404266;LOC404266;LOC404266;HOXB6;LOC404266 Body;Body;Body;Body;5'UTR;Body

RI PT


UCSC_REFGENE_GROUP

FER Body SORBS2;SORBS2;SORBS2;SORBS2;SORBS2;SORBS2;SORBS2;SORBS2 Body;Body;Body;Body;Body;Body;Body;Body TNK1 Body RNF186;RNF186 5'UTR;1stExon


S_Shelf S_Shore

Island

SC

-0.13 -0.12 -0.11 -0.11 0.10 0.11 -0.12 -0.12 0.12 -0.10 0.11 -0.10 -0.10 0.10 -0.11 -0.10 -0.11 -0.12 -0.10 -0.10 -0.10 -0.11 -0.11 0.13 -0.10 -0.11 -0.10 -0.13 -0.10 -0.09 -0.10 -0.11 -0.11 -0.11 -0.11 -0.12 -0.12 -0.10

UCSC_REFGENE_NAME

BCL11B;BCL11B Body;Body HNF4A;HNF4A;HNF4A;HNF4A;HNF4A;HNF4A TSS200;Body;TSS200;Body;Body;TSS200 PCDHGA4;PCDHGA11;PCDHGA11;PCDHGA9;PCDHGA1;PCDHGB1;PCDHGB6;PCDHGA12;PCDHGB3;PCDHGB7;PCDHGA6;PCDHGA8;PCDHGA10;PCDHGA12;PCDH Body;Body;Body;Body;Body;Body;Body;1stExon;Body;Body;Body;Body;Body;1stExon;Body;Body;Body;Body;B Island CENPJ Body PRR15L TSS200 PTPRF;PTPRF Body;Body Island MYO18A;MYO18A WDR36

TRIM15

M AN U

-0.02 -0.01 0.00 0.00 0.01 0.01 -0.02 -0.02 0.00 -0.01 0.02 0.00 -0.01 0.00 -0.02 -0.01 0.01 -0.01 -0.02 -0.02 -0.01 0.00 -0.01 0.02 0.01 -0.01 0.00 -0.01 -0.01 0.02 -0.01 0.03 -0.02 -0.03 -0.02 -0.02 -0.01 0.00

CHR MAPINFO

TE D

0.11 0.11 0.11 0.11 -0.09 -0.10 0.10 0.09 -0.12 0.09 -0.09 0.10 0.09 -0.10 0.09 0.10 0.12 0.11 0.08 0.09 0.09 0.11 0.10 -0.11 0.10 0.10 0.10 0.12 0.09 0.10 0.10 0.13 0.09 0.08 0.09 0.10 0.11 0.10

Adj-Pval

5'UTR;5'UTR TSS1500

N_Shore N_Shore

1stExon

APP;APP;APP;APP;APP SGK2 LOC100132111;C2CD4D

Body;Body;Body;Body;Body TSS200 Body;Body

MYST1;MYST1 FMNL1 PMM2 NOS1AP;NOS1AP CELSR1 C10orf81 ANGPT1

3'UTR;Body Body Body Body;Body Body TSS200 Body

EP



AC C

TargetID

N_Shore Island N_Shore N_Shelf S_Shelf N_Shore

N_Shore CLDN1 Body N_Shelf ANK1;ANK1;ANK1;ANK1;ANK1;ANK1;ANK1;ANK1;ANK1;ANK1;ANK1 Body;1stExon;5'UTR;5'UTR;Body;Body;5'UTR;Body;1stExon;1stExon;Body C1orf38;C1orf38;C1orf38 Body;Body;Body S_Shelf MYO1A 5'UTR B3GNT3 5'UTR S_Shelf

ACCEPTED MANUSCRIPT


20 14 5 7 3 4 11 11 22 7 12 7 4 6 15 1 6 2 20 12 5 21 1 2 14 19 11 11 1 1 1 8 6 17 16 21 15 13

1309722 54687314 124461245 106681666 9920535 3484049 22696308 120973231 20019695 73223852 47481988 986139 20256841 26240528 86233236 161059267 137366336 241808113 42984338 4829115 554886 42537294 158549277 20876220 38679952 49055027 17563125 33083021 1045382 155265033 151962816 56852290 35890197 77898978 65700026 40182073 59908652 113425982


SDCBP2

5'UTR

S_Shelf

CIDEC DOK7;DOK7 GAS2;GAS2;GAS2 TECTA C22orf25;MIR185

5'UTR Body;Body 5'UTR;5'UTR;TSS200 TSS200 5'UTR;TSS1500

ADAP1 SLIT2 HIST1H4F AKAP13;AKAP13;AKAP13 PVRL4;PVRL4 IL20RA AGXT HNF4A;HNF4A;HNF4A GALNT8

OR10X1

RI PT


UCSC_REFGENE_GROUP

N_Shelf N_Shore

SC

-0.11 0.11 -0.11 -0.10 -0.12 -0.11 -0.13 -0.10 -0.11 -0.12 -0.11 -0.12 0.10 0.13 0.12 -0.14 -0.12 -0.10 -0.10 -0.10 -0.13 -0.11 -0.11 -0.11 0.10 -0.11 -0.11 -0.11 -0.11 0.10 -0.10 0.11 -0.11 -0.11 -0.11 -0.12 -0.11 -0.10

UCSC_REFGENE_NAME

M AN U

0.00 0.01 -0.01 0.01 -0.01 -0.02 -0.02 -0.01 0.00 0.00 -0.01 -0.02 0.00 0.01 0.00 -0.02 0.00 -0.02 0.00 -0.01 -0.02 0.00 -0.01 -0.01 0.02 -0.01 -0.01 -0.01 -0.01 0.01 0.00 0.01 -0.01 0.00 -0.01 -0.03 -0.01 0.00

CHR MAPINFO

TE D

0.11 -0.10 0.10 0.11 0.10 0.09 0.11 0.09 0.10 0.12 0.10 0.10 -0.10 -0.12 -0.12 0.12 0.12 0.09 0.11 0.09 0.11 0.11 0.10 0.10 -0.08 0.09 0.10 0.10 0.10 -0.10 0.10 -0.10 0.10 0.11 0.10 0.09 0.10 0.11

Adj-Pval

EP



Body Body TSS200 Body;Body;Body 5'UTR;1stExon TSS200 TSS200 TSS200;TSS200;TSS200 TSS1500

S_Shore Island N_Shore

S_Shore

N_Shelf 1stExon

SSTR1 SULT2B1 USH1C;USH1C TCP11L1;TCP11L1 C1orf159 PKLR;PKLR S100A10 LYN;LYN SRPK1

3'UTR TSS1500 Body;Body Body;Body 5'UTR Body;Body 5'UTR 5'UTR;5'UTR TSS1500

Island

ETS2 GCNT3 ATP11A;ATP11A

Body 5'UTR Body;Body

S_Shelf

AC C

TargetID

N_Shelf N_Shore Island N_Shelf S_Shore N_Shelf

S_Shore

ACCEPTED MANUSCRIPT


17 17 3 2 11 1 6 11 1 17 12 19 16 6 19 2 14 10 14 2 6 11 5 4 4 1 7 12 17 12 17 20 8 18 17 3 8 1

41747669 46030312 160395420 234668834 93465688 223283205 27259010 75082798 153114690 17862149 52509845 4327106 14569598 26240519 2588629 161113856 93604305 101686326 85997519 31637849 30131749 69830611 176827671 185456125 78573680 57293848 40458586 43247617 46667737 62585877 32484259 56272964 102015912 61143926 19649051 169540504 86350919 207262190


RI PT


UCSC_REFGENE_GROUP

PRR15L Body ARL14 1stExon UGT1A10;UGT1A6;UGT1A8;UGT1A4;UGT1A3;UGT1A6;UGT1A9;UGT1A7;UGT1A1;UGT1A5 Body;Body;Body;Body;Body;Body;Body;Body;TSS200;Body SNORA8;SNORA1;SNORA32;SNORD6 TSS200;TSS1500;TSS1500;TSS1500 TLR5 3'UTR Island

SC

-0.10 -0.11 -0.10 -0.11 -0.11 -0.11 0.11 -0.10 -0.11 -0.11 -0.12 0.13 -0.10 0.12 -0.10 -0.10 -0.14 -0.12 0.11 -0.11 -0.13 0.10 0.11 0.10 -0.10 -0.10 -0.11 -0.12 -0.11 0.11 0.12 -0.12 -0.11 -0.10 -0.13 -0.12 0.12 -0.13

UCSC_REFGENE_NAME

SPRR2C TOM1L2;TOM1L2 STAP2;STAP2 PARN;PARN HIST1H4F GNG7

TSS1500 Body;Body

M AN U

-0.01 -0.01 -0.01 -0.02 -0.02 -0.04 0.03 0.00 -0.02 0.00 -0.01 0.02 -0.01 0.01 0.00 0.00 -0.03 -0.02 0.01 -0.01 -0.01 0.01 0.01 0.01 -0.02 0.02 0.00 -0.01 0.00 0.03 0.01 0.00 -0.01 -0.01 -0.03 -0.02 0.00 -0.02

CHR MAPINFO

Body;Body Body;Body TSS200 5'UTR

NCRNA00093;DNMBP FLRT2 XDH TRIM15

TE D

0.10 0.10 0.10 0.09 0.09 0.07 -0.08 0.10 0.09 0.10 0.11 -0.11 0.09 -0.11 0.10 0.10 0.11 0.10 -0.10 0.10 0.11 -0.09 -0.10 -0.09 0.08 0.11 0.11 0.11 0.11 -0.08 -0.10 0.12 0.10 0.10 0.09 0.10 -0.12 0.11

Adj-Pval

PFN3

EP



C7orf10

AC C

TargetID

TSS1500;Body 5'UTR TSS1500 1stExon TSS200

Island N_Shore S_Shore

Island

N_Shore Island

Body

LOC404266;LOC404266 FAM19A2;FAM19A2 ACCN1 PMEPA1;PMEPA1;PMEPA1;PMEPA1

TSS200;TSS200 5'UTR;1stExon TSS1500 5'UTR;5'UTR;Body;Body

SERPINB5 ALDH3A1;ALDH3A1;ALDH3A1 LRRIQ4 CA3 C4BPB;C4BPB;C4BPB;C4BPB;C4BPB

TSS1500 5'UTR;TSS1500;TSS200 1stExon TSS200 TSS1500;TSS1500;TSS200;TSS200;TSS1500

N_Shore Island Island

S_Shore Island

ACCEPTED MANUSCRIPT


9 5 6 8 3 1 6 2 13 9 5 14 3 7 17 6 1 9 19 16 12 2 3 3 6 10 14 9 21 10 6 1 12 7 12 19 20 10

132598917 43411929 30131691 120779899 43778670 87258264 166797738 27349220 80644774 140092222 16738049 93725377 30730226 27220049 37784694 36305155 243646318 139422109 2067739 57653669 16499963 101437805 169588236 24961439 110986361 114133900 60032921 128022358 18884067 87403729 139613426 228652478 71608604 27777487 66275988 17908246 19915769 13534679


C9orf78;USP20;USP20;USP20 CCL28 TRIM15 TAF2

TSS1500;5'UTR;5'UTR;5'UTR Body 1stExon Body

S_Shore

BRP44L ABHD1

TSS1500 Body

S_Shore S_Shelf

Body;Body Body Body Body;Body TSS200 TSS200;Body TSS1500 Body Body

N_Shore

C9orf75;C9orf75 MYO10 BTBD7 TGFBR2;TGFBR2 HOXA10 PPP1R1B;PPP1R1B C6orf222 SDCCAG8 NOTCH1 GPR56;GPR56 MGST1;MGST1;MGST1 NPAS2 LRRC31 CDK19 ACSL5;ACSL5 C14orf38 CXADR GRID1 TXLNB

RI PT


UCSC_REFGENE_GROUP

SC

0.10 -0.10 -0.11 -0.12 -0.10 -0.11 -0.11 -0.11 -0.12 -0.11 -0.11 -0.12 -0.11 -0.11 -0.13 -0.10 0.12 -0.12 -0.11 -0.11 -0.14 -0.10 -0.11 -0.10 -0.11 -0.12 -0.12 -0.12 -0.11 -0.12 0.11 0.10 -0.12 -0.11 0.11 -0.10 -0.10 -0.13

UCSC_REFGENE_NAME

M AN U

0.02 -0.01 -0.02 0.00 -0.02 0.00 -0.01 -0.01 -0.03 -0.02 -0.01 -0.02 -0.02 -0.01 -0.02 -0.01 0.02 -0.02 0.00 0.00 -0.04 0.00 0.00 -0.02 -0.02 -0.02 -0.01 -0.01 -0.01 -0.02 0.01 0.00 -0.01 -0.01 0.01 0.00 -0.02 -0.01

CHR MAPINFO

TE D

-0.08 0.09 0.09 0.12 0.08 0.11 0.10 0.10 0.09 0.10 0.10 0.10 0.10 0.10 0.11 0.09 -0.10 0.10 0.11 0.10 0.10 0.10 0.11 0.08 0.08 0.10 0.11 0.11 0.10 0.10 -0.10 -0.10 0.12 0.10 -0.10 0.10 0.08 0.12

Adj-Pval

EP



AC C

TargetID

TSS1500;TSS1500 TSS1500;TSS200;TSS1500 5'UTR TSS1500

S_Shore S_Shore N_Shore S_Shore S_Shelf

S_Shore

Body TSS1500;TSS200 Body TSS1500 Body TSS1500

N_Shore N_Shore

Island N_Shelf

HMGA2;HMGA2 B3GNT3 RIN2 BEND7;BEND7

Body;Body 5'UTR Body Body;Body

S_Shore

ACCEPTED MANUSCRIPT


16 1 11 2 1 10 18 1 2 7 19 15 13 13 9 5 2 1 13 7 11 5 8 1 2 3 13 17 3 1 3 1 4 6 2 2 2 2

47344826 202054898 68598649 106959384 207206447 695877 21452730 195691043 241630042 142982262 4327350 86086674 46679242 101169858 112970404 130966434 184123747 3567303 112075959 13057352 9285586 167181457 93770567 156616804 161056600 178863507 113426023 37784699 52324089 182021796 23853015 7973298 165898707 119630581 74153213 162838364 227734267 16796185

ITFG1

Body

CPT1A;CPT1A

5'UTR;5'UTR

C1orf116;C1orf116 DIP2C;C10orf108;C10orf108 LAMA3;LAMA3;LAMA3;LAMA3

TSS1500;TSS1500 Body;TSS200;TSS200 TSS1500;TSS1500;Body;Body

RI PT


UCSC_REFGENE_GROUP

SC

-0.12 -0.10 -0.11 -0.12 -0.12 -0.11 -0.10 -0.10 -0.10 -0.11 0.11 -0.11 -0.10 -0.10 -0.11 -0.10 -0.11 0.11 -0.11 -0.10 0.12 -0.12 -0.11 0.11 -0.12 -0.12 -0.10 -0.10 -0.10 -0.11 -0.09 -0.10 0.11 -0.12 -0.11 -0.11 -0.13 -0.09

UCSC_REFGENE_NAME

AQP12A TSS1500 TMEM139;TMEM139 5'UTR;1stExon STAP2;STAP2 Body;Body AKAP13;AKAP13 Body;Body CPB2;CPB2 TSS200;TSS200 PCCA;PCCA Body;Body C9orf152;C9orf152 5'UTR;1stExon RAPGEF6;RAPGEF6;RAPGEF6;RAPGEF6;RAPGEF6;RAPGEF6 Body;Body;Body;Body;Body;Body

M AN U

-0.02 -0.01 0.00 -0.01 -0.01 0.00 -0.01 -0.01 -0.01 0.00 0.00 0.00 0.01 0.00 -0.01 -0.02 -0.02 0.02 -0.01 -0.02 0.02 -0.02 -0.01 0.02 -0.01 0.00 0.00 0.00 -0.02 -0.02 0.01 -0.02 0.01 -0.01 -0.01 0.01 -0.04 0.01

CHR MAPINFO

WDR8

DENND5A ODZ2 BCAN;BCAN ITGB6

TSS1500

TE D

0.10 0.10 0.12 0.11 0.11 0.11 0.10 0.10 0.09 0.11 -0.11 0.11 0.11 0.10 0.10 0.08 0.09 -0.09 0.09 0.08 -0.10 0.09 0.10 -0.09 0.12 0.12 0.10 0.10 0.09 0.10 0.10 0.08 -0.10 0.11 0.11 0.11 0.09 0.11

Adj-Pval

EP




Island

N_Shelf Island

N_Shelf N_Shore Island

Body Body

N_Shore

Body;Body TSS200

Island

ATP11A;ATP11A Body;Body PPP1R1B;PPP1R1B TSS200;Body GLYCTK;GLYCTK;GLYCTK;GLYCTK;GLYCTK;GLYCTKBody;5'UTR;Body;Body;5'UTR;Body

AC C

TargetID

UBE2E1;UBE2E1

Body;Body

TRIM61;TRIM61 MAN1A1 DGUOK;DGUOK SLC4A10 RHBDD1;RHBDD1 FAM49A

1stExon;5'UTR Body TSS1500;TSS1500 3'UTR Body;Body 5'UTR

N_Shelf S_Shore S_Shore S_Shelf N_Shelf S_Shore

N_Shore

ACCEPTED MANUSCRIPT


1 6 11 2 1 5 9 21 5 5 8 13 5 11 3 12 5 11 6 11 19 9 4 17 17 8 7 1 6 4 17 14 13 1 11 22 17 16

174844397 32374956 117947611 202330990 220292508 73934842 36736771 43735844 179591070 147211181 37330004 110337639 16738047 353762 19987528 98986887 73197088 763485 36305071 94278912 45809570 136149908 77625095 2251062 5000872 68022262 77321828 67600547 128830356 39408665 37808629 64565145 58204224 163025988 20180666 46770644 17839409 85363209

RABGAP1L;RABGAP1L BTNL2 TMPRSS4;TMPRSS4 STRADB IARS2;MIR194-1;MIR215 ENC1

TSS1500;Body TSS200 TSS200;TSS200 Body Body;TSS1500;TSS1500 5'UTR

RI PT


UCSC_REFGENE_GROUP

SC

-0.11 -0.12 -0.10 -0.10 -0.12 -0.11 -0.10 -0.11 -0.11 -0.11 -0.11 -0.11 -0.11 -0.10 -0.11 -0.10 -0.10 -0.10 -0.11 -0.11 -0.10 -0.12 -0.11 -0.11 0.10 -0.11 -0.11 0.10 -0.09 -0.11 -0.11 -0.12 0.11 -0.10 0.12 -0.14 -0.09 -0.10

UCSC_REFGENE_NAME

TFF3 RASGEF1C SPINK1;SPINK1

MYO10

TSS200 5'UTR 5'UTR;1stExon

M AN U

0.00 -0.02 -0.01 -0.02 -0.02 0.00 0.00 0.00 -0.03 0.01 0.00 -0.01 -0.02 -0.02 0.00 0.01 -0.01 0.00 -0.01 -0.01 -0.01 -0.01 -0.01 -0.01 0.01 -0.01 0.00 0.01 0.01 -0.01 -0.01 -0.01 0.01 -0.01 0.02 -0.01 0.01 -0.02

CHR MAPINFO


N_Shore N_Shelf S_Shelf

Body

RAB5A SLC25A3;SLC25A3;SLC25A3 RGNEF TALDO1 C6orf222 FUT4;FUT4

TE D

0.11 0.10 0.09 0.08 0.11 0.11 0.10 0.11 0.09 0.12 0.11 0.10 0.09 0.09 0.10 0.11 0.10 0.10 0.10 0.11 0.09 0.10 0.10 0.10 -0.09 0.10 0.11 -0.09 0.11 0.09 0.10 0.11 -0.10 0.09 -0.10 0.12 0.10 0.08

Adj-Pval

TSS1500 TSS1500;TSS1500;TSS1500 Body Body TSS1500 1stExon;3'UTR

ABO SHROOM3 SGSM2;SGSM2

Body Body Body;Body

CSPP1;CSPP1

Body;Body

EP



AC C

TargetID

PTPRK;PTPRK KLB STARD3;STARD3;STARD3 SYNE2;SYNE2

DBX1 CELSR1 TOM1L2;TOM1L2

N_Shelf N_Shore N_Shore

Island S_Shelf N_Shore

Island N_Shelf Island Body;Body 1stExon 5'UTR;5'UTR;5'UTR Body;Body Island Body Body Body;Body

N_Shore Island Island

ACCEPTED MANUSCRIPT


6 5 8 2 3 1 6 20 7 14 17 8 20 2 11 1 3 5 11 19 3 1 8 9 5 7 8 12 6 12 6 11 8 12 5 1 1 3

31845413 115907550 74332522 64770117 149272904 205276235 168064901 31781232 66417818 24809593 77750385 82643680 30914444 43597581 64780896 43751469 112013231 135701240 67326023 2154603 99639553 207224982 66560891 140187948 59784203 137637323 124688770 68142120 26240505 133022760 32374493 113329026 128048403 124941871 147212032 942451 108510531 167809723


SLC44A4 SEMA6A

Body 5'UTR

N_Shore

AFTPH;AFTPH;AFTPH WWTR1;WWTR1;WWTR1 NUAK2

5'UTR;5'UTR;5'UTR Body;Body;Body Body

RI PT


UCSC_REFGENE_GROUP

SC

-0.09 -0.11 -0.11 -0.12 -0.10 -0.12 -0.12 -0.10 -0.10 -0.12 -0.11 -0.12 -0.10 -0.10 -0.10 -0.11 -0.11 0.10 -0.12 -0.10 -0.13 -0.11 -0.10 -0.10 -0.11 -0.11 -0.11 -0.11 0.14 -0.11 -0.10 -0.10 -0.12 0.10 -0.10 -0.10 -0.11 -0.11

UCSC_REFGENE_NAME

BASE C7orf42 RIPK3

TSS200 Body TSS1500

CHMP4C KIF3B THADA;THADA ARL2 C1orf210;C1orf210 SLC9A10 TRPC7;TRPC7;TRPC7

M AN U

0.01 -0.01 -0.01 -0.01 -0.01 -0.01 -0.01 -0.01 -0.01 -0.01 -0.02 -0.02 0.00 -0.01 -0.01 -0.01 0.01 0.01 -0.02 -0.01 -0.02 -0.01 0.01 -0.01 -0.02 -0.01 -0.01 -0.01 0.02 -0.01 -0.02 0.01 -0.03 0.00 0.00 -0.02 0.00 -0.01

CHR MAPINFO

TE D

0.10 0.10 0.09 0.11 0.09 0.11 0.11 0.09 0.09 0.11 0.08 0.10 0.10 0.09 0.09 0.10 0.11 -0.09 0.09 0.09 0.11 0.10 0.11 0.09 0.10 0.09 0.10 0.10 -0.12 0.10 0.08 0.11 0.09 -0.10 0.10 0.08 0.11 0.10

Adj-Pval

C3orf26;FILIP1L;MIR548G;FILIP1L YOD1 MTFR1;MTFR1

EP



PART1;PART1;PDE4D;PART1 CREB3L2

AC C

TargetID

TSS1500 Body Body;Body TSS1500 TSS200;TSS1500 TSS200 TSS200;TSS200;TSS200

S_Shore

S_Shore N_Shore N_Shore

N_Shore

S_Shelf Body;Body;Body;Body TSS1500 5'UTR;5'UTR

N_Shore S_Shelf N_Shore

Body;Body;TSS1500;Body Body

HIST1H4F

TSS200

BTNL2 DRD2;DRD2

Body 5'UTR;5'UTR

NCOR2;NCOR2 SPINK1

Body;Body TSS1500

GOLIM4

Body

N_Shore Island

S_Shore

S_Shelf N_Shelf

ACCEPTED MANUSCRIPT


8 17 6 5 3 3 15 17 10 12 17 1 2 4 3 1 11 16 8 6 10 10 8 9 6 5 8 5 10 6 4 16 2 11 17 7 17 13

65291513 67497879 27173910 53603562 27401810 30301024 42448079 58822074 63212226 6421474 48620661 156031182 114735571 87030123 38034235 101204337 62481055 89220516 59942923 25137864 96443383 15376939 19295809 97402555 41007522 82117656 40010823 140098576 10847844 30131755 140656749 57653530 46088325 952928 39685912 99674959 75370611 113759771


MIR124-2 MAP2K6

TSS200 Body

S_Shore

ARL15 NEK10

Body 5'UTR

PLA2G4F;PLA2G4F BCAS3;BCAS3 TMEM26 PLEKHG6;PLEKHG6;PLEKHG6 EPN3 RAB25;RAB25

Body;Body Body;Body Body TSS1500;Body;Body 3'UTR 1stExon;5'UTR

RI PT


UCSC_REFGENE_GROUP

SC

0.12 -0.10 0.10 -0.10 -0.12 -0.11 -0.12 -0.12 0.11 -0.10 -0.10 -0.11 -0.11 -0.10 -0.11 -0.11 -0.11 -0.10 -0.13 0.11 -0.10 -0.10 -0.12 -0.10 -0.11 -0.10 -0.15 -0.10 -0.11 -0.12 0.10 -0.11 0.10 -0.12 -0.11 -0.11 0.11 -0.10

UCSC_REFGENE_NAME

M AN U

0.00 0.01 0.02 -0.01 -0.01 -0.01 -0.02 -0.01 0.01 -0.01 -0.01 -0.01 -0.01 -0.02 -0.01 -0.01 -0.01 -0.01 -0.01 0.00 -0.02 -0.01 -0.02 -0.01 -0.01 -0.02 -0.03 -0.01 0.00 -0.02 0.00 -0.01 -0.01 -0.01 -0.01 0.01 0.01 -0.01

CHR MAPINFO

MAPK10;MAPK10;MAPK10;MAPK10 VILL VCAM1;VCAM1

TSS1500;Body;Body;Body TSS1500 3'UTR;3'UTR

ACSF3;ACSF3;ACSF3 TOX CMAH;CMAH CYP2C18;CYP2C18;CYP2C18;CYP2C18 FAM171A1 CSGALNACT1;CSGALNACT1;CSGALNACT1 FBP1;FBP1 UNC5CL

Body;Body;Body Body Body;Body 1stExon;5'UTR;5'UTR;1stExon Body Body;Body;Body TSS200;TSS1500 TSS1500

C8orf4 VTRNA1-2

TSS200 Body

TRIM15 MAML3 GPR56;GPR56 PRKCE AP2A2 KRT19 ZNF3;ZNF3 SEPT9;SEPT9;SEPT9;SEPT9 F7;F7

1stExon Body TSS1500;TSS1500 Body Body TSS1500 Body;Body 5'UTR;Body;Body;Body TSS1500;TSS1500

TE D

-0.12 0.11 -0.08 0.10 0.11 0.10 0.10 0.11 -0.10 0.10 0.10 0.10 0.09 0.09 0.10 0.10 0.10 0.09 0.12 -0.12 0.08 0.09 0.10 0.09 0.09 0.08 0.12 0.09 0.10 0.11 -0.10 0.10 -0.11 0.10 0.10 0.11 -0.10 0.10

Adj-Pval

EP



AC C

TargetID

N_Shelf

N_Shore S_Shore S_Shore N_Shore N_Shore S_Shelf S_Shore N_Shelf

S_Shore

Island

S_Shore N_Shelf S_Shore N_Shore

ACCEPTED MANUSCRIPT


7 6 12 5 6 2 16 10 11 16 5 12 19 8 3 12 14 11 4 7 8 1 21 3 9 16 12 13 1 15 2 17 21 14 6 12 17 7

130682239 30103696 107039017 175976402 22718574 121223909 14204906 11206813 77183807 57654347 126000303 7818654 38129121 71240128 197247751 14361288 93897195 108464931 37585660 985839 90624127 29587117 43135949 49938004 129148742 89900495 123347684 113648607 91301962 90569017 235789476 46667789 43736926 92790285 46617172 113795897 78152328 16524513

FLJ43663;FLJ43663 TRIM40 RFX4;RFX4 PCDH24;PCDH24

Body;Body TSS1500 Body;Body 5'UTR;1stExon

LOC84931 MKL2 CUGBP2;CUGBP2;CUGBP2;CUGBP2 PAK1;PAK1 GPR56;GPR56

Body 5'UTR TSS200;Body;Body;TSS200 5'UTR;5'UTR 5'UTR;5'UTR

APOBEC1 ZFP30 NCOA2 BDH1;BDH1;BDH1 KIAA1409 EXPH5 C4orf19;C4orf19 ADAP1

PTPRU;PTPRU;PTPRU C21orf129;NCRNA00112 MST1R FAM125B;FAM125B SPIRE2


RI PT


UCSC_REFGENE_GROUP

SC

-0.10 -0.11 -0.10 -0.11 -0.11 -0.10 -0.10 0.10 -0.12 -0.10 -0.10 -0.10 -0.11 -0.12 -0.12 -0.11 0.11 -0.11 -0.11 -0.11 -0.11 0.12 -0.10 -0.12 -0.12 -0.11 -0.10 -0.12 0.13 -0.11 -0.12 -0.09 -0.11 0.12 -0.09 -0.10 -0.11 -0.10

UCSC_REFGENE_NAME

M AN U

0.00 -0.01 0.00 -0.02 -0.01 0.00 -0.01 0.01 -0.02 -0.02 -0.01 -0.02 -0.02 -0.02 -0.02 0.00 0.01 -0.01 -0.01 0.00 -0.02 0.03 -0.01 -0.02 -0.01 0.00 0.00 -0.01 0.03 0.00 0.00 0.02 -0.01 0.02 0.01 -0.02 0.00 -0.01

CHR MAPINFO

TE D

0.10 0.10 0.10 0.09 0.10 0.10 0.10 -0.09 0.11 0.09 0.09 0.09 0.08 0.10 0.11 0.11 -0.09 0.09 0.10 0.11 0.09 -0.09 0.10 0.10 0.11 0.10 0.10 0.11 -0.10 0.11 0.12 0.11 0.09 -0.10 0.10 0.09 0.11 0.10

Adj-Pval

EP



AC C

TargetID

N_Shore N_Shore

TSS200 Body 5'UTR Body;Body;Body 5'UTR TSS1500 TSS200;5'UTR Body

Island S_Shore

Body;Body;Body TSS200;TSS1500 Body Body;Body Body

Island

MCF2L;MCF2L

Body;Body

ZNF710

5'UTR

LOC404266;LOC404266 TFF3 SLC24A4;SLC24A4;SLC24A4 CYP39A1 PLBD2;PLBD2 CARD14;CARD14

TSS200;TSS200 TSS1500 1stExon;5'UTR;1stExon Body TSS1500;TSS1500 1stExon;5'UTR

Island

N_Shelf Island N_Shelf Island S_Shore

N_Shore Island N_Shelf N_Shore N_Shelf

ACCEPTED MANUSCRIPT


1 6 1 2 1 6 15 10 15 17 5 3 21 6 11 15 1 16 17 20 1 11 2 5 1 10 4 7 4 17 14 12 4 11 22 7 4 3

61520399 12701873 942471 100426973 32681995 56514787 84706833 14091532 90357521 10707547 16737972 9006242 43737014 54172183 130059700 41121463 221741553 83029415 19648925 33135025 51796987 65560635 192353242 158481256 39624920 29228916 79971432 27197614 154125374 19648970 74179953 14849268 2038352 2925473 17091223 19813299 74962195 53877436

RELATION_TO_UCSC_CPG_ISLAND S_Shore

RI PT


UCSC_REFGENE_GROUP

AFF3;AFF3 C1orf91 DST;DST;DST;DST ADAMTSL3 FRMD4A ANPEP MYO10 RAD18 TFF3 TINAG ST14 PPP1R14D;PPP1R14D

Body;Body 3'UTR Body;Body;Body;Body 3'UTR Body 5'UTR

SC

-0.11 -0.10 -0.11 -0.10 -0.11 -0.11 -0.11 -0.11 0.10 -0.12 -0.10 -0.13 -0.11 -0.11 -0.11 -0.12 -0.10 -0.11 -0.11 -0.10 -0.11 -0.10 -0.10 -0.10 -0.10 -0.10 -0.13 -0.11 -0.14 -0.11 0.11 -0.12 -0.12 -0.11 0.10 0.11 -0.10 -0.12

UCSC_REFGENE_NAME

Body TSS1500 TSS1500 TSS1500 Body TSS1500;TSS1500

M AN U

-0.01 0.01 -0.02 0.01 -0.01 -0.01 -0.03 -0.01 0.01 -0.01 -0.02 -0.01 -0.01 -0.01 0.00 -0.03 0.00 -0.02 -0.01 -0.01 -0.02 0.00 0.00 0.01 0.00 -0.01 -0.02 -0.01 -0.02 -0.02 0.00 0.00 -0.02 -0.01 0.01 0.00 0.00 -0.01

CHR MAPINFO

Island

S_Shore

Island

CDH13 ALDH3A1;ALDH3A1;ALDH3A1 MAP1LC3A TTC39A OVOL1

Body 5'UTR;TSS200;TSS200 5'UTR Body Body

EBF1 MACF1

Body Body

S_Shelf

HOXA7 TRIM2;TRIM2 ALDH3A1;ALDH3A1;ALDH3A1 PNMA1 GUCY2C

TSS1500 TSS1500;5'UTR 5'UTR;TSS200;TSS200 1stExon 1stExon

N_Shore

SLC22A18;SLC22A18;SLC22A18AS psiTPTE22 TMEM196

Body;Body;TSS1500 Body TSS1500

CHDH

5'UTR

TE D

0.10 0.11 0.09 0.10 0.11 0.10 0.08 0.10 -0.09 0.11 0.08 0.12 0.10 0.10 0.10 0.09 0.10 0.09 0.09 0.10 0.09 0.10 0.10 0.11 0.10 0.10 0.11 0.10 0.11 0.10 -0.10 0.12 0.11 0.10 -0.09 -0.11 0.10 0.11

Adj-Pval

EP



AC C

TargetID

S_Shore S_Shore

S_Shore N_Shore N_Shelf S_Shore Island S_Shore N_Shelf N_Shelf

ACCEPTED MANUSCRIPT


1 7 18 10 4 10 12 15 2 19 7 11 4 6 10 3 16 3 2 1 5 11 15 8 4 4 15 8 10 11 4 4 19 15 12 17 17 12

27240514 95546508 54789058 105845720 154125681 126435795 95010029 53086857 114045972 39303506 156407145 78524048 1401409 36304683 547025 108476878 3696402 182970675 69997225 2222253 131841158 122387899 45671028 10405379 37585361 11531391 45671016 27452753 12087933 60926056 106472990 74902951 39108672 99057732 18869080 74639894 14603178 53320306

NR0B2;NR0B2 DYNC1I1;DYNC1I1;DYNC1I1

1stExon;5'UTR Body;Body;Body

COL17A1 TRIM2;TRIM2;TRIM2

TSS200 5'UTR;1stExon;5'UTR

TMCC3

Body

RI PT


UCSC_REFGENE_GROUP

SC

-0.11 -0.10 0.12 -0.10 -0.11 -0.11 -0.11 0.10 -0.11 -0.11 -0.10 -0.11 0.11 -0.11 0.11 -0.12 -0.10 -0.10 -0.11 0.13 -0.12 -0.10 0.12 -0.11 -0.11 -0.11 0.11 -0.10 -0.11 -0.10 -0.10 -0.11 0.10 -0.11 -0.11 -0.10 -0.10 -0.11

UCSC_REFGENE_NAME

LOC440839 LGALS4

Body 1stExon

ODZ4

M AN U

-0.01 0.00 -0.01 -0.01 -0.01 0.00 -0.01 0.00 0.00 -0.01 -0.01 -0.02 0.01 -0.01 0.01 -0.01 -0.02 0.00 0.00 0.02 -0.02 -0.01 0.01 0.00 0.00 -0.01 0.00 0.00 0.01 -0.01 -0.01 -0.01 0.01 0.00 -0.01 -0.02 0.01 -0.01

CHR MAPINFO


Island

S_Shelf Island N_Shelf N_Shore

Body

C6orf222 DIP2C RETNLB

Island

TSS200 Body TSS1500

MCF2L2;B3GNT5 ANXA4 SKI

TE D

0.10 0.10 -0.13 0.09 0.09 0.10 0.10 -0.10 0.11 0.11 0.10 0.09 -0.11 0.09 -0.10 0.11 0.08 0.11 0.11 -0.11 0.10 0.09 -0.11 0.11 0.11 0.09 -0.11 0.11 0.12 0.09 0.09 0.09 -0.09 0.11 0.09 0.09 0.10 0.10

Adj-Pval

LOC145663;GATM

EP



Body;TSS1500 5'UTR Body

N_Shore

Body;TSS200

Island

C4orf19;C4orf19

TSS1500;5'UTR

LOC145663;GATM

Body;TSS200

AC C

TargetID

VPS37C FLJ20184 CXCL3 MAP4K1;EIF3K;MAP4K1 FAM169B PLCZ1 ST6GALNAC1

5'UTR TSS1500 3'UTR TSS200;TSS1500;TSS200 TSS200 Body TSS200

Island

Island S_Shelf S_Shelf N_Shelf N_Shore N_Shore

ACCEPTED MANUSCRIPT


7 11 4 6 16 17 3 8 5 3 10 16 1 19 3 17 10 15 15 6 1 20 2 11 11 5 8 6 12 13 7 1 10 22 10 5 5 6

39056400 102669090 57035957 54173316 89169858 26127542 19987815 30389210 37717768 157813609 103603869 50276772 201979938 5846599 170529777 39678679 11207437 92701885 37395115 32976805 156627099 43029777 238207644 82804113 95828805 95063827 101485532 144217883 131196417 76334039 95115026 151345173 123779362 46774204 106400824 133867864 59783629 35889893


POU6F2;POU6F2 MMP1;MMP1 KIAA1211 TINAG;TINAG ACSF3;ACSF3;ACSF3 NOS2;NOS2 RAB5A RBPMS;RBPMS;RBPMS;RBPMS WDR70

Body;Body TSS200;TSS200 TSS1500 1stExon;5'UTR Body;Body;Body 1stExon;5'UTR TSS1500 Body;Body;Body;Body Body

S_Shore

RI PT


UCSC_REFGENE_GROUP

SC

-0.10 -0.11 -0.11 -0.12 -0.11 -0.10 -0.10 -0.11 -0.11 0.12 0.11 -0.11 -0.12 -0.13 -0.11 -0.10 0.12 -0.11 0.10 -0.11 0.11 -0.14 -0.11 -0.11 -0.10 -0.11 -0.09 -0.11 -0.11 -0.11 -0.12 -0.11 -0.10 -0.11 0.11 -0.10 -0.11 -0.12

UCSC_REFGENE_NAME

KCNIP2;KCNIP2;KCNIP2;KCNIP2;KCNIP2;KCNIP2 TSS200;TSS200;TSS200;TSS200;TSS200;TSS200 ELF3;ELF3;ELF3 FUT3;FUT3;FUT3;FUT3

M AN U

0.00 0.02 -0.01 -0.01 -0.01 0.00 -0.01 -0.01 -0.02 0.01 0.02 -0.02 -0.02 -0.01 -0.04 -0.01 0.01 -0.05 -0.01 -0.02 0.01 -0.01 -0.03 -0.02 0.00 0.00 0.01 -0.02 -0.03 -0.01 -0.02 -0.01 -0.01 -0.01 0.01 -0.02 -0.01 0.00

CHR MAPINFO

CUGBP2;CUGBP2;CUGBP2;CUGBP2 SLCO3A1;SLCO3A1

TE D

0.10 0.13 0.10 0.10 0.09 0.10 0.09 0.10 0.09 -0.11 -0.09 0.09 0.10 0.12 0.07 0.10 -0.12 0.07 -0.10 0.09 -0.10 0.13 0.08 0.09 0.11 0.11 0.10 0.09 0.09 0.10 0.10 0.10 0.10 0.10 -0.09 0.08 0.10 0.11

Adj-Pval

HLA-DOA BCAN HNF4A;HNF4A;HNF4A;HNF4A;HNF4A;HNF4A

EP



MAML2

AC C

TargetID

5'UTR;5'UTR;1stExon 5'UTR;5'UTR;5'UTR;5'UTR

Body;5'UTR;Body;5'UTR Body;Body Body Body TSS200;Body;TSS200;Body;Body;TSS200

N_Shore

N_Shore S_Shore N_Shelf S_Shelf

Island S_Shore S_Shore N_Shore

Body N_Shelf

C6orf94

Body

LMO7;LMO7 ASB4;ASB4 SELENBP1 TACC2;TACC2 CELSR1 SORCS3 PHF15 PART1;PART1;PDE4D;PART1 SRPK1

TSS1500;Body TSS1500;TSS1500 TSS200 5'UTR;5'UTR Body TSS200 5'UTR TSS200;Body;5'UTR;TSS200 TSS1500

N_Shelf

N_Shelf Island

S_Shore

ACCEPTED MANUSCRIPT


11 7 1 15 18 4 3 5 19 7 15 10 3 4 4 1 1 13 2 19 4 10 20 17 2 16 6 15 1 14 6 20 7 7 1 7 2 9

102826565 80550531 95285252 27215997 21452788 69771757 124654885 90172358 34790692 130572465 69849786 73687855 125655407 79971408 41749443 1974844 180923847 107910972 208795859 58446745 74921023 70321554 42984276 6455368 234601443 12010698 54172997 41149780 84876625 74263077 134999799 42187103 73408101 101171330 230322024 33793736 66667039 112970590

MMP13

TSS200

SLC44A3;SLC44A3 GABRG3 LAMA3;LAMA3;LAMA3;LAMA3

TSS1500;TSS1500 TSS1500 TSS200;TSS200;Body;Body

MUC13 GPR98;GPR98 KIAA0355

TSS1500 Body;Body 5'UTR

RI PT


UCSC_REFGENE_GROUP


S_Shore N_Shore Island

SC

-0.11 -0.11 -0.10 0.10 -0.10 -0.10 -0.11 -0.11 -0.12 -0.10 -0.11 -0.11 -0.11 -0.11 0.10 -0.09 -0.10 -0.11 -0.10 0.12 -0.12 0.10 -0.10 -0.14 -0.11 -0.11 -0.12 -0.10 -0.11 -0.11 -0.10 -0.12 -0.11 -0.11 -0.11 -0.11 0.10 -0.14

UCSC_REFGENE_NAME

M AN U

0.00 -0.01 -0.01 -0.01 -0.01 -0.01 -0.01 -0.03 -0.01 0.00 -0.01 -0.01 -0.02 -0.02 0.01 0.01 -0.02 -0.01 0.00 0.00 -0.02 -0.01 0.01 -0.03 -0.01 -0.01 -0.01 -0.01 0.01 -0.03 -0.01 -0.01 0.00 0.00 -0.01 0.00 -0.01 -0.04

CHR MAPINFO

ALG1L

5'UTR

PHOX2B

Body

FAM155A Body PLEKHM3 Body ZNF418 TSS200 PPBPL2 Body TET1 5'UTR HNF4A;HNF4A;HNF4A TSS200;TSS200;TSS200 PITPNM3;PITPNM3 Body;Body UGT1A6;UGT1A10;UGT1A6;UGT1A9;UGT1A7;UGT1A8 TSS200;Body;5'UTR;Body;Body;Body GSPT1;GSPT1;GSPT1 TSS1500;TSS1500;TSS200 TINAG TSS1500 SPINT1;SPINT1;SPINT1 3'UTR;3'UTR;3'UTR DNASE2B;DNASE2B 5'UTR;Body

TE D

0.11 0.10 0.09 -0.11 0.09 0.09 0.10 0.08 0.10 0.10 0.10 0.10 0.09 0.09 -0.09 0.10 0.09 0.09 0.10 -0.11 0.10 -0.11 0.10 0.11 0.10 0.09 0.11 0.09 0.12 0.08 0.09 0.12 0.11 0.11 0.10 0.11 -0.10 0.10

Adj-Pval

EP



AC C

TargetID

SGK2

TSS1500

EMID2 GALNT2

Body Body

MEIS1 C9orf152

Body TSS200

Island Island S_Shore Island Island S_Shore N_Shelf S_Shore

ACCEPTED MANUSCRIPT


12 6 12 11 15 5 8 2 12 3 5 17 3 1 7 17 2 13 12 7 21 9 8 2 7 8 1 2 22 3 12 8 4 6 10 7 7 7

15733874 32784676 96052514 5324199 45404157 70897396 120427810 107679531 12223989 79189311 32713290 30488883 65779802 27189787 25897907 96392 145202065 46717665 80086054 99292361 43809567 27282776 32076032 159396150 136553868 145642114 6342159 66667059 46921967 101832645 25611175 22439831 109799253 28889876 77165025 136553728 17018326 80551731

PTPRO;PTPRO;PTPRO;PTPRO;PTPRO;PTPRO HLA-DOB NTN4 OR51B4 DUOX2 MCCC2 NOV

Body;Body;Body;Body;Body;Body 1stExon 3'UTR TSS1500 Body Body TSS1500

BCL2L14;BCL2L14;BCL2L14;BCL2L14 ROBO1 NPR3 RHOT1;RHOT1;RHOT1 MAGI1;MAGI1;MAGI1 SFN RPH3AL ZEB2;ZEB2 LCP1 PAWR

RI PT


UCSC_REFGENE_GROUP

SC

-0.11 -0.11 -0.10 -0.09 0.10 -0.10 -0.11 -0.11 -0.10 -0.11 0.10 -0.11 -0.11 -0.10 -0.10 -0.10 -0.10 -0.11 -0.10 -0.10 -0.10 -0.10 -0.10 -0.10 0.10 -0.10 -0.12 0.10 -0.10 -0.10 -0.10 -0.10 -0.13 -0.10 -0.10 0.11 -0.11 -0.10

UCSC_REFGENE_NAME

5'UTR;TSS1500;1stExon;TSS1500 Body Body Body;Body;Body Body;Body;Body 1stExon

M AN U

0.00 -0.03 0.00 0.01 0.02 -0.01 0.00 -0.02 -0.01 0.00 -0.01 -0.01 -0.02 -0.01 -0.02 -0.01 -0.02 -0.01 0.01 -0.01 -0.02 -0.02 -0.03 -0.01 0.01 -0.02 -0.02 0.00 -0.01 -0.02 -0.02 -0.01 -0.03 -0.01 -0.01 0.01 -0.02 0.01

CHR MAPINFO

TE D

0.11 0.08 0.11 0.11 -0.08 0.09 0.10 0.09 0.09 0.11 -0.11 0.09 0.09 0.09 0.09 0.09 0.08 0.10 0.11 0.09 0.09 0.09 0.07 0.10 -0.09 0.09 0.11 -0.10 0.10 0.09 0.09 0.09 0.10 0.09 0.09 -0.10 0.09 0.11

Adj-Pval

Body Body;Body Body TSS1500


Island N_Shore

Island

N_Shore N_Shore N_Shelf

S_Shore

TMPRSS3;TMPRSS3;TMPRSS3 Body;TSS1500;Body NCRNA00032;NCRNA00032 Body;Body NRG1 Body PKP4;PKP4 Body;Body CHRM2;CHRM2;CHRM2;CHRM2;CHRM2;CHRM2;CHRM2;CHRM2;CHRM2;CHRM2;CHRM2 1stExon;5'UTR;5'UTR;5'UTR;5'UTR;5'UTR;TSS200;1stExon;1stExon;TSS200;5'UTR Island SLC39A4;SLC39A4 1stExon;TSS200 Island ACOT7;ACOT7;ACOT7;ACOT7 Body;Body;Body;Body S_Shore MEIS1 Body CELSR1 Body

EP



AC C

TargetID

PDLIM2;PDLIM2;PDLIM2 Body;Body;Body S_Shelf COL25A1;COL25A1 Body;Body TRIM27 Body N_Shore C10orf41;C10orf41 Body;Body Island CHRM2;CHRM2;CHRM2;CHRM2;CHRM2;CHRM2;CHRM2;CHRM2;CHRM2;CHRM2 1stExon;1stExon;5'UTR;TSS200;TSS1500;5'UTR;TSS200;TSS200;TSS1500;TSS200 N_Shore S_Shelf

ACCEPTED MANUSCRIPT


17 14 2 11 16 1 12 3 20 5 4 7 6 12 11 1 1 14 5 15 19 4 17 12 17 8 6 11 2 1 2 10 16 4 1 11 4 4

19648972 23290144 233844709 20181879 55909393 23003569 85673200 58728175 43803224 132561319 113839045 102790406 139976849 6421437 133825319 174844490 42630335 65405931 76923988 84168459 5851616 667306 50237844 11760705 78060121 101736708 7165647 130059549 223291007 201979846 44502740 61802440 87441441 159704293 224400672 129869654 56659985 42154840


ALDH3A1;ALDH3A1;ALDH3A1 SLC7A7 NGEF DBX1 CES7;CES7

5'UTR;TSS1500;TSS200 TSS1500 5'UTR TSS200 TSS200;TSS200

S_Shore N_Shore

ALX1 C3orf67 PI3 FSTL4 ANK2 NAPEPLD;NAPEPLD

TSS1500 3'UTR TSS1500 Body Body TSS1500;TSS1500

RI PT


UCSC_REFGENE_GROUP

SC

-0.10 -0.09 -0.11 0.11 -0.11 -0.12 0.10 -0.10 -0.08 -0.11 -0.11 -0.10 -0.10 -0.10 0.11 -0.12 -0.11 -0.12 0.10 -0.11 -0.10 -0.11 0.10 -0.10 -0.12 -0.11 -0.10 -0.11 -0.10 -0.11 -0.11 -0.12 -0.10 -0.11 -0.10 -0.11 0.10 0.10

UCSC_REFGENE_NAME

M AN U

-0.01 0.01 -0.01 0.00 -0.03 -0.01 -0.01 0.01 0.02 -0.01 0.00 0.00 -0.01 -0.01 0.00 -0.01 -0.02 -0.01 0.01 -0.02 0.01 -0.01 -0.02 0.00 -0.01 -0.01 -0.01 -0.01 -0.01 -0.01 -0.01 -0.02 -0.01 -0.01 -0.01 0.00 0.00 0.02

CHR MAPINFO

PLEKHG6;PLEKHG6;PLEKHG6 IGSF9B RABGAP1L;RABGAP1L GUCA2A GPX2

TE D

0.09 0.10 0.10 -0.12 0.07 0.11 -0.11 0.11 0.10 0.10 0.11 0.10 0.09 0.09 -0.11 0.10 0.10 0.11 -0.10 0.09 0.11 0.10 -0.12 0.10 0.11 0.10 0.09 0.10 0.09 0.10 0.10 0.10 0.09 0.10 0.09 0.11 -0.10 -0.08

Adj-Pval

SH3GL3;SH3GL3 FUT3;FUT3;FUT3;FUT3 ATP5I CA10;CA10

EP



TSS1500;Body;Body Body Body;TSS200 1stExon 3'UTR

Island Island N_Shore

S_Shore S_Shore N_Shore

Island Body;Body TSS200;TSS200;TSS200;TSS200 Body TSS1500;TSS1500

CCDC40

Body

RREB1;RREB1;RREB1;RREB1 ST14 SGPP2 ELF3;ELF3;ELF3 SLC3A1 ANK3;ANK3 ZCCHC14 FNIP2

5'UTR;5'UTR;5'UTR;5'UTR Body Body 5'UTR;5'UTR;1stExon 1stExon 3'UTR;3'UTR 3'UTR Body

PRDM10;PRDM10

5'UTR;5'UTR

BEND4;BEND4;BEND4;BEND4

1stExon;5'UTR;5'UTR;1stExon

AC C

TargetID

Island S_Shore

S_Shore Island S_Shore

Island

N_Shelf Island Island

ACCEPTED MANUSCRIPT


17 5 3 6 6 1 6 3 2 1 13 1 4 20 16 6 6 6 6 21 2 2 3 18 20 17 11 12 3 10 20 7 6 7 19 11 6

203087 41510116 58479231 44698734 18273503 145727762 46761071 14605870 127414827 55107132 109149011 67603174 74542972 21589093 78233495 44529081 26240579 52268609 109615455 43786699 241808004 114033360 187975150 55019307 44168796 49816628 6191635 105414154 124653659 1234332 25230959 156309358 71126015 142982463 58446758 763339 38141879


RPH3AL PLCXD3 KCTD6

TSS1500 Body 5'UTR

N_Shelf Island S_Shore S_Shelf N_Shelf

PDZK1 MEP1A

5'UTR TSS200

GYPC;GYPC C1orf175;C1orf175

WWOX;WWOX

RI PT

4.06E-04 4.08E-04 4.08E-04 4.08E-04 4.09E-04 4.11E-04 4.11E-04 4.13E-04 4.14E-04 4.14E-04 4.15E-04 4.16E-04 4.16E-04 4.17E-04 4.17E-04 4.17E-04 4.18E-04 4.18E-04 4.18E-04 4.18E-04 4.19E-04 4.19E-04 4.19E-04 4.20E-04 4.21E-04 4.22E-04 4.22E-04 4.22E-04 4.25E-04 4.25E-04 4.27E-04 4.28E-04 4.31E-04 4.31E-04 4.31E-04 4.31E-04 4.31E-04

UCSC_REFGENE_GROUP

SC

-0.12 0.10 -0.09 -0.11 -0.13 -0.10 -0.11 -0.11 0.11 -0.11 0.10 -0.11 -0.10 -0.11 -0.12 0.10 0.11 -0.13 -0.12 -0.12 -0.10 0.12 -0.10 0.08 -0.10 -0.12 -0.12 -0.10 -0.12 -0.11 -0.13 -0.13 -0.11 -0.12 0.10 -0.10 -0.09

UCSC_REFGENE_NAME

Body;Body TSS1500;TSS1500

M AN U

-0.03 0.01 0.01 -0.02 -0.02 0.01 0.00 -0.02 0.01 -0.01 -0.01 -0.02 0.00 -0.01 -0.01 0.00 0.01 -0.02 -0.03 -0.01 -0.01 0.01 -0.01 -0.03 0.00 0.00 -0.03 -0.01 0.00 -0.01 -0.01 -0.01 -0.01 0.00 0.00 -0.02 0.01

CHR MAPINFO

S_Shore Island S_Shelf

Body;Body

HIST1H4F PAQR8 CCDC162 TFF1 AGXT PAX8;PAX8;PAX8;PAX8;PAX8;LOC440839 LPP;LPP;LPP ST8SIA3 WFDC6 CA10;CA10;CA10 OR52B2 ALDH1L2;ALDH1L2 MUC13 ADARB2 PYGB

TSS200 Body TSS200 TSS200 TSS200 Body;Body;Body;Body;Body;Body 5'UTR;5'UTR;5'UTR TSS1500 TSS1500 Body;Body;Body TSS200 Body;3'UTR TSS200 Body Body

N_Shore S_Shore S_Shelf

FAM135A;FAM135A TMEM139;TMEM139 ZNF418 TALDO1 BTBD9;BTBD9;BTBD9

5'UTR;5'UTR 5'UTR;1stExon TSS200 Body

S_Shelf N_Shelf Island

TE D

0.09 -0.09 0.10 0.10 0.11 0.10 0.10 0.08 -0.10 0.10 -0.11 0.10 0.10 0.10 0.11 -0.10 -0.10 0.11 0.09 0.11 0.09 -0.10 0.09 -0.11 0.10 0.12 0.09 0.10 0.12 0.10 0.11 0.12 0.10 0.12 -0.10 0.08 0.10

Adj-Pval

EP

cg02671171 cg25950625 cg13615367 cg21572599 cg08415731 cg10321723 cg02449202 cg03417788 cg24064594 cg13428567 cg15292275 cg02341559 cg17679619 cg04543516 cg07747924 cg24428325 cg05159188 cg16277229 cg15411840 cg02643667 cg18315762 cg25243455 cg26124569 cg05826255 cg16932304 cg17326372 cg20213166 cg14255981 cg22907034 cg02069524 cg04348305 cg09387486 cg02023912 cg08261841 cg12961842 cg18089519 cg01504030


AC C

TargetID

Island N_Shore

S_Shelf S_Shore

EP

TE D

M AN U

SC

RI PT

ERROR: syntaxerror OFFENDING COMMAND: --nostringval-STACK:

AC C

ACCEPTED MANUSCRIPT

ACCEPTED MANUSCRIPT Supplementary Table 2. Markers from Illumina Infinium OncoArray-500K that showed differential genotypes among intratumoral regions. SNP

Chr

MapInfo

TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT TOP BOT TOP BOT BOT BOT TOP BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT TOP BOT

[A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/G] [A/C] [A/G] [A/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/T] [T/C] [T/C] [A/G] [A/G] [G/C] [G/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [A/C] [A/G] [A/G] [A/G] [G/C] [G/C] [A/G] [T/C]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

1110557 1854321 2418935 2441020 3408706 3421897 3421897 4017137 4309953 4343581 4375859 4501911 4679731 4709054 4746636 4891736 4908901 4968528 5011402 5051710 5061519 5090997 5158857 5240211 5240211 5270133 5297887 5321139 5549525 5587507 5605115 5605115 5680572 5717948 6013813 6387276 7052566 7138994 7173895 7217727 7331347 7343666 7461520 7461520 7461520 7461520 7513252 7838691 7861684 7861684 7888158 7946819 8042736 8519604 8519604 8868406 8918795

RI PT

IlmnStrand

M AN U

TE D

AC C

EP

rs79295821 rs2250833 rs10910082 rs75875515 rs74820022 rs2821008 rs2821008 rs7522140 rs6679489 rs16838549 rs10915509 rs12128230 rs4654574 chr1_4709054_A_C rs10915587 rs2025378 rs6683849 rs6678459 rs9426490 rs6683624 rs10158288 chr1_5090997_A_G rs9803863 rs7547229 rs7547229 chr1_5270133_A_T rs586165 rs630153 rs11260698 chr1_5587507_C_T chr1_5605115_C_G chr1_5605115_C_G rs10157819 rs1763321 chr1_6013813_A_G rs6577570 rs6681529 rs74423050 rs7527268 rs9434483 rs2412147 rs6687562 chr1_7461520_C_T chr1_7461520_C_T chr1_7461520_C_T chr1_7461520_C_T rs1193247 rs707460 rs707467 rs707467 rs228698 rs60057745 chr1_8042736_A_G chr1_8519604_C_G chr1_8519604_C_G rs12137865 rs11121247

Intratumoral region showing more genotype difference Col_12_CB Col_08_CB Col_12_CB Col_33_IF Col_16_CB Col_52_TS Col_12_CB Col_12_CB Col_12_CB Col_08_TS Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_52_IF Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_33_CB Col_52_CB Col_12_TS Col_12_CB Col_33_CB Col_33_CB Col_33_IF Col_12_CB Col_33_CB Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_16_TS Col_33_CB Col_52_IF Col_12_IF Col_12_CB Col_34_TS Col_33_IF Col_38_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_33_IF

SC

Marker ID

1

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT TOP TOP BOT TOP TOP BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT PLUS TOP TOP TOP TOP BOT TOP BOT BOT TOP TOP BOT TOP TOP TOP TOP

[T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/G] [A/C] [T/A] [T/A] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/G] [T/G] [C/G] [T/C] [A/C] [T/G] [T/G] [T/A] [T/C] [T/C] [A/G] [A/G] [T/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [T/C] [T/G] [I/D] [A/G] [A/G] [A/G] [A/T] [T/C] [A/G] [T/C] [T/G] [A/G] [A/G] [T/C] [A/G] [A/C] [A/G] [A/G]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

9256200 9358243 9627103 10210381 10290421 10343648 10363734 10371854 10385471 10418277 10448260 10454502 10454502 10549380 10552718 10567658 10595211 10624468 10635121 10712030 10712031 10712031 10862323 10880652 10889015 10974329 10986308 11060799 11207648 11626858 11717300 11828319 11854476 11873851 11876417 12024235 12741240 13176463 13938511 14146935 14190669 14208571 14209336 14261909 14267899 14346629 14346629 14575256 14726429 14729115 14740155 14744591 15111927 15117060 15258425 15359710 15414413 15444675 15593666 15643218

SC

M AN U TE D

AC C

EP

rs4908823 rs621846 rs12124860 chr1_10210381_A_G chr1_10290421_C_T chr1_10343648_A_G chr1_10363734_C_T rs17410217 rs17401966 chr1_10418277_G_T chr1_10448260_G_T chr1_10454502_A_T chr1_10454502_A_T chr1_10549380_A_G chr1_10552718_C_T chr1_10567658_C_T rs2480780 chr1_10624468_A_G chr1_10635121_A_G chr1_10712030_G_T chr1_10712031_A_C chr1_10712031_A_C chr1_10862323_C_G chr1_10880652_A_G chr1_10889015_G_T rs10157927 rs12748162 chr1_11060799_A_T chr1_11207648_A_G rs2745285 rs12139487 rs4845881 rs1801131 rs12406667 chr1_11876417_C_T rs7514577 rs2489260 rs28488227 rs1412839 rs2235514 rs720035 rs9287293 rs1203698 rs2206585 chr1_14267899_INDEL_TC rs7520101 rs7520101 rs10158007 rs12045062 chr1_14729115_A_G rs3928343 rs12119451 rs804125 rs1721829 rs10927583 chr1_15359710_A_G rs4661575 corect_rs114397232 rs4661617 rs477590

genotype difference Col_12_CB Col_12_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_CB Col_33_CB Col_33_CB Col_52_TS Col_33_IF Col_33_CB Col_33_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_08_CB Col_38_TS Col_12_CB Col_33_CB Col_33_CB Col_52_IF Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_33_CB Col_33_CB Col_12_CB Col_33_IF Col_12_CB

RI PT

ACCEPTED IntratumoralMANUSCRIPT region showing more

Marker ID

2

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT TOP BOT BOT BOT TOP TOP TOP TOP PLUS TOP BOT BOT BOT TOP BOT BOT BOT TOP TOP TOP TOP BOT BOT TOP BOT TOP BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP TOP BOT BOT

[T/C] [T/C] [T/C] [T/C] [T/G] [A/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [A/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [A/G] [I/D] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [A/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [C/G] [A/G] [A/G] [T/C] [A/G] [T/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

15808767 16653299 17486722 18034640 18196800 18276901 18351999 18659641 18805564 18829672 19080506 19149527 19297205 19358015 19465306 19500729 19619843 19824008 20030565 20373391 20469854 20568813 20701277 20769658 20770887 20893965 20928637 20945644 21202912 21306161 21324933 21324933 21332812 21332812 21441998 21821757 21983611 22033705 22176831 22354866 22373624 22472732 22492887 22501846 22533106 22591724 22943374 23198619 23973908 24170458 24396500 24465309 24488450 25140825 25178310 25335222 25443597 25495966 25889422 26155356

SC

M AN U TE D

AC C

EP

rs3820071 rs11260727 rs4620585 rs16830549 rs11203223 chr1_18276901_G_T rs4539169 rs552749 rs11261020 rs4920327 rs1160680 rs11261081 rs17384241 rs912845 chr1_19465306_C_T rs6694521 chr1_19619843_C_T rs2314146 rs6657561 rs12410635 rs12745152 rs5772891 rs10159448 rs4518869 rs10799636 rs472055 chr1_20928637_A_G rs10916832 chr1_21202912_C_T rs12021529 rs1110240 rs1110240 rs12130664 rs12130664 kgp9119075 rs1780324 rs829404 rs333171 rs2290500 rs2473295 rs2501276 chr1_22472732_A_G chr1_22492887_C_G rs742356 rs2807348 chr1_22591724_C_T chr1_22943374_A_G rs4655134 chr1_23973908_C_T rs10917430 rs6656699 rs10794642 rs7552086 rs3890756 rs7551842 rs12117144 chr1_25443597_C_T rs7527379 rs12096438 rs10902694

genotype difference Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_08_TS Col_12_CB Col_12_CB Col_52_TS Col_12_CB Col_33_IF Col_33_IF Col_34_CB Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_16_TS Col_12_CB Col_12_CB Col_33_CB Col_33_IF Col_52_CB Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_12_CB Col_52_IF

RI PT


Marker ID

3

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP BOT BOT TOP BOT TOP BOT TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP

[A/G] [T/C] [A/G] [T/C] [T/C] [A/T] [T/G] [A/G] [T/C] [A/G] [T/C] [T/G] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [G/C] [G/C] [T/G] [A/G] [A/G] [T/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/G] [T/C] [A/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [A/G] [A/G]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

26552921 26690481 26719264 26752129 26905353 26910754 27572050 27971502 28157871 28307600 28535110 28733993 28879557 29013516 29245406 29603999 30766091 30787475 30885210 30985651 31017178 31017178 31148956 31306541 31788313 31807400 31854882 31993870 32130876 32149721 33316782 33536944 33536944 34042245 34052305 34181830 34726167 35289039 35628789 35635453 35648316 35772867 36383716 36532316 36532316 36715732 36988601 37013031 37074351 37143732 37195557 37617809 37649899 37790990 39293885 39350742 39368567 39385086 39871926 40547912

SC

M AN U TE D

AC C

EP

rs10493028 rs7547496 rs11587947 rs35015532 chr1_26905353_A_G chr1_26910754_A_T chr1_27572050_G_T rs1292081 rs2072750 corect_rs139833305 rs550736 kgp11982754 chr1_28879557_A_C rs4654361 rs157208 rs10799128 rs10915065 rs6672668 rs650676 rs10915140 rs10915153 rs10915153 rs2147081 rs10914217 rs7523438 chr1_31807400_A_G rs12562824 rs10493048 chr1_32130876_C_G chr1_32149721_C_G chr1_33316782_A_C rs11811191 rs11811191 rs16835617 rs12727575 rs7533254 rs771404 rs7526035 rs6425939 rs12064550 rs3738694 rs544621 rs3738356 rs491603 rs491603 rs11263868 rs6425991 rs12072868 rs4653210 rs1395457 rs16823431 rs2884796 chr1_37649899_C_T chr1_37790990_A_G chr1_39293885_C_T rs4970633 chr1_39368567_A_G chr1_39385086_A_C rs616630 chr1_40547912_C_T

genotype difference Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_45_IF Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_12_IF Col_38_IF Col_12_CB Col_12_CB Col_12_CB Col_16_TS Col_12_TS Col_33_IF Col_33_IF Col_12_CB Col_12_IF Col_52_CB Col_33_IF Col_12_CB Col_12_CB Col_12_IF Col_16_TS Col_38_TS Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_16_TS Col_59_TS Col_33_IF Col_38_TS Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB

RI PT


Marker ID

4

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP BOT TOP TOP BOT BOT BOT TOP BOT TOP TOP TOP BOT TOP BOT TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT TOP BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT BOT TOP PLUS BOT TOP

[T/C] [T/C] [A/G] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/A] [A/C] [A/G] [A/G] [T/C] [G/C] [T/G] [A/G] [A/G] [A/G] [T/C] [A/T] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/C] [T/C] [A/C] [T/C] [T/G] [T/G] [T/C] [A/G] [T/C] [T/C] [T/G] [T/C] [A/G] [T/G] [T/C] [A/G] [D/I] [T/G] [A/G]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

40569877 40569877 40570888 40636387 40722795 41010378 41378076 41395072 41785792 41844293 42387990 42731317 42731317 42731317 43062732 43073504 43078522 43707556 43960479 43983218 44530147 45640116 45710771 45939136 45973923 46079670 46391869 46595615 46722389 46967890 46967890 47152440 47571391 47587253 47724166 47820192 48066171 48227943 48273795 48765945 48765945 48946572 49077356 49378281 49580287 49765438 49865295 50335528 50861987 50903049 50907438 51923614 52010203 52016713 52654408 52654415 53218380 53339901 53584825 53605884

SC

M AN U TE D

AC C

EP

chr1_40569877_C_T chr1_40569877_C_T chr1_40570888_A_G rs4600036 rs926830 rs7524182 rs6674863 rs1887542 rs2154317 rs11209971 rs12086766 chr1_42731317_C_T chr1_42731317_C_T chr1_42731317_C_T rs6660322 rs12025456 chr1_43078522_A_T rs3862226 rs2039529 chr1_43983218_A_G chr1_44530147_A_G rs1226747 rs11211086 rs12138348 chr1_45973923_A_G chr1_46079670_A_G chr1_46391869_C_T rs785505 chr1_46722389_A_G rs2025384 rs2025384 newrs78161481 rs6690005 rs12040022 rs6588095 rs10789507 rs12058525 rs1561573 chr1_48273795_A_G rs6666372 rs6666372 rs2787875 rs4926745 rs17105150 rs6687090 rs241501 rs1577969 rs10736388 chr1_50861987_A_G rs75450729 rs4381241 rs10788934 chr1_52010203_C_T rs6588412 rs11587003 chr1_52654415_A_G rs11206006 chr1_53339901_CT_INDEL chr1_53584825_G_T rs1288367

genotype difference Col_38_CB Col_45_CB Col_33_IF Col_12_CB Col_59_TS Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_59_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_45_CB Col_12_IF Col_33_IF Col_33_IF Col_59_CB Col_33_IF Col_33_CB Col_33_IF Col_16_TS Col_38_TS Col_16_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_CB Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_CB Col_33_IF Col_33_IF

RI PT


Marker ID

5

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT TOP TOP BOT TOP TOP BOT BOT BOT TOP BOT BOT MINUS TOP

[T/C] [A/C] [A/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [T/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/G] [A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [T/C] [T/C] [T/G] [T/C] [A/G] [T/C] [T/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/G] [A/G] [T/G] [T/C] [D/I] [A/G]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

53913080 54389471 54389471 54968494 55254653 55261752 55833351 55968289 56059223 56075918 56096183 56195659 56204848 56219293 56343290 56359754 56359754 56359754 56502227 56564716 56642998 56790773 57170229 57180072 57204156 57214424 57238019 57340546 57643701 57782780 57782780 57803349 58068119 58181165 58482341 58538655 58668913 58758919 58758919 58895738 58910442 59231160 59342968 59400523 59411504 59680579 60023941 60302414 60385571 60408975 60659719 60939827 61009286 61144316 61157162 61264342 61317694 61355010 61404487 61567939

SC

M AN U TE D

AC C

EP

rs9436924 rs12067895 rs12067895 rs299881 rs75361747 rs886738 rs910270 rs1780522 rs7526426 rs7555929 chr1_56096183_A_G rs4111070 rs1184810 rs1165500 rs7516605 rs17113092 rs17113092 rs17113092 rs11206718 rs12025982 rs1331862 rs12138574 rs932447 rs9803799 rs79318477 chr1_57214424_C_T chr1_57238019_A_G rs2405237 rs10489464 rs1149629 rs1149629 rs11207011 rs7528953 rs12136964 rs1952046 rs12041539 rs7545320 corect_rs113937886 corect_rs113937886 rs75966799 rs706444 rs1007271 rs2716129 chr1_59400523_A_G chr1_59411504_C_T chr1_59680579_A_G rs1440575 rs11207523 chr1_60385571_C_T rs12731852 rs10443220 rs4644526 rs6587887 rs17185178 rs1461353 rs6650097 rs11584628 rs1447184 chr1_61404487_C_INDEL rs964091

genotype difference Col_33_IF Col_33_IF Col_34_TS Col_52_TS Col_16_TS Col_38_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_33_CB Col_59_TS Col_33_IF Col_33_IF Col_38_CB Col_45_IF Col_59_TS Col_38_TS Col_12_CB Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_CB Col_33_IF Col_38_TS Col_45_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_52_TS Col_38_IF Col_33_IF Col_52_CB Col_38_TS Col_33_CB Col_33_IF Col_16_CB Col_33_IF Col_52_IF Col_59_TS Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_CB Col_33_CB Col_33_IF

RI PT


Marker ID

6

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP

[A/T] [A/C] [T/C] [T/C] [T/G] [T/C] [A/G] [A/G] [A/G] [A/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/G] [T/C] [T/G] [A/G] [T/C] [T/C] [C/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/C] [A/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [T/C] [A/G]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

61667457 61731440 61738270 61738270 61966582 62003946 62053966 62060213 62089261 62163715 62212822 62257223 62257223 62257223 62511933 62644118 62674507 62703236 63061242 63067475 63283005 63303845 63417110 63424393 63517581 63694517 63709261 63811876 64030112 64056411 64056411 64079677 64097432 64372381 64601845 64737015 64951754 65295857 65295857 65512968 65683471 65723851 65753072 65782290 65782290 65988146 66081791 66089782 66140817 66173940 66341764 66387487 66446787 66446787 67083647 67209088 67221387 67457199 67558275 67583298

SC

M AN U TE D

AC C

EP

rs10493304 rs6684051 rs437021 rs437021 rs6682077 rs7541526 rs2365263 rs2365269 rs1933293 chr1_62163715_A_C rs12408292 chr1_62257223_A_G chr1_62257223_A_G chr1_62257223_A_G rs13374203 rs2481703 rs12729017 rs1050334 rs17123721 chr1_63067475_G_T rs7539616 rs10493327 rs1572108 chr1_63424393_C_G rs1391813 rs997791 chr1_63709261_A_G chr1_63811876_A_G rs6696034 rs11208250 rs11208250 rs2269266 chr1_64097432_C_T chr1_64372381_C_T rs7528814 rs705551 rs305540 chr1_65295857_A_G chr1_65295857_A_G rs11208576 chr1_65683471_A_G rs11208616 rs7511810 rs4147109 rs4147109 rs1171278 exm66543 chr1_66089782_C_T rs12239571 chr1_66173940_C_T rs12760605 rs17451403 rs1937457 rs1937457 rs11208924 rs604737 rs2274987 rs17497947 rs11806560 rs17129664

genotype difference Col_33_IF Col_38_CB Col_16_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_52_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_08_CB Col_52_CB Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_38_IF Col_38_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_34_IF Col_16_IF Col_33_IF Col_16_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_08_CB Col_16_TS Col_34_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF

RI PT


Marker ID

7

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT TOP BOT TOP BOT TOP BOT BOT TOP TOP BOT MINUS TOP TOP BOT BOT TOP BOT TOP BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT MINUS TOP TOP TOP BOT BOT TOP BOT TOP BOT BOT TOP TOP BOT

[T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [A/C] [A/G] [A/G] [T/G] [T/A] [A/G] [T/G] [A/G] [T/G] [A/G] [T/G] [T/C] [A/G] [A/G] [T/C] [D/I] [A/G] [A/G] [T/G] [T/C] [A/G] [T/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [C/G] [A/G] [A/G] [A/C] [A/G] [A/C] [A/C] [A/C] [T/C] [T/G] [D/I] [A/G] [A/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

67633963 67633963 67633963 68138613 68278542 68609491 68720412 68797525 68832028 69243474 69385343 69743750 69779437 69830063 69879802 69944733 69965403 69972693 70346384 70543349 70580058 70620827 70657248 70753318 70897183 70921659 71018986 71229637 71533033 71549774 71695806 71695806 71704522 71897107 71930366 72157134 72271192 72366668 72366668 72489531 72716237 72913499 73075423 73361805 73497953 73554795 73798484 73882880 73932886 74026125 74055240 74106106 74151316 74202064 74234164 74509683 74794119 74885754 74907002 74934996

SC

M AN U TE D

AC C

EP

rs11465770 rs11465770 rs11465770 chr1_68138613_A_G rs17130309 rs2052959 rs4655580 chr1_68797525_C_T rs4453084 rs854273 chr1_69385343_A_T rs12123555 rs720233 rs2765864 rs10518315 chr1_69944733_A_G rs11209479 rs4259589 chr1_70346384_C_T rs10493471 rs17131215 chr1_70620827_INDEL_TG chr1_70657248_A_G rs270491 rs663649 rs78734496 rs4233083 rs11209689 rs71500632 chr1_71549774_A_G rs1891417 rs1891417 chr1_71704522_C_T chr1_71897107_A_G rs7544223 chr1_72157134_C_T chr1_72271192_C_G chr1_72366668_C_T chr1_72366668_C_T chr1_72489531_A_C chr1_72716237_C_T rs7535539 rs4498754 rs2692843 rs11210105 chr1_73554795_A_C chr1_73798484_INDEL_TC rs1475065 rs12140865 corect_rs148871301 rs7546041 rs6680131 rs2880289 rs12058491 chr1_74234164_A_G chr1_74509683_A_G rs17095146 rs2203369 rs1022915 rs612695

genotype difference Col_33_IF Col_52_CB Col_12_CB Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_38_IF Col_12_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_12_CB Col_33_CB Col_52_CB Col_52_IF Col_33_CB Col_33_IF Col_33_IF Col_12_IF Col_34_CB Col_52_TS Col_33_IF Col_08_TS Col_52_IF Col_33_IF Col_33_IF Col_16_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_52_TS Col_52_IF Col_33_IF Col_16_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_16_IF

RI PT


Marker ID

8

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP BOT BOT TOP TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP BOT TOP BOT TOP TOP BOT BOT TOP TOP BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT TOP TOP

[T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/C] [A/C] [A/G] [A/G] [A/G] [A/G] [T/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [A/G] [T/G] [A/C] [A/G] [T/C] [T/G] [A/T] [A/G] [T/C] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [A/G] [T/C] [T/C] [A/C] [A/G]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

75147840 75173051 75178360 75290369 75437841 75437841 75684979 75830438 75834454 75917304 75941966 75941966 76023350 76133823 76275100 76317549 76364825 76383297 76402145 76504146 76513759 76565523 76658460 76746909 76824240 76932193 77015113 77170017 77250565 77282567 77286778 77286778 77296639 77444121 77453593 77592351 78028234 78039216 78255822 78305783 78446761 78456355 78502520 78567245 78623626 78821497 78963437 79013106 79064876 79114494 79255347 79255347 79297214 79330525 79358827 79407268 79411888 79454585 79458347 79556037

SC

M AN U TE D

AC C

EP

rs17095739 rs4650281 rs7522428 rs277357 corect_rs116805899 corect_rs116805899 chr1_75684979_C_T rs1249849 rs1249810 rs6676696 rs11163461 rs11163461 rs6670304 rs814854 rs1144333 chr1_76317549_A_G rs6687882 rs10782582 rs1770886 rs1251484 rs1013629 chr1_76565523_C_T rs923246 rs17098538 rs4638174 chr1_76932193_A_G rs172714 rs489723 rs78628465 rs4526656 chr1_77286778_C_T chr1_77286778_C_T rs56822294 rs1102452 rs2143582 rs6683950 chr1_78028234_A_C rs17100774 chr1_78255822_G_T rs6604878 chr1_78446761_A_G chr1_78456355_A_G rs12411130 chr1_78567245_A_T chr1_78623626_C_T rs10873978 rs1322934 chr1_79013106_C_T chr1_79064876_A_C rs10493610 rs1937009 rs1937009 rs17401980 rs2171714 chr1_79358827_G_T chr1_79407268_C_T rs723898 chr1_79454585_A_G rs6685355 rs7531214

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_52_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_52_IF Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_33_CB Col_16_TS Col_38_TS Col_34_CB Col_52_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_16_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_52_IF

RI PT


Marker ID

9

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT

[A/G] [A/G] [T/C] [T/C] [T/C] [A/C] [T/C] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/G] [T/G] [T/G] [T/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/G] [T/C] [T/C] [T/C] [T/G] [T/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/T] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

79848740 79887916 80058984 80069082 80069082 80115793 80226884 80233281 80279906 80312051 80403167 80452152 80455734 80513536 80534444 80567175 80631231 80685710 80722041 80737634 80737634 80737634 80741898 80744080 80827022 80832783 80956319 80956319 81013866 81013866 81013866 81013866 81070850 81090382 81130054 81140382 81164242 81181741 81202427 81222277 81334027 81336283 81411025 81512459 81536949 81562067 81562067 81563249 81591135 81599140 81610300 81617971 81639173 81671463 81677398 81677398 81699270 81770151 81901137 81951500

SC

M AN U TE D

AC C

EP

rs79136665 rs3000182 rs12083183 rs10465721 rs10465721 rs10493653 rs11162813 rs3927739 rs10874077 rs12059430 rs159665 rs10874105 rs17104213 chr1_80513536_C_T rs12140474 rs4454493 rs4330881 rs1687846 rs1539486 rs80045856 rs80045856 rs80045856 rs1776286 rs12144659 chr1_80827022_A_G chr1_80832783_A_G rs718003 rs718003 chr1_81013866_A_G chr1_81013866_A_G chr1_81013866_A_G chr1_81013866_A_G rs1279686 rs2800878 rs1279690 rs6688321 rs1337642 rs11163090 rs4414082 rs6660382 chr1_81334027_A_G rs17105542 rs4307601 chr1_81512459_A_G rs10782747 chr1_81562067_G_T chr1_81562067_G_T rs575528 rs1768400 rs1146413 rs17106044 rs1195685 rs1831109 chr1_81671463_A_T rs7553222 rs7553222 chr1_81699270_C_T rs17106362 rs4520454 rs4650559

genotype difference Col_52_CB Col_52_IF Col_33_IF Col_38_TS Col_52_IF Col_33_IF Col_33_IF Col_16_TS Col_16_TS Col_33_IF Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_34_IF Col_12_CB Col_59_TS Col_33_TS Col_33_IF Col_16_IF Col_38_CB Col_52_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_CB Col_52_IF Col_16_CB Col_38_CB Col_52_IF Col_12_CB Col_33_IF Col_16_IF Col_16_IF Col_33_IF Col_38_CB Col_52_CB Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_34_TS Col_33_IF Col_33_IF Col_33_IF Col_33_CB

RI PT


Marker ID

10

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP PLUS BOT TOP TOP BOT TOP BOT TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT PLUS PLUS BOT BOT MINUS TOP TOP TOP TOP TOP TOP TOP MINUS BOT BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT

[A/G] [A/C] [A/G] [A/G] [A/T] [T/C] [T/G] [G/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [I/D] [T/A] [A/G] [A/G] [T/C] [A/G] [T/C] [C/G] [T/C] [T/C] [A/G] [C/G] [T/C] [T/C] [T/G] [T/C] [T/G] [D/I] [D/I] [T/A] [T/A] [D/I] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [I/D] [T/C] [T/C] [T/C] [A/T] [A/T] [T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/A]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

82005987 82175982 82304384 82327743 82363963 82383100 82566764 82765304 82777956 82777956 82787818 82787818 82893267 82893267 82893267 82950838 82965686 83041620 83166637 83172684 83296109 83493060 83587246 83665043 83808282 83987643 84032625 84171408 84197066 84277451 84296789 84550849 84628700 84647486 84647486 84680825 84680825 84704355 84896062 84926750 84956035 85020649 85020649 85031630 85096920 85132740 85546605 85554402 85606932 85610817 85610817 85625855 85648905 86251000 86259699 86273786 86309622 86352629 86352629 86524913

SC

M AN U

TE D

rs1324371 chr1_82175982_G_T rs3790952 chr1_82327743_A_G rs17428900 chr1_82383100_A_G rs12083586 rs975060 rs709741 rs709741 rs1857814 rs1857814 chr1_82893267_C_T chr1_82893267_C_T chr1_82893267_C_T chr1_82950838_C_T rs33948385 rs35843173 rs2641944 rs389112 chr1_83296109_C_T rs11163640 rs323940 chr1_83665043_C_G rs1856150 rs12568728 rs4243779 chr1_84171408_C_G rs9787335 rs12124918 rs77137720 rs6701486 chr1_84628700_A_C chr1_84647486_INDEL_TATGGCTTC chr1_84647486_INDEL_TATGGCTTC chr1_84680825_A_T chr1_84680825_A_T chr1_84704355_C_INDEL rs7512262 rs11578928 chr1_84956035_A_G rs1043493 rs1043493 rs2994953 chr1_85096920_A_G chr1_85132741_INDEL_T rs35999405 rs1542427 chr1_85606932_C_T chr1_85610817_A_T chr1_85610817_A_T rs817413 rs11161539 chr1_86251000_A_G rs313733 rs12239978 rs313702 rs11589719 rs11589719 rs41305880

genotype difference Col_12_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_38_TS Col_12_TS Col_16_TS Col_34_TS Col_38_TS Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_08_CB Col_33_IF Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_33_CB Col_16_TS Col_34_CB Col_33_IF Col_33_CB Col_34_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_CB Col_52_CB Col_33_IF Col_12_CB Col_12_CB Col_16_IF Col_33_IF Col_12_CB Col_16_TS Col_52_IF Col_33_IF

RI PT


Marker ID

11

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP BOT TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP

[A/G] [A/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/G] [T/C] [T/C] [T/G] [A/G] [T/C] [T/C] [T/C] [T/G] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [T/G] [T/G] [T/G] [T/G] [T/C] [A/G] [T/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/G] [T/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [T/C] [A/G]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

86591567 86929452 86945167 86948708 87061970 87277974 87368653 87720853 87746998 87828033 87828033 87939217 87962437 87998297 88015080 88083782 88086894 88208135 88227120 88317228 88757128 88802972 88802972 88866500 88866500 88866500 88866500 88882301 89107857 89414937 89546803 89573004 89592133 89730723 89858643 89858643 89899019 89899019 90336244 90388316 90388316 90532766 90801258 90925451 91144055 91148357 91156953 91165138 91293921 91363095 91380543 91794248 91794248 91885970 91885970 91885970 91955906 91973956 91977371 92158571

SC

M AN U TE D

AC C

EP

rs1027819 rs4001077 rs5744338 rs2791512 rs12758538 rs1889783 chr1_87368653_C_T rs4655941 rs4556331 chr1_87828033_A_G chr1_87828033_A_G chr1_87939217_G_T rs12239121 rs10873855 rs7355015 rs923545 rs4655854 chr1_88208135_A_G chr1_88227120_G_T rs2491304 rs6679982 rs4656031 rs4656031 chr1_88866500_A_C chr1_88866500_A_C chr1_88866500_A_C chr1_88866500_A_C rs1587372 rs12041174 chr1_89414937_A_C rs10922563 rs77700335 rs17130736 rs9628688 rs17130799 rs17130799 rs11577456 rs11577456 rs12095496 chr1_90388316_A_C chr1_90388316_A_C rs7542860 rs7518543 rs578509 rs10922899 rs10493843 chr1_91156953_A_G rs7519925 rs1358156 chr1_91363095_A_G chr1_91380543_C_T rs281973 rs281973 exm2268912 exm2268912 exm2268912 chr1_91955906_A_G Chr1:91973956:T:G chr1_91977371_C_T rs2810887

genotype difference Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_16_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_34_IF Col_45_IF Col_59_TS Col_12_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_38_CB Col_52_IF Col_33_IF Col_12_TS Col_33_IF Col_16_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_16_TS Col_33_CB Col_16_TS Col_33_IF Col_38_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF

RI PT


Marker ID

12

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP BOT TOP TOP TOP TOP BOT TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT TOP TOP BOT TOP BOT TOP TOP TOP BOT TOP TOP BOT BOT TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP

[T/C] [G/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/A] [T/G] [A/G] [A/G] [A/G] [T/G] [T/C] [A/T] [A/T] [T/C] [A/G] [A/G] [A/G] [A/G] [G/C] [A/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/G] [A/G] [T/C] [A/G] [A/C] [A/C] [T/C] [A/C] [A/C] [T/C] [T/C] [A/G] [T/C] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [C/G] [A/G] [A/G] [A/C]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

92236048 92240747 92285875 92940411 92940411 92975938 93190954 93200402 93235500 93280788 93397300 93463949 93531706 93617546 93735934 93735934 93826455 94352842 94352842 94353573 94353668 94353925 94360107 94363437 94454018 94638711 94674726 95236869 95332624 95549536 95746527 95776618 95877746 96152973 96231373 96306787 96321437 96496399 96993561 97063163 97377456 97418377 97543749 97543959 97543959 97634259 97651091 97723617 97770920 97809250 97863281 97878068 97944341 97979726 97979726 98001389 98017090 98128388 98185527 98334990

SC

M AN U TE D

AC C

EP

rs284191 chr1_92240747_C_G rs10874981 chr1_92940411_C_T chr1_92940411_C_T rs1886684 rs2391198 rs2145825 rs11164808 chr1_93280788_A_G rs6698233 rs11583491 rs575367 rs546 chr1_93735934_A_T chr1_93735934_A_T rs8561 kgp421816 kgp421816 kgp4419341 kgp2262685 kgp15530290 rs769211 rs12062047 chr1_94454018_A_G rs1048866 rs2274788 chr1_95236869_C_T rs3849306 rs9437689 rs75767961 rs2236389 rs11590987 rs7554994 chr1_96231373_G_T rs2391710 rs6679428 rs161120 rs11165660 chr1_97063163_A_C rs1976805 rs72724327 kgp25082977 rs1042482 rs1042482 rs1399288 rs12079660 rs11165822 kgp9376732 rs12044858 rs4445510 rs11165867 rs12759539 rs7545340 rs7545340 rs12063030 rs2786529 chr1_98128388_C_T rs2151562 rs11165921

genotype difference Col_59_TS Col_08_TS Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_16_TS Col_12_CB Col_33_IF Col_33_IF Col_38_IF Col_38_TS Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_TS Col_33_IF Col_12_CB Col_33_IF Col_59_TS Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_38_TS Col_08_TS Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_08_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_38_TS Col_12_IF Col_12_CB Col_38_IF Col_33_IF Col_33_IF Col_33_CB

RI PT


Marker ID

13

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP BOT TOP BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT

[T/C] [A/C] [A/C] [A/G] [A/G] [T/G] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/G] [T/C] [A/G] [T/C] [A/C] [A/C] [A/G] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [T/C] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [T/G] [T/A] [T/C] [T/C] [T/C]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

98348885 98378786 98382114 98488863 98630705 98666125 98757816 98891076 98928271 98928271 99035085 99230383 99310398 99404991 99435366 99709120 99794788 99913450 100018587 100280436 100331265 100620728 100796296 100800905 100965683 100965683 100984092 100984092 101026876 101077323 101198105 101203691 101224146 101230852 101299216 101548085 101548085 101700832 101760127 101919802 101962397 101962952 101979504 101994207 102024942 102163968 102239205 102291354 102304152 102357987 102393844 102473425 102473425 102540084 102601950 102601950 102631178 102654301 102654557 102681580

SC

M AN U TE D

AC C

EP

rs1801265 rs9662870 rs6692580 rs9659996 rs355370 chr1_98666125_A_C rs11165979 corect_rs114694604 rs4950129 rs4950129 chr1_99035085_C_T rs11166113 rs4908084 chr1_99404991_G_T rs2149738 chr1_99709120_C_T chr1_99794788_C_T rs6695717 chr1_100018587_A_C rs6663234 rs2640911 exm77893 rs599215 rs11166438 rs6680879 rs6680879 rs10783134 rs10783134 chr1_101026876_A_C rs7415343 chr1_101198105_A_G exm78264 rs6680442 rs1887101 rs1571046 chr1_101548085_A_G chr1_101548085_A_G chr1_101700832_A_G chr1_101760127_C_T rs12118351 chr1_101962397_A_G rs6668197 rs11584636 rs12137486 rs1484308 chr1_102163968_A_G rs1470438 chr1_102291354_C_T rs769163 rs17125667 rs1336806 chr1_102473425_A_G chr1_102473425_A_G rs10493980 rs7527051 rs7527051 chr1_102631178_A_T chr1_102654301_A_G rs1938368 rs7530562

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_08_TS Col_34_CB Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_16_TS Col_52_IF Col_52_CB Col_52_IF Col_33_IF Col_38_IF Col_33_CB Col_33_IF Col_33_IF Col_16_IF Col_45_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_52_IF Col_33_IF Col_08_CB Col_12_IF Col_33_IF Col_38_CB Col_52_IF Col_52_TS Col_12_IF Col_33_IF Col_38_IF

RI PT


Marker ID

14

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP BOT BOT TOP TOP TOP PLUS BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT TOP BOT BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT

[T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/C] [I/D] [T/G] [T/G] [T/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/C] [T/C] [T/G] [T/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/T] [T/C] [T/C] [T/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

102747793 102826835 102959259 103062191 103118942 103251006 103342392 103372655 103561182 103603452 103603452 103603452 103610579 103684589 103715386 104104705 104321258 104418619 104473177 104489418 104489418 104505231 104509012 104573697 104576359 104640211 104640211 104766179 104822489 104857913 104858324 104898703 104975728 105128348 105144179 105184308 105184308 105184308 105256299 105259884 105289659 105373218 105395113 105448030 105637914 105647075 105697723 105698163 105725458 105836241 105846616 105943783 106006480 106009370 106037417 106085976 106368717 106540583 106741616 106781612

SC

M AN U TE D

AC C

EP

rs10874577 rs7411744 rs10874621 rs12723721 rs6577329 rs10782904 rs9659030 rs1676504 chr1_103561183_INDEL_T rs11164689 rs11164689 rs11164689 rs12063514 chr1_103684589_A_G rs6689743 chr1_104104705_A_G rs74904460 rs11185316 chr1_104473177_A_G chr1_104489418_A_C chr1_104489418_A_C rs6694128 rs12725332 rs12759387 rs9435629 rs1330401 rs1330401 rs1928329 rs79497696 rs12079175 rs17021310 rs11185445 rs2594664 rs1118861 rs4847178 rs12036108 rs12036108 rs12036108 rs12037801 rs1904982 rs76410945 chr1_105373218_C_T rs9803714 rs12126615 rs6694548 rs4847087 rs6682236 rs5027215 rs6667576 rs6583142 rs11184521 rs2048840 rs12023475 rs2502869 rs11184581 rs34761229 rs12033818 rs11184726 rs11184807 rs9435409

genotype difference Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_16_TS Col_33_CB Col_38_TS Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_38_IF Col_12_CB Col_33_IF Col_38_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_52_IF Col_12_CB Col_38_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_38_TS Col_52_TS Col_52_IF Col_12_IF Col_33_IF Col_33_IF Col_34_IF Col_33_CB Col_52_IF Col_38_CB Col_33_IF Col_16_IF Col_38_CB Col_33_IF Col_33_IF Col_38_CB Col_52_CB Col_33_IF Col_52_CB Col_52_IF Col_33_CB Col_33_IF Col_38_CB Col_52_CB

RI PT


Marker ID

15

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP BOT TOP TOP BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT TOP TOP BOT BOT TOP BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP BOT TOP BOT TOP TOP BOT TOP TOP TOP TOP BOT BOT TOP BOT TOP BOT

[T/C] [A/G] [A/G] [T/G] [A/C] [A/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/G] [T/G] [T/C] [T/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/T] [G/C] [A/C] [A/C] [T/C] [T/C] [A/G] [T/G] [T/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [C/G] [C/G] [A/G] [T/G] [T/C] [A/C] [T/C] [A/G] [T/C]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

106792422 106881800 106887181 107024760 107090200 107420023 107440872 107463643 107558304 107634116 107657674 107704952 107726492 107765871 108138961 108181947 108190253 108190253 108208282 108222335 108225392 108268801 108294364 108385886 108462099 108462099 108549532 108549532 108657934 108657934 108671256 108879304 109065289 109065289 109386174 109489267 109605378 110192484 110192484 110203911 110233147 110478911 110491273 110517396 110532390 111008908 111016758 111103688 111301623 111330896 111343282 111494653 111494653 111821777 111869487 112101405 112156965 112180898 112302219 112376191

SC

M AN U TE D

AC C

EP

rs12568304 rs6670501 rs11184870 chr1_107024760_G_T rs17434983 rs12086730 rs9651163 rs12125971 rs12032059 rs1762495 rs17018425 rs7513206 rs10881456 rs80188447 chr1_108138961_C_T rs6693140 rs12127467 rs12127467 rs4378232 rs11811342 chr1_108225392_A_G rs17019810 chr1_108294364_A_G rs11185184 chr1_108462099_C_T chr1_108462099_C_T rs12039210 rs12039210 rs515194 rs515194 rs654321 rs2050837 rs9440650 rs9440650 rs6704266 chr1_109489267_A_G rs10466 rs10494109 rs10494109 kgp15844410 rs1056806 rs7555325 rs78018756 rs11102043 chr1_110532390_C_T rs12407842 rs7537693 rs6656346 rs343791 rs343810 rs343822 chr1_111494653_C_G chr1_111494653_C_G rs4838896 rs10776724 rs7533936 rs4839154 rs2789543 rs538779 rs661407

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_33_IF Col_52_TS Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_34_TS Col_52_IF Col_33_IF Col_12_IF Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_38_IF Col_33_IF Col_08_CB Col_12_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_38_TS Col_33_IF Col_08_TS Col_16_TS Col_33_IF Col_33_IF Col_45_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

16

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP PLUS TOP TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT TOP TOP BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP

[T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [D/I] [A/C] [A/G] [A/G] [T/G] [T/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [C/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/A] [A/G] [T/C] [T/C] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/C] [A/G] [A/G]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

112522345 112522345 112522345 112736898 113216543 113439588 113618956 113830085 113953085 113959886 113972547 113972547 114050119 114050119 114091058 114094286 114125259 114135133 114138151 114139359 114299516 114325144 114407547 114407547 114464989 114493583 114533908 114551129 114662963 114720926 114754578 114815412 114833410 114885641 114938175 115087605 115152814 115354525 115450947 115664311 115728581 115728581 115797624 116096653 116339269 116363830 117004700 117243440 117243440 117243440 117325758 117361083 117594464 117615935 117759325 118283890 118421109 118739301 118864336 118864336

SC

M AN U TE D

AC C

EP

chr1_112522345_C_T chr1_112522345_C_T chr1_112522345_C_T rs12138691 rs2932538 rs9429503 chr1_113618956_A_G rs773554 chr1_113953085_A_G rs11102627 kgp1883481 kgp1883481 chr1_114050119_C_T chr1_114050119_C_T chr1_114091058_C_T chr1_114094286_C_T chr1_114125259_A_G chr1_114135133_A_G chr1_114138151_AG_INDEL chr1_114139359_G_T chr1_114299516_A_G chr1_114325144_A_G chr1_114407547_A_C chr1_114407547_A_C chr1_114464989_C_T rs11102707 chr1_114533908_C_T chr1_114551129_C_T rs12732493 rs6695728 rs12068395 chr1_114815412_C_G rs11588687 chr1_114885641_A_G chr1_114938175_C_T rs61811014 rs11102824 chr1_115354525_A_G chr1_115450947_A_T rs6679900 rs1146165 rs1146165 rs12033518 rs3010383 rs4483405 rs4839491 chr1_117004700_C_T rs12127189 rs12127189 rs12127189 chr1_117325758_C_T rs1182218 rs10801929 rs1289675 rs1892409 rs319486 rs12058607 rs1782414 chr1_118864336_A_G chr1_118864336_A_G

genotype difference Col_33_IF Col_52_CB Col_12_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_16_TS Col_33_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_38_TS Col_38_TS Col_33_IF Col_52_IF Col_33_IF Col_16_TS Col_33_IF Col_16_TS Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_16_TS Col_33_CB Col_33_IF Col_52_CB Col_33_CB Col_33_IF Col_34_TS Col_33_IF Col_33_IF Col_08_CB Col_34_TS Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_08_IF Col_12_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_38_TS

RI PT


Marker ID

17

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT MINUS BOT TOP BOT TOP PLUS BOT BOT BOT TOP TOP TOP TOP

[A/G] [T/C] [G/C] [G/C] [T/C] [A/G] [T/G] [T/G] [T/A] [T/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [G/C] [T/G] [A/G] [T/A] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [T/G] [D/I] [T/C] [A/T] [T/C] [A/G] [I/D] [T/C] [T/C] [T/C] [A/G] [A/G] [A/T] [A/T]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

118864336 118889815 118904194 118904194 118936321 118971450 118986187 118986187 119022549 119289072 119673093 119680296 119680967 119843683 119843683 120177454 120684961 121184059 121200854 121200854 121200854 121200854 121200854 121306567 144814705 144814705 145419808 145419808 145644211 146508774 146628479 146628742 146629288 146629797 146630503 146633750 146648224 146656179 146684131 146738836 146838138 146849143 146881586 147060234 147795678 148546082 149951467 150189626 150189738 150195561 150262402 150317307 150352869 150522242 150573104 150677719 150803027 150842696 150902203 150937771

SC

M AN U TE D

AC C

EP

chr1_118864336_A_G rs7535961 rs55722937 rs55722937 chr1_118936321_C_T rs17038298 rs10489731 rs10489731 rs1229121 rs10923662 rs2498500 rs4387216 rs6428798 chr1_119843683_C_T chr1_119843683_C_T rs10754417 chr1_120684961_A_G chr1_121184059_C_T chr1_121200854_A_G chr1_121200854_A_G chr1_121200854_A_G chr1_121200854_A_G chr1_121200854_A_G c1_pos121008090 chr1_144814705_C_T chr1_144814705_C_T chr1_145419808_C_T chr1_145419808_C_T chr1_145644211_C_T rs1853782 kgp1727928 kgp5680701 kgp15898250 kgp15656074 kgp15661136 rs1036851 rs4950382 kgp25065922 rs2297753 rs11239962 rs12727330 rs2883318 rs7539416 rs1390507 rs1763457 chr1_148546082_C_T chr1_149951467_G_T chr1_150189626_AAG_INDEL chr1_150189738_A_G chr1_150195561_A_T chr1_150262402_A_G chr1_150317307_A_G chr1_150352870_INDEL_T chr1_150522242_C_T chr1_150573104_C_T rs11807450 rs10305710 chr1_150842696_C_T chr1_150902203_A_T chr1_150937771_A_T

genotype difference Col_52_IF Col_12_CB Col_38_CB Col_52_IF Col_33_IF Col_52_CB Col_34_IF Col_52_IF Col_16_CB Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_38_TS Col_52_IF Col_33_IF Col_34_TS Col_12_CB Col_08_CB Col_33_CB Col_38_IF Col_52_IF Col_12_CB Col_33_IF Col_08_TS Col_33_CB Col_33_IF Col_52_IF Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_12_CB Col_38_CB Col_52_IF Col_38_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_38_TS Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_34_CB

RI PT


Marker ID

18

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP BOT TOP BOT TOP TOP BOT BOT BOT MINUS TOP TOP BOT BOT BOT TOP MINUS TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT PLUS BOT BOT BOT TOP TOP TOP BOT BOT

[T/C] [T/C] [A/G] [A/G] [A/C] [C/G] [C/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [D/I] [A/G] [A/G] [T/C] [T/C] [T/C] [A/C] [D/I] [A/G] [C/G] [T/G] [A/G] [A/G] [T/G] [T/G] [T/C] [T/C] [A/G] [G/C] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [I/D] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [T/C] [T/C]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

151193897 151327376 151499539 151858888 152079314 152199615 152199615 152217443 152217443 152423840 152644161 152748369 152866014 152957887 153037463 153037463 153170035 153214867 154036161 154631629 154865125 154879743 154887949 155258756 155483920 155540660 156181616 156303527 156406381 156550968 157069134 157306264 157319351 157372996 157569194 157605501 157657842 157739716 157891709 158140205 158295009 158297864 158330242 158580069 158625789 158626378 158627823 158687896 158769087 158784017 158803873 158812100 158842453 158842453 159280924 159359023 159698549 159816313 159824205 159853139

SC

M AN U

TE D

rs1892196 rs2769273 newrs140334393 rs6685187 chr1_152079314_A_C chr1_152199615_C_G chr1_152199615_C_G rs2036101 rs2036101 rs6667236 rs11205066 chr1_152748369_C_T chr1_152866014_G_T rs1611764 rs310098 rs310098 rs56934782 rs7523883 chr1_154036161_A_G chr1_154631629_CTGCG_INDEL chr1_154865125_A_G chr1_154879743_C_T chr1_154887949_A_G rs3814318 chr1_155483920_A_G rs1556488 chr1_156181616_C_INDEL chr1_156303527_C_T chr1_156406381_C_G rs6679425 chr1_157069134_A_G rs4661119 rs7535100 rs7549840 rs2778003 rs2758620 rs7549100 exm111889 rs7524979 rs980937 rs1321646 rs11583390 rs12742463 rs2479868 rs16840445 rs857691 chr1_158627823_C_T rs857705 chr1_158769087_A_G rs16841134 rs7513873 chr1_158812100_A_INDEL rs2494034 rs2494034 rs16842016 corect_rs115023714 chr1_159698549_A_G chr1_159816313_G_T rs11807946 rs6671929

genotype difference Col_33_IF Col_12_CB Col_38_TS Col_16_IF Col_33_CB Col_16_TS Col_38_TS Col_52_IF Col_12_IF Col_33_TS Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_38_CB Col_33_CB Col_33_IF Col_33_IF Col_33_CB Col_52_CB Col_16_TS Col_52_TS Col_33_TS Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_52_CB Col_52_TS Col_12_CB Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_08_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF

RI PT


Marker ID

19

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT

[A/G] [A/G] [A/G] [A/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [C/G] [C/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [G/C] [T/C] [T/G] [A/C] [T/C] [A/G] [T/A] [T/A] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [G/C] [G/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/G] [T/C]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

160110812 160262605 160262605 160313733 160513183 160654786 160654786 160654786 160809285 160840298 160927294 161184097 161199175 161526187 161726951 161726951 161938416 161959400 162100004 162226602 162263270 162543172 162552130 162614071 162843606 163093382 163132803 163297381 163298831 163298831 163308256 163330805 163679501 163772455 163837024 164060002 164173124 164207723 164327833 164332266 164350468 164404171 164474258 164625696 164716168 164883887 165138246 165264856 165448157 165533420 165652785 165939856 165939856 166336254 166389338 166511732 166545275 166860471 166978116 167018244

SC

M AN U TE D

AC C

EP

chr1_160110812_C_T chr1_160262605_C_T chr1_160262605_C_T rs1886417 rs1503859 rs1980606 rs1980606 rs1980606 rs6671710 rs4656947 rs16832570 chr1_161184097_A_G kgp24850470 chr1_161526187_C_T rs3767638 rs3767638 chr1_161938416_C_T chr1_161959400_C_T chr1_162100004_C_T chr1_162226602_A_G rs10919096 rs12130399 chr1_162552130_C_G chr1_162614071_C_T rs2803881 rs2841989 rs1876451 rs12691496 chr1_163298831_A_T chr1_163298831_A_T chr1_163308256_A_G rs1396544 rs1289002 rs13374982 chr1_163837024_C_T rs6672232 rs1415434 rs16826820 rs574944 rs2077409 rs526421 rs2788526 rs10918018 rs12047043 rs11583670 rs7538001 rs1891927 rs6662349 rs10918196 chr1_165533420_A_G chr1_165652785_A_G rs12567910 rs12567910 rs10800219 rs1389779 rs1530321 rs10918532 rs2223221 rs72689335 chr1_167018244_A_G

genotype difference Col_38_TS Col_33_IF Col_38_TS Col_12_CB Col_33_IF Col_16_TS Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_33_CB Col_33_TS Col_52_CB Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_38_IF Col_33_IF Col_33_IF Col_52_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_38_CB Col_52_TS Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_45_TS Col_33_IF Col_52_CB Col_52_IF Col_33_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_38_IF

RI PT


Marker ID

20

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP BOT TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT MINUS TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT TOP TOP BOT BOT

[T/C] [A/G] [A/G] [T/A] [A/G] [T/C] [T/C] [T/C] [A/C] [A/C] [G/C] [T/G] [T/C] [T/G] [T/C] [A/G] [A/G] [A/G] [T/C] [I/D] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/G] [T/G] [T/C] [T/C] [T/C] [T/C] [A/C] [A/G] [C/G] [C/G] [T/C] [T/C] [A/G] [T/G] [T/C] [A/C] [T/C] [A/G] [T/C] [T/G] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/G] [T/G] [A/C] [C/G] [T/G] [T/G]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

167259755 167318260 167477937 167511595 167530546 167638557 167760731 167794406 167810373 168025536 168171701 168179720 168375973 168535352 168634922 168734457 168734457 168856283 169083461 169277908 169588354 169823660 169957766 169958287 169990292 169990292 170014646 170372503 170387225 170433781 170912898 170917692 171006551 171107737 171126523 171130539 171130539 171178490 171178490 171180485 171217691 171249166 171250107 171254794 171254804 171254890 171275804 171275804 171394212 171417202 171684506 171717806 171901805 172137019 172137119 172137119 172450689 172837633 172961211 172961211

SC

M AN U TE D

AC C

EP

rs4656538 chr1_167318260_C_T rs2982484 rs41270716 rs1737476 rs6695906 rs10753764 rs1476075 rs204267 chr1_168025536_A_C chr1_168171701_C_G chr1_168179720_G_T rs2300568 rs16860907 chr1_168634922_A_G rs12065661 rs12065661 rs10919006 chr1_169083461_C_T chr1_169277909_INDEL_T rs3917696 rs1062976 chr1_169957766_A_G chr1_169958287_C_T chr1_169990292_A_G chr1_169990292_A_G chr1_170014646_C_T rs10919388 chr1_170387225_G_T rs4294468 chr1_170912898_C_T corect_rs115914299 chr1_171006551_C_T kgp3492515 chr1_171126523_A_G kgp1999495 kgp1999495 rs28369914 rs28369914 kgp3634609 kgp6353310 rs10912709 kgp15528650 rs12954 rs28360434 rs7877 rs12747080 rs12747080 rs4579793 rs10913039 rs1001373 rs72719508 rs6673009 rs17361886 rs672740 rs672740 rs4916263 chr1_172837633_C_G rs2901695 rs2901695

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_16_IF Col_52_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_38_CB Col_08_TS Col_52_IF Col_16_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_38_TS Col_38_IF Col_12_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_52_TS Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_16_IF Col_16_IF Col_52_TS Col_34_IF Col_33_IF Col_16_TS Col_12_TS

RI PT


Marker ID

21

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP BOT BOT TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP

[A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/G] [T/G] [T/G] [T/G] [A/G] [T/C] [T/C] [A/G] [A/C] [A/C] [T/C] [A/G] [A/G] [T/C] [T/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/A] [T/A] [A/G] [T/G] [A/G] [A/G] [A/G] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [A/C] [A/C]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

173223863 173278169 173362070 173437024 173776428 173989219 174044952 174044952 174044952 174044952 174400537 174425627 174425627 174546936 174605170 174979726 175986057 176311597 176362201 176363538 176611275 177669302 178095048 178232469 178342194 178668341 178826282 178848223 178848223 178862797 178862797 178862797 178863023 178949483 178949483 178964604 178967229 179043939 179072728 179292574 179526175 179598179 179824593 179824593 179840020 180256689 180335264 180391043 180575168 180633595 180692815 181126503 181131719 181178391 181296671 181465173 181489802 181582350 181582350 181782017

SC

M AN U TE D

AC C

EP

rs844648 rs6685520 rs16845817 rs10798282 chr1_173776428_C_T kgp8044790 rs1547773 rs1547773 rs1547773 rs1547773 rs12565430 rs10489259 rs10489259 rs6691118 rs16847271 rs10912866 chr1_175986057_C_T rs10913158 rs2504494 chr1_176363538_C_T rs10913227 rs12139234 rs728569 rs7531227 chr1_178342194_A_G rs12045804 rs10913634 rs3766637 rs3766637 rs12143627 rs12143627 rs12143627 chr1_178863023_C_T corect_rs114431149 corect_rs114431149 rs1012066 rs6697180 rs16853619 rs3829794 exm1739249 newrs61747727 rs4610966 chr1_179824593_A_T chr1_179824593_A_T chr1_179840020_C_T rs2764461 rs4333819 rs4652501 rs9970363 corect_rs143167892 rs12408176 rs11582767 chr1_181131719_A_G chr1_181178391_A_G chr1_181296671_C_T rs12734881 rs683927 rs4271174 rs4271174 rs509391

genotype difference Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_16_TS Col_33_IF Col_16_IF Col_38_TS Col_52_IF Col_12_CB Col_33_IF Col_16_TS Col_52_IF Col_33_IF Col_16_TS Col_33_IF Col_52_IF Col_59_TS Col_52_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_34_TS Col_38_CB Col_52_IF Col_52_IF Col_16_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_CB Col_12_CB Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_33_CB Col_33_IF Col_52_CB Col_33_IF Col_33_CB Col_52_CB Col_33_IF Col_33_IF Col_52_CB Col_12_CB

RI PT


Marker ID

22

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP TOP TOP BOT TOP BOT BOT TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT TOP TOP BOT TOP TOP BOT TOP BOT TOP TOP BOT TOP TOP TOP BOT BOT TOP BOT BOT TOP BOT TOP TOP BOT BOT TOP BOT TOP TOP BOT BOT TOP TOP

[A/T] [T/G] [T/G] [A/G] [A/G] [A/G] [T/C] [A/G] [G/C] [G/C] [A/G] [A/G] [T/C] [T/C] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/C] [A/G] [T/C] [A/G] [T/G] [A/G] [A/G] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [T/C] [T/G] [A/G] [T/C] [A/G] [A/G] [T/A] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

181810089 181901168 181901168 182106702 182108102 182108102 182131294 182185360 182213637 182213637 182372452 182812217 182973186 182975100 182982538 182988608 182990834 182995233 183014289 183017345 183017769 183037377 183065406 183072147 183081995 183090011 183090057 183094314 183098001 183101038 183108611 183108778 183112566 183114797 183115341 183118282 183120825 183144723 183284230 183298502 183408227 183410168 183410168 183419946 183497627 183561189 183580370 183616687 183616926 183721841 183788902 184314411 184443829 185113039 185114837 185114837 185176395 185265149 185822028 185822028

SC

M AN U TE D

AC C

EP

chr1_181810089_A_T chr1_181901168_G_T chr1_181901168_G_T chr1_182106702_A_G rs6674234 rs6674234 rs10911029 rs10911032 chr1_182213637_C_G chr1_182213637_C_G rs2148026 rs7533385 rs8179262 rs4652758 rs4442336 rs10737236 rs10752887 rs10911196 rs6660111 rs6664995 rs10797822 rs6697320 rs7525917 rs10911242 rs10797843 rs3768622 rs3768621 rs2093984 rs10797851 rs10752904 rs2027085 rs72729476 rs944970 rs12034436 rs35855069 rs2483675 rs75176403 rs10797857 rs12562920 rs10797875 rs3916572 rs6678117 rs6678117 chr1_183419946_A_C rs12144253 rs34990556 rs2761560 rs1174656 rs1174657 rs71516952 chr1_183788902_A_T rs4568789 rs12043012 Chr1:185113039:G:A rs6684586 rs6684586 rs7543962 rs10798004 chr1_185822028_A_G chr1_185822028_A_G

genotype difference Col_12_TS Col_16_TS Col_33_IF Col_33_IF Col_33_TS Col_38_CB Col_33_IF Col_12_CB Col_33_CB Col_12_IF Col_33_IF Col_33_IF Col_34_TS Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_16_TS Col_38_TS Col_12_CB Col_33_IF Col_08_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_16_IF Col_12_CB Col_34_TS Col_38_CB Col_33_IF Col_12_CB

RI PT


Marker ID

23

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP BOT BOT TOP TOP BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP PLUS TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT MINUS

[T/C] [T/G] [A/T] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [G/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/T] [A/G] [A/G] [T/C] [A/G] [A/C] [A/G] [A/C] [A/T] [A/G] [I/D] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/C] [A/C] [T/C] [T/G] [A/G] [A/G] [C/G] [A/T] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [A/C] [A/G] [T/C] [D/I]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

185864512 185968623 186149869 186168281 186168281 186225257 186330643 186379265 186418600 186418798 186465916 186561765 186642856 186643058 186647138 186647138 186649004 186649004 186715383 186781649 186810565 186828117 186830092 186831728 186832086 186834673 186838333 186962034 186964561 187007181 187092482 187095959 187267411 187279324 187287746 187533898 187617377 187623942 187623942 187647751 187852822 187853939 187853939 188172757 188323649 188440351 188458988 188525475 188555567 188562024 188711452 188764543 188775637 188826462 189174788 189187918 189187918 189274496 189279712 189279796

SC

M AN U

TE D

rs16824658 chr1_185968623_A_C chr1_186149869_A_T rs857753 rs857753 rs639524 rs10494586 rs6665157 rs12407957 rs11801527 chr1_186465916_C_T chr1_186561765_A_G rs4648292 rs5275 rs4648268 rs4648268 rs4648261 rs4648261 chr1_186715383_A_T chr1_186781649_C_T chr1_186810565_A_G chr1_186828117_A_G chr1_186830092_A_G rs6685652 rs77079247 rs77897442 rs12567135 rs12139986 chr1_186964562_A_INDEL rs12566615 rs1924736 rs12047450 rs4144116 rs1874414 chr1_187287746_A_G rs2789391 chr1_187617377_A_G rs10912115 rs10912115 rs10912140 rs10798153 chr1_187853939_A_C chr1_187853939_A_C rs12044617 chr1_188323649_A_C rs12091277 rs6656158 rs10912438 chr1_188555567_A_T rs10798231 rs10754136 rs4551597 rs76995879 rs16829440 chr1_189174788_C_T rs11801708 rs11801708 chr1_189274496_C_T chr1_189279712_A_G chr1_189279796_INDEL_TAAAC

genotype difference Col_12_CB Col_34_IF Col_33_IF Col_16_TS Col_38_TS Col_52_TS Col_12_TS Col_08_TS Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_38_IF Col_16_IF Col_16_IF Col_38_CB Col_16_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_34_IF Col_38_TS Col_12_IF Col_33_IF Col_16_IF Col_08_TS Col_33_IF Col_52_TS Col_33_IF Col_38_IF Col_33_IF Col_34_TS Col_52_IF Col_52_IF Col_52_IF Col_52_IF Col_59_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_52_IF Col_33_IF Col_16_IF Col_12_IF Col_33_IF Col_38_CB Col_33_IF

RI PT


Marker ID

24

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP BOT BOT TOP TOP TOP BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT BOT TOP TOP BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP

[A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/C] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/C] [A/G] [T/C] [T/C] [T/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/C] [A/G] [T/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/G] [A/G] [A/G] [A/G]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

189291501 189292294 189301483 189303045 189304304 189308601 189308601 189311466 189312599 189314995 189315121 189315127 189315127 189316618 189317028 189317028 189317028 189319437 189320086 189320464 189321130 189321521 189428501 189505535 189574873 189784863 189817957 190010100 190020770 190020770 190056706 190131750 190150037 190201724 190287713 190416298 190416298 190418961 190424966 190455544 190455544 190467826 190485500 190768945 190786827 190804630 190813289 190934383 190990146 191016101 191044012 191044012 191161284 191161284 191231120 191429227 191512427 191618129 191636974 191776078

SC

M AN U TE D

AC C

EP

chr1_189291501_A_G chr1_189292294_C_T chr1_189301483_A_G chr1_189303045_A_G chr1_189304304_C_T chr1_189308601_C_T chr1_189308601_C_T chr1_189311466_C_T chr1_189312599_C_T chr1_189314995_G_T chr1_189315121_G_T chr1_189315127_C_T chr1_189315127_C_T chr1_189316618_A_G chr1_189317028_A_G chr1_189317028_A_G chr1_189317028_A_G chr1_189319437_G_T chr1_189320086_C_T chr1_189320464_C_T chr1_189321130_C_T chr1_189321521_G_T rs10754190 chr1_189505535_C_T chr1_189574873_C_T chr1_189784863_C_T chr1_189817957_A_G rs6427944 rs2037871 rs2037871 rs7536465 rs10920654 rs2253618 rs4399162 rs655598 rs12087474 rs12087474 rs1171024 rs12058205 rs12034237 rs12034237 rs703931 rs814923 rs7550667 rs12564225 rs2489676 rs10494649 rs1431142 rs10801004 rs1886414 corect_rs114509759 corect_rs114509759 rs16833288 rs16833288 rs1629378 rs650957 chr1_191512427_G_T rs12047092 chr1_191636974_A_G rs10494663

genotype difference Col_16_TS Col_38_TS Col_33_IF Col_16_IF Col_33_IF Col_33_CB Col_52_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_52_CB Col_33_CB Col_38_CB Col_45_IF Col_52_IF Col_34_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_34_CB Col_16_TS Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_16_IF Col_38_IF Col_33_IF Col_33_CB Col_33_IF Col_38_CB Col_52_IF Col_33_IF Col_52_TS Col_38_CB Col_59_TS Col_52_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_12_IF Col_38_TS Col_52_IF Col_12_CB Col_33_IF Col_12_CB Col_52_IF Col_16_TS Col_33_IF

RI PT


Marker ID

25

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP BOT TOP TOP BOT TOP BOT TOP TOP BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT BOT BOT TOP PLUS BOT BOT BOT

[T/C] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [T/A] [A/G] [T/A] [A/G] [A/G] [C/G] [A/C] [A/G] [A/G] [A/G] [T/C] [A/C] [A/C] [G/C] [A/C] [A/G] [T/G] [A/G] [T/G] [A/G] [A/G] [T/G] [A/C] [A/G] [A/G] [T/G] [A/G] [A/G] [A/G] [A/C] [A/C] [T/C] [A/G] [T/C] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G] [A/C] [T/G] [T/C] [A/G] [A/G] [T/C] [T/G] [T/C] [A/G] [I/D] [T/G] [T/G] [T/C]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

191798964 191855740 191868116 191983048 192045812 192405661 192476716 192595376 193164147 193485834 193521335 193634651 193646648 193783317 193788485 193994024 194011835 194083005 194089817 194309053 194448094 194570341 194572285 194617533 194635582 194683991 194910383 194914012 194938031 195085692 195095179 195134340 195247438 195302846 195448770 195646909 195724306 195742263 195831358 195954813 195997563 195997563 196010327 196429963 196429963 196429963 196433870 196557329 196635470 196660261 196823300 196843711 196871674 196927185 196928157 197055925 197338662 197372250 197512851 197521877

SC

M AN U TE D

AC C

EP

rs12023209 rs9427802 rs1340202 rs12134799 chr1_192045812_A_C rs6676076 chr1_192476716_A_G chr1_192595376_A_T rs12085373 rs10921373 rs9660530 rs7550917 rs11807840 rs10921443 rs6693857 rs10737634 rs12731751 rs592427 rs693833 rs6700148 chr1_194448094_C_G rs12043773 rs6691362 rs3009358 chr1_194635582_C_T rs12140285 rs339591 rs339597 rs9659629 rs6684597 rs822456 rs643532 rs2026082 rs12022395 rs10754140 rs10921887 rs9943101 rs16838884 rs12064485 rs1597732 rs1008082 rs1008082 rs1037390 chr1_196429963_A_G chr1_196429963_A_G chr1_196429963_A_G rs10922071 rs12128544 rs34388368 rs10801555 rs10922144 rs6428363 exm133644 newrs41257904 chr1_196928157_C_T rs10754213 chr1_197338662_A_INDEL rs11802794 chr1_197512851_G_T rs6677361

genotype difference Col_38_TS Col_08_TS Col_52_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_16_TS Col_33_IF Col_16_IF Col_33_IF Col_12_TS Col_33_IF Col_34_TS Col_12_CB Col_33_CB Col_34_CB Col_33_CB Col_12_CB Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_TS Col_33_IF Col_45_CB Col_33_CB Col_52_IF Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_38_TS Col_33_IF Col_12_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_34_TS Col_59_TS Col_33_IF Col_16_IF Col_38_CB Col_52_IF Col_33_IF Col_33_IF Col_52_IF Col_38_IF Col_16_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_38_CB

RI PT


Marker ID

26

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP TOP BOT TOP BOT TOP TOP TOP BOT BOT TOP BOT TOP TOP BOT TOP BOT BOT BOT TOP TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP BOT BOT MINUS PLUS BOT TOP BOT BOT

[A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [T/C] [A/G] [A/C] [T/G] [A/G] [T/C] [T/C] [T/G] [A/G] [A/C] [T/C] [A/C] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [T/A] [A/G] [A/C] [A/G] [T/C] [T/C] [T/C] [T/G] [A/G] [G/C] [T/C] [T/C] [T/C] [A/G] [T/G] [T/A] [T/C] [T/C] [A/T] [A/T] [T/G] [T/C] [I/D] [D/I] [T/C] [A/G] [T/C] [T/C]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

197582780 197631657 197823360 197866379 197959936 197966051 197997953 198029657 198389958 198634997 198634997 198645051 198658482 198920036 199181905 199362216 199596192 199703594 199740914 199840991 199844057 200016460 200031107 200052623 200259938 200380506 200592275 200662215 200898102 201035607 201489731 201728371 201753696 201767249 201812989 201898774 202073657 202117002 202172594 202188616 202282990 202425496 202431464 202431464 202926113 203159916 203195877 203493206 203566101 203566101 203770448 203770448 204128854 204161507 204376508 204398400 204512100 204630683 204737718 204756174

SC

M AN U TE D

AC C

EP

rs11799915 chr1_197631657_A_G rs10922306 chr1_197866379_C_T rs1475145 rs10801637 rs4497244 rs74230223 rs7545645 rs3767742 rs3767742 rs74134783 rs80120393 rs6703089 rs6427760 rs571609 corect_rs114151190 chr1_199703594_G_T chr1_199740914_A_G rs16845628 rs10919757 rs3790840 rs2816913 rs61819925 rs34959467 chr1_200380506_A_C rs2808248 rs7542210 chr1_200898102_A_G rs2297901 chr1_201489731_A_G rs12354150 chr1_201753696_A_T chr1_201767249_C_T chr1_201812989_G_T rs10494831 chr1_202073657_A_G chr1_202117002_A_G chr1_202172594_C_T chr1_202188616_G_T chr1_202282990_C_T rs36092204 chr1_202431464_A_G chr1_202431464_A_G chr1_202926113_A_G rs76492247 rs3766537 rs28497375 chr1_203566101_A_G chr1_203566101_A_G chr1_203770448_A_T chr1_203770448_A_T rs1464816 rs4951317 chr1_204376508_ATA_INDEL chr1_204398400_G_INDEL rs4252717 rs12135561 rs72755831 chr1_204756174_C_T

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_38_IF Col_33_CB Col_16_TS Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_52_TS Col_12_CB Col_33_IF Col_52_CB Col_16_TS Col_33_CB Col_33_IF Col_33_CB Col_33_CB Col_33_IF Col_33_CB Col_38_TS Col_16_TS Col_34_TS Col_12_CB Col_33_CB Col_08_CB Col_33_IF Col_34_IF Col_08_TS Col_33_IF Col_33_IF

RI PT


Marker ID

27

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT TOP MINUS BOT MINUS MINUS BOT BOT BOT PLUS BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP TOP BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT TOP BOT TOP TOP BOT

[T/C] [A/C] [T/A] [T/C] [A/G] [D/I] [T/G] [I/D] [I/D] [T/A] [T/C] [T/C] [D/I] [T/C] [T/C] [T/C] [G/C] [G/C] [T/A] [T/A] [A/G] [T/C] [A/G] [T/A] [T/A] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/C] [A/G] [T/C] [T/C] [T/C] [A/C] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

204929135 204972288 205015799 205049383 205070573 205158290 205175401 205212532 205212532 205244972 205356418 205497452 205672107 205806179 205806179 205806179 206202545 206202545 206924536 206924536 207026688 207030985 207249281 207330856 207330856 207556770 207673631 207673631 207673631 207936886 207966393 207966393 208078238 208127490 208141633 208262786 208296083 208766610 208772958 208781486 208805951 208929732 209181761 209192139 209283460 209291638 209336246 209731542 209786883 209858453 209859620 209859620 209908025 209959614 210291476 210353596 210394270 210528907 210528907 210529582

SC

M AN U TE D

AC C

EP

rs895933 rs2802839 rs3767279 rs9651228 rs11240358 chr1_205158290_C_INDEL rs11240386 chr1_205212533_A_INDEL chr1_205212533_A_INDEL rs1172129 rs6683525 rs74142373 chr1_205672107_C_INDEL rs6694490 rs6694490 rs6694490 rs28588851 rs28588851 chr1_206924536_A_T chr1_206924536_A_T chr1_207026688_A_G rs1033272 chr1_207249281_A_G chr1_207330856_A_T chr1_207330856_A_T rs12116783 rs7533408 rs7533408 rs7533408 chr1_207936886_C_T rs12568382 rs12568382 rs1932819 rs1074327 chr1_208141633_C_T rs10863694 rs11118988 rs12029495 rs10779489 rs17259861 chr1_208805951_A_G rs12404464 rs1078550 rs4844743 rs11119220 rs6694118 rs11119231 rs6683256 rs2206107 rs846908 kgp15267080 kgp15267080 kgp15808422 rs1044516 rs2130628 rs2485898 rs591594 rs4845004 rs4845004 rs4845006

genotype difference Col_33_CB Col_45_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_52_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_52_TS Col_12_IF Col_33_IF Col_12_CB Col_38_CB Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_52_IF Col_12_IF Col_33_IF Col_33_IF Col_38_CB Col_12_IF Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_45_IF Col_38_CB Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_38_CB Col_33_IF Col_52_IF Col_33_CB Col_33_IF Col_38_TS Col_52_CB Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF

RI PT


Marker ID

28

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP MINUS

[T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [C/G] [A/G] [T/A] [A/C] [T/C] [A/G] [A/G] [T/G] [A/G] [A/C] [A/G] [T/G] [T/G] [T/G] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [T/C] [A/G] [I/D]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

210620492 210833748 211098350 211108733 211194215 211405423 211730036 212065291 212344323 212357017 212711012 212727262 212885805 213491399 213536227 213684362 213929960 213941794 214002260 214007190 214318748 214587488 214875024 215031151 215167414 215167414 215205835 215228234 215228721 215238904 215320359 215369346 215828499 215880177 215880177 215966649 215974257 215989973 216054086 216066437 216066437 216281673 216281673 216638249 216651913 216665455 216672805 216755333 216755753 216854148 216965834 216965834 216965834 217103658 217124731 217162879 217190815 217230015 217255780 217517125

SC

M AN U TE D

AC C

EP

rs12025108 chr1_210833748_A_G rs1354112 rs7529770 rs12078498 rs3125829 rs2165993 rs72748521 rs11119865 rs11119874 rs650229 rs7522039 rs7555918 rs1655996 rs1656015 chr1_213684362_A_G chr1_213929960_C_T chr1_213941794_A_G rs6693625 rs11120221 rs10864086 rs17731408 rs377272 rs1415181 rs12119060 rs12119060 rs2841590 rs12131054 rs17606074 rs1157492 corect_rs150370859 rs76196826 chr1_215828499_C_T rs7546433 rs7546433 chr1_215966649_A_C rs6540911 rs6540912 rs7544464 rs1981227 rs1981227 rs11120735 rs11120735 rs12142867 chr1_216651913_C_T rs12031665 rs6666194 chr1_216755333_C_T rs6701062 rs11580756 rs10218498 rs10218498 rs10218498 rs6682369 chr1_217124731_C_T rs3000609 rs1890554 rs6680670 rs7539648 chr1_217517126_A_INDEL

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_33_CB Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_12_IF Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_16_TS Col_34_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_52_IF Col_34_CB Col_12_IF Col_12_CB Col_33_IF Col_12_CB Col_33_CB Col_08_CB Col_33_IF Col_33_IF Col_16_TS Col_38_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_08_TS

RI PT


Marker ID

29

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP BOT BOT BOT PLUS BOT TOP BOT TOP BOT BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT TOP BOT TOP TOP BOT TOP BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT

[T/C] [T/C] [A/G] [T/G] [T/C] [T/C] [D/I] [T/C] [A/C] [T/G] [A/G] [T/C] [T/A] [G/C] [A/G] [T/C] [A/G] [A/G] [A/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/C] [A/G] [A/G] [A/T] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/C] [T/C] [T/C] [A/G] [A/G] [T/G] [A/G] [T/C] [A/G] [A/G] [T/G] [A/G] [T/G] [T/G] [A/C] [A/C] [A/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

217734609 217954378 218008002 218067292 218299276 218442002 218504400 218551029 218607297 218620091 218646954 218663189 218799564 218936717 218936752 218960310 219030753 219095423 219143598 219220558 219337294 219583791 219641900 219700334 219867194 220032318 220053857 220119198 220154768 220156729 220156729 220351723 220351723 220527820 220578799 220633806 220673783 220684386 220725132 221103744 221462534 221542195 221603164 221608742 221632498 221682007 221718224 221778975 221778975 221786972 221786972 221793334 221817308 221821302 221846885 221907816 221908908 221908908 221917596 221919007

SC

M AN U TE D

AC C

EP

rs17046602 rs4846440 rs4846443 rs7546839 rs12125587 chr1_218442002_A_G chr1_218504399_C_INDEL rs12063836 rs10482808 rs11118107 rs6604616 rs3009935 chr1_218799564_A_T rs9431102 rs9431471 rs6655980 chr1_219030753_A_G rs7525547 rs629222 rs1700853 rs9308387 rs2791558 rs2605096 rs6704014 rs17006346 rs2008602 rs10399645 chr1_220119198_A_T rs1061160 chr1_220156729_C_T chr1_220156729_C_T rs11805285 rs11805285 rs7544009 chr1_220578799_C_T chr1_220633806_G_T chr1_220673783_A_G rs10863557 rs2589586 rs1335915 chr1_221462534_A_C chr1_221542195_A_G rs9727891 rs72730837 rs1459229 rs10863628 rs12136041 rs12021952 rs12021952 rs74145376 rs74145376 rs78200510 rs2176690 rs7520263 rs77752562 rs11118841 rs61823529 rs61823529 rs79854565 rs79201500

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_16_TS Col_33_IF Col_33_CB Col_33_IF Col_08_CB Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_38_IF Col_52_IF Col_33_IF Col_12_IF Col_12_CB Col_12_CB Col_16_TS Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_12_TS Col_38_IF Col_52_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_59_TS Col_33_IF Col_08_TS

RI PT


Marker ID

30

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP TOP MINUS MINUS MINUS BOT TOP BOT TOP

[T/C] [T/C] [T/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [A/C] [T/C] [T/G] [A/G] [A/G] [T/C] [T/G] [T/C] [T/C] [A/G] [A/G] [T/A] [A/G] [T/C] [T/C] [T/C] [T/C] [T/G] [T/G] [A/G] [T/C] [T/C] [T/C] [C/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [I/D] [I/D] [I/D] [T/C] [A/G] [T/A] [A/G]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

221919007 221937728 221938091 221938911 221938997 221946723 221946723 221968598 221975525 221975525 221987183 221999562 222053234 222053234 222054304 222084078 222084078 222104306 222117074 222117198 222120767 222280229 222362840 222437449 222532812 222595266 222635261 222762128 222951972 222990314 223082306 223102867 223506761 223561802 223583902 224050693 224306051 224625075 224808134 224848250 224966644 225137134 225528665 225528665 225539508 225847029 225903098 226020555 226024797 226355373 227216662 227989064 228122132 228177037 228177037 228177037 228505204 229008266 229359132 229416068

SC

M AN U TE D

AC C

EP

rs79201500 rs72736571 rs11118851 rs4846352 rs11576121 rs61696703 rs61696703 rs12090948 rs78125097 rs78125097 rs7514382 rs9441974 rs11118882 rs11118882 rs7340042 rs80154343 rs80154343 rs35334529 rs78090386 rs7520544 rs12122784 rs7550876 rs12750381 rs35557247 rs35510940 rs11581653 rs9441910 chr1_222762128_A_C rs3922772 chr1_222990314_C_T rs2068483 rs1538560 chr1_223506761_A_T rs2487521 chr1_223583902_A_G chr1_224050693_C_T chr1_224306051_A_G rs10799573 rs880496 rs1499282 rs2574881 rs2128268 rs12728785 rs12728785 chr1_225539508_C_G rs12043837 rs12081218 rs45487997 rs2740170 rs12402078 rs1929861 chr1_227989064_C_T rs7529664 chr1_228177038_A_INDEL chr1_228177038_A_INDEL chr1_228177038_A_INDEL rs4653942 rs1089255 rs41482651 rs10799523

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_16_TS Col_33_IF Col_38_TS Col_38_IF Col_16_TS Col_52_IF Col_33_IF Col_52_IF Col_12_IF Col_34_TS Col_34_TS Col_38_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_52_TS Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_38_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_08_CB Col_38_TS Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

31

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT TOP TOP BOT TOP TOP BOT MINUS TOP TOP TOP BOT TOP BOT TOP TOP BOT TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP BOT TOP BOT TOP BOT BOT TOP TOP

[T/C] [T/G] [T/C] [T/G] [A/G] [A/G] [T/C] [A/G] [G/C] [T/C] [A/G] [A/C] [T/C] [A/G] [A/G] [T/C] [D/I] [A/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/G] [A/G] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [T/G] [T/G] [T/C] [A/G] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [C/G] [T/C] [G/C] [A/G] [A/G]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

229464621 229483148 229861486 229988711 230377548 230377548 230564557 230604127 230693311 230883466 231097683 231195342 231255113 231691471 231691471 231813134 231974026 232149520 232168500 232168500 232172838 232527208 232847108 232911400 232916501 233191368 233197806 233284879 233332347 233490776 233514836 233515071 233516530 233554853 233743103 233770847 233881178 233887989 233949933 233973244 233973244 233973366 234105211 234293963 234435865 234581891 234606799 234739101 234957569 234957569 234974779 235877739 236389999 236567767 236659941 236722893 236912202 236935826 236945561 236953698

SC

M AN U TE D

AC C

EP

rs237807 rs238102 rs1930903 rs7548102 chr1_230377548_A_G chr1_230377548_A_G chr1_230564557_A_G rs1418131 rs1752189 rs12143120 chr1_231097683_A_G rs4658931 rs2883720 chr1_231691471_A_G chr1_231691471_A_G rs6541281 chr1_231974026_C_INDEL rs821634 rs9726024 rs9726024 rs3737597 rs3120765 chr1_232847108_A_G rs2814501 rs6689943 rs6424272 rs2357427 rs6424282 rs10797444 rs4649220 exm2273755 rs963982 rs10489692 rs6687087 rs780256 rs58754287 chr1_233881178_A_G rs1603133 chr1_233949933_A_G chr1_233973244_A_G chr1_233973244_A_G chr1_233973366_C_T rs7556173 rs6586373 rs501664 rs3768286 rs6694349 chr1_234739101_A_C rs7516159 rs7516159 rs2048791 rs6663926 rs10924790 rs593981 rs10925137 rs41310591 rs79183693 rs12125878 rs12406901 rs78385873

genotype difference Col_45_IF Col_33_IF Col_33_IF Col_12_IF Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_33_IF Col_12_CB Col_16_TS Col_12_IF Col_52_IF Col_33_IF Col_33_IF Col_08_CB Col_33_CB Col_33_IF Col_33_CB Col_16_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_CB Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_08_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_16_IF Col_08_CB Col_33_TS Col_33_CB Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

32

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP BOT BOT BOT BOT TOP PLUS TOP TOP TOP MINUS MINUS TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT PLUS BOT TOP BOT TOP TOP TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP BOT TOP

[T/C] [T/G] [A/G] [T/G] [T/G] [G/C] [T/C] [A/G] [D/I] [A/G] [A/G] [A/C] [D/I] [I/D] [A/C] [T/C] [T/C] [T/A] [T/C] [T/C] [T/C] [T/G] [T/G] [T/C] [T/C] [T/C] [I/D] [T/C] [A/G] [T/C] [A/G] [A/C] [A/C] [T/C] [A/G] [A/G] [A/C] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [T/G] [A/G] [A/C] [T/C] [A/C] [A/G] [A/G] [T/C] [A/C]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

236956645 236961355 236962387 236967201 236967201 236970380 236985981 236990936 237009688 237015958 237024074 237026257 237031887 237058997 237086941 237089660 237166773 237203483 237357012 237397924 237397924 237584925 237584925 237663757 237806819 237815546 237871072 237883745 237901607 237997254 238003342 238219114 238219114 238270039 238311680 238311680 238366533 238379863 238396953 238419413 238446621 238549714 238559857 238559857 238615866 238615866 238615866 238671232 238683538 238698680 238702243 238719720 238778872 238795509 238861548 238887546 238903098 238985075 239011801 239327341

SC

M AN U

TE D

rs17598011 rs10495384 rs16834396 rs77455506 rs77455506 rs78520857 rs79611361 rs79274719 rs67986769 rs55693346 rs12080662 rs77333012 Chr1:237031888:G:rs66495896 rs76860454 rs16834569 rs12410379 rs72764012 rs1765887 rs73121662 rs73121662 rs4593814 rs4593814 rs2618698 rs11583646 rs622625 chr1_237871073_INDEL_TTTG chr1_237883745_C_T rs10925501 chr1_237997254_C_T rs6700222 rs2211093 rs2211093 rs1796942 rs7547681 rs7547681 rs518552 chr1_238379863_A_G chr1_238396953_G_T rs1481135 chr1_238446621_C_T rs6678429 rs923543 rs923543 rs1418208 rs1418208 rs1418208 chr1_238671232_C_T rs10495412 rs523691 rs80121408 rs789099 rs649812 rs10925716 rs2202215 rs10925741 rs12123186 rs2841375 chr1_239011801_C_T rs75007311

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_52_IF Col_12_IF Col_34_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_CB Col_38_IF Col_52_IF Col_33_IF Col_16_IF Col_33_CB Col_52_TS Col_33_IF Col_33_IF Col_08_CB Col_33_IF Col_12_CB Col_08_TS Col_16_TS Col_33_IF Col_34_IF Col_52_TS Col_33_IF Col_12_CB Col_12_TS Col_52_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF

RI PT


Marker ID

33

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP MINUS BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT TOP BOT BOT TOP TOP TOP TOP TOP BOT TOP BOT BOT BOT TOP BOT TOP TOP TOP BOT TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT

[T/C] [T/C] [T/C] [T/G] [T/G] [T/C] [T/C] [T/C] [A/C] [A/G] [D/I] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/A] [T/G] [A/G] [A/G] [A/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/C] [A/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/G] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/G]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1

239350728 239410745 239436876 239469734 239771818 239910672 239985876 240025977 240098415 240586392 240589588 240652947 240652947 240674472 240674472 240709136 241042131 241121008 241121008 241159338 241171662 241292292 241320367 241479065 241494578 241518704 241522325 241794231 242044623 242096102 242251730 242283539 242380057 242652356 242856854 243298257 243502623 243731693 244155946 244169914 244225402 244353555 244511176 244581156 244581156 244636995 245004330 245521867 245521867 245728083 245745337 245840409 245866511 245920863 246181070 246355668 246390090 246534452 246718977 246721313

SC

M AN U TE D

AC C

EP

rs2664057 rs16838096 rs2820040 rs10925867 chr1_239771818_A_C chr1_239910672_A_G rs12072181 rs497576 rs10081951 rs1572417 chr1_240589588_G_INDEL chr1_240652947_A_G chr1_240652947_A_G rs2185285 rs2185285 rs16840341 rs2796742 chr1_241121008_C_T chr1_241121008_C_T rs6657011 rs12126639 rs12067659 rs10465632 rs77918528 rs7512603 chr1_241518704_A_G rs12038803 rs3765821 chr1_242044623_C_T chr1_242096102_A_T rs41310577 rs2800756 rs1604506 rs7526731 rs10926825 rs6429411 chr1_243502623_A_G rs10927040 rs7511723 rs510280 rs1565824 rs11577259 rs4658627 rs6661148 rs6661148 rs12068598 chr1_245004330_A_G chr1_245521867_C_T chr1_245521867_C_T rs1771492 rs1620343 rs2282381 rs3737918 rs2791372 rs7547858 rs10924537 rs2878079 rs10802397 rs7536768 rs61852367

genotype difference Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_34_IF Col_52_IF Col_33_IF Col_33_IF Col_16_TS Col_38_TS Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_CB Col_38_TS Col_33_CB Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_33_IF Col_52_IF Col_38_IF Col_33_IF Col_16_TS Col_38_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

34

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP BOT TOP BOT BOT BOT PLUS BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP BOT TOP TOP TOP TOP TOP BOT TOP BOT BOT TOP BOT BOT BOT

[T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [I/D] [T/G] [T/C] [T/C] [A/C] [A/G] [A/G] [T/G] [T/C] [T/G] [T/G] [A/G] [T/C] [A/G] [A/G] [T/A] [A/G] [A/G] [A/G] [A/G] [A/C] [G/C] [A/G] [T/C] [T/C] [A/G] [T/G] [T/C] [T/C]

1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

246892826 246892826 246907206 247008439 247019061 247055076 247069514 247150645 247200394 247200394 247305873 247320868 247352621 247422121 247422297 247561724 247584075 247840784 247845256 247917903 247929510 247997613 248073559 248073559 248145644 248249895 248455512 248488275 248552478 248688317 249198060 0 166224 285471 312992 516565 522921 744001 1013294 1123019 1263891 1263891 1952576 1989289 2109419 2210909 2256747 2473647 2529122 2713980 2719980 2866812 2866945 2970150 3092604 3250248 3434286 3519739 3608756 3929455

SC

M AN U TE D

AC C

EP

chr1_246892826_C_T chr1_246892826_C_T rs7513496 rs7549408 exm165677 newrs115920770 rs1691243 variant.11105 rs1005891 rs1005891 rs12093759 rs11806327 rs10754538 chr1_247422121_A_G rs4642922 rs10925010 rs4925650 rs28620741 rs1176001 chr1_247917903_G_T rs10888379 rs10888252 chr1_248073559_C_T chr1_248073559_C_T rs6695603 rs11204589 rs10888354 chr1_248488275_A_G rs1538706 rs28610409 rs6587761 chr2_214081921_INDEL_TC rs6707786 rs17714252 rs9309730 rs13006698 rs2724855 chr2_744001_C_T rs11894899 chr2_1123019_C_T rs9712145 rs9712145 rs919718 OncoSet4853812 kgp3266468 rs11887279 chr2_2256747_A_T rs13013201 rs4853930 rs75960263 chr2_2719980_C_T rs4853857 chr2_2866945_C_G rs1729907 rs7604183 rs1869416 rs12989971 rs6422709 rs4583476 chr2_3929455_C_T

genotype difference Col_33_CB Col_38_TS Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_52_CB Col_33_IF Col_33_IF Col_34_CB Col_34_TS Col_38_CB Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_CB Col_33_IF Col_52_CB Col_33_IF Col_08_TS Col_12_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_33_TS Col_33_IF Col_08_TS Col_33_CB Col_34_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS

RI PT


Marker ID

35

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP TOP TOP BOT BOT TOP BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT TOP TOP BOT BOT BOT BOT

[T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/C] [T/A] [T/A] [A/G] [T/C] [A/G] [A/G] [T/G] [T/G] [T/C] [A/G] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [G/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/C] [T/G] [A/G] [A/G] [T/C] [T/C] [T/G] [T/G]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

3929455 4045175 4045175 4051645 4053881 4053881 4176692 4573924 4573924 4677905 4741246 4854845 4854845 4938567 4938567 4973754 4983682 5292766 5301516 5301516 5455479 5464026 5610080 5689697 5728154 5904390 5904390 5991750 6233660 6315292 6315292 6368894 6368894 6394586 6478428 6494761 6555732 6653569 6653569 6657760 6665456 6872863 6937310 7028438 7116403 7216764 7260133 7295543 7295543 7360004 7360004 7382776 7392102 7396577 7631459 7680151 7682371 7821278 8414196 8414196

SC

M AN U TE D

AC C

EP

chr2_3929455_C_T rs4410308 rs4410308 chr2_4051645_A_G rs13394641 rs13394641 rs7601231 chr2_4573924_A_T chr2_4573924_A_T rs826027 rs7585068 chr2_4854845_A_G chr2_4854845_A_G rs1371488 rs1371488 rs12711964 rs11123605 rs17272087 chr2_5301516_A_G chr2_5301516_A_G rs1404253 chr2_5464026_C_T rs10929583 rs1561208 chr2_5728154_G_T rs12619507 rs12619507 rs6744419 rs2693872 chr2_6315292_C_T chr2_6315292_C_T rs7586450 rs7586450 rs12611650 rs4669060 rs9287675 rs17380176 rs1457510 rs1457510 rs16865301 rs3919811 chr2_6872863_C_T rs2174519 rs4669111 chr2_7116403_C_T chr2_7216764_C_G rs4669139 rs11685708 rs11685708 rs72770015 rs72770015 rs17628484 rs7591725 rs7599262 rs10495557 rs73911988 rs979290 chr2_7821278_A_G chr2_8414196_A_C chr2_8414196_A_C

genotype difference Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_34_IF Col_52_CB Col_33_IF Col_08_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_34_IF Col_34_IF Col_12_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_08_CB Col_33_CB Col_33_IF Col_33_CB Col_33_CB Col_16_TS Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_16_TS Col_52_IF Col_34_TS Col_12_CB Col_08_CB Col_33_IF Col_16_IF Col_38_CB Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_16_IF Col_59_TS Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_38_IF Col_52_IF Col_33_IF Col_16_TS Col_33_CB

RI PT


Marker ID

36

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT MINUS BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT MINUS TOP TOP TOP BOT BOT BOT TOP BOT TOP BOT TOP BOT BOT TOP TOP BOT TOP TOP BOT TOP BOT TOP BOT TOP TOP BOT BOT BOT TOP TOP BOT TOP BOT BOT

[A/G] [T/C] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [T/A] [T/A] [T/G] [A/G] [T/C] [I/D] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [A/G] [T/C] [T/C] [T/C] [T/C] [I/D] [A/C] [A/C] [A/G] [T/C] [T/C] [T/G] [A/C] [T/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/C] [A/G] [T/G] [A/G] [T/G] [T/C]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

8477175 8543062 8695807 8750006 9259598 9259598 9758621 9991867 10030617 10030617 10046859 10326865 10521719 10542874 10710730 10710730 10732663 11039291 11039291 11359120 11395066 11828027 12029246 12099064 12099064 12216651 12279879 12288075 12295638 12334573 12377665 12381269 12401923 12828973 13081694 13096218 13148064 13149840 13149840 13187948 13200869 13416593 13550026 13565136 13616952 13627507 13649918 13663715 13674575 13675599 13711114 13723317 13726242 13729062 13836550 13903204 13970627 13998386 14005264 14035554

SC

M AN U TE D

AC C

EP

rs3111422 chr2_8543062_C_T chr2_8695807_A_G chr2_8750006_A_C rs9636252 rs9636252 rs6432025 rs287992 chr2_10030617_A_T chr2_10030617_A_T rs12612554 chr2_10326865_C_T rs1420107 chr2_10542878_A_INDEL chr2_10710730_C_T chr2_10710730_C_T chr2_10732663_C_T rs7605799 rs7605799 chr2_11359120_G_T chr2_11395066_A_G rs62116185 rs7576131 chr2_12099064_C_T chr2_12099064_C_T chr2_12216652_INDEL_T rs916522 rs10179718 chr2_12295638_C_T rs12477218 chr2_12377665_C_T rs13006265 rs1901851 rs625842 rs779380 rs779403 rs9784164 rs10929842 rs10929842 chr2_13187948_A_G chr2_13200869_C_T rs2380487 corect_rs115208935 rs4290631 chr2_13616952_C_T rs12997126 rs494516 rs7579086 rs2177463 rs2177462 chr2_13711114_C_T rs7600795 rs11678087 chr2_13729062_A_G chr2_13836550_A_C rs12623139 rs1446540 chr2_13998386_A_G rs16860891 rs7581691

genotype difference Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_16_TS Col_34_CB Col_38_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_16_TS Col_38_TS Col_33_IF Col_33_IF Col_12_CB Col_34_TS Col_33_IF Col_16_TS Col_34_IF Col_33_CB Col_52_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_52_CB Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_34_TS Col_52_CB Col_33_IF Col_52_IF Col_12_IF Col_16_TS Col_33_CB Col_52_IF Col_16_IF Col_12_CB Col_16_IF Col_33_IF Col_33_IF Col_12_CB Col_52_TS Col_33_IF Col_52_CB Col_16_TS Col_52_IF Col_33_CB Col_33_IF Col_38_CB Col_16_TS

RI PT


Marker ID

37

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP TOP TOP BOT TOP BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT TOP BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP BOT

[T/C] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/G] [T/G] [T/C] [A/C] [T/C] [A/G] [A/G] [T/C] [T/G] [A/G] [T/G] [A/G] [A/C] [T/C] [T/C] [A/G] [A/G] [A/C] [T/G] [T/C] [T/G] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/G] [T/C] [A/C] [A/T] [A/G] [T/G] [T/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

14044883 14154731 14154731 14265886 14319838 14800749 15071980 15126538 15167324 15280132 15283405 15303819 15322577 15481752 15667436 15825988 15825988 15909600 16088880 16157804 16200946 16214286 16244463 16464227 16493067 16531549 16544056 16598521 16645616 16858380 17107107 17221404 17383905 17408334 17427585 17460756 17460756 17466012 17470469 17470469 17470469 17665651 17773524 17787266 17814030 18056447 18206898 18210327 18338029 18497240 18831220 18832346 18832346 18836829 18836842 18880357 18880357 18881322 18881322 18889430

SC

M AN U TE D

AC C

EP

rs11682654 rs6432431 rs6432431 chr2_14265886_A_G rs6706080 rs765786 rs12692539 rs6759771 rs11889589 rs6714977 chr2_15283405_A_G rs4668881 rs6730450 rs16862519 rs16862750 rs6743299 rs6743299 rs6706165 rs10205809 chr2_16157804_C_T rs7605722 rs4073262 chr2_16244463_A_G rs733555 rs4832490 rs7355377 rs919432 rs11884584 chr2_16645616_A_G rs1722423 rs2341506 rs4538201 chr2_17383905_A_C rs885302 rs11889338 chr2_17460756_G_T chr2_17460756_G_T rs1976809 rs74537463 rs74537463 rs74537463 rs76539768 rs2680827 rs11096480 rs2710684 rs9306861 rs2252138 chr2_18210327_A_G rs6709406 chr2_18497240_A_T chr2_18831220_A_G rs12053481 rs12053481 rs12989389 rs72776910 chr2_18880357_A_G chr2_18880357_A_G chr2_18881322_C_T chr2_18881322_C_T rs72776932

genotype difference Col_33_IF Col_16_CB Col_38_TS Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_34_IF Col_33_IF Col_34_IF Col_34_IF Col_33_IF Col_34_IF Col_34_IF Col_34_IF Col_34_IF Col_34_IF Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_33_IF Col_34_TS Col_12_CB Col_45_TS Col_59_TS Col_12_IF Col_16_IF Col_33_CB Col_38_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_16_TS Col_33_IF Col_12_CB

RI PT


Marker ID

38

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

MINUS MINUS MINUS MINUS TOP TOP BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT TOP TOP BOT BOT TOP BOT BOT TOP BOT TOP BOT TOP TOP BOT BOT TOP BOT BOT MINUS TOP BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT PLUS PLUS BOT BOT PLUS PLUS BOT

[D/I] [D/I] [D/I] [D/I] [A/C] [A/C] [T/C] [T/C] [A/C] [A/G] [T/A] [T/A] [T/A] [A/C] [A/C] [A/T] [A/G] [A/C] [A/C] [T/C] [A/C] [A/C] [T/C] [T/C] [A/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/G] [A/G] [A/G] [G/C] [T/C] [A/G] [T/C] [T/G] [I/D] [A/G] [T/G] [T/G] [A/G] [A/C] [A/C] [A/C] [T/A] [T/A] [T/A] [T/C] [T/C] [T/C] [T/C] [D/I] [D/I] [T/C] [T/C] [I/D] [I/D] [T/G]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

18907272 18907272 18907272 18957794 18961540 18961540 18996497 19010429 19029618 19051404 19051676 19051676 19051676 19075354 19075354 19076821 19128383 19129686 19129686 19184753 19245438 19245438 19281314 19306072 19310918 19313249 19339553 19368078 19376903 19377723 19386622 19420316 19420375 19460585 19461524 19487580 19492579 19493148 19498905 19523104 19539611 19539611 19539872 19593285 19593285 19593285 19637777 19637777 19637777 19646310 19649413 19649413 19649413 19676901 19676901 19679938 19693078 19709428 19732712 19740399

SC

M AN U

TE D

chr2_18907272_AAAAC_INDEL chr2_18907272_AAAAC_INDEL chr2_18907272_AAAAC_INDEL chr2_18957794_INDEL_TC rs71451006 rs71451006 chr2_18996497_C_T rs13386045 rs34033194 rs4398278 rs76383360 rs76383360 rs76383360 rs10180150 rs10180150 rs72778999 chr2_19128383_A_G chr2_19129686_G_T chr2_19129686_G_T rs12472710 chr2_19245438_G_T chr2_19245438_G_T rs12612382 rs7561338 rs11684853 rs4666461 rs17437211 rs2118381 rs16981939 rs10209246 rs75019634 rs851320 rs10169702 rs851376 rs1527490 rs10209036 rs1727177 rs34856737 chr2_19498906_A_INDEL rs66977047 rs17441180 rs17441180 rs6754306 rs4666485 rs4666485 rs4666485 rs34975618 rs34975618 rs34975618 rs11692444 chr2_19649413_A_G chr2_19649413_A_G chr2_19649413_A_G chr2_19676901_CTC_INDEL chr2_19676901_CTC_INDEL rs10182964 rs4621133 rs79380229 rs34974583 chr2_19740399_G_T

genotype difference Col_16_CB Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_08_TS Col_34_CB Col_12_IF Col_33_IF Col_34_TS Col_16_IF Col_33_IF Col_52_IF Col_12_CB Col_12_CB Col_52_CB Col_12_IF Col_38_CB Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_52_TS Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_52_IF Col_52_IF Col_33_CB Col_33_IF Col_38_TS Col_12_CB Col_33_IF Col_16_IF Col_38_CB Col_52_IF Col_33_CB Col_52_CB Col_12_CB Col_33_IF Col_08_TS Col_33_IF Col_38_IF Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_38_CB Col_33_IF Col_33_CB

RI PT


Marker ID

39

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT PLUS PLUS BOT PLUS PLUS TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT PLUS BOT MINUS BOT BOT TOP BOT PLUS TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP

[T/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [D/I] [D/I] [T/C] [D/I] [D/I] [A/G] [A/G] [A/G] [A/G] [C/G] [A/G] [T/C] [T/C] [T/C] [A/C] [T/C] [A/G] [A/G] [T/C] [I/D] [T/C] [D/I] [T/C] [T/C] [A/G] [T/G] [D/I] [A/G] [T/C] [T/G] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/C]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

19787310 19790820 19826045 19826777 19902658 19921630 19932664 20078571 20096936 20110856 20168753 20177088 20205352 20205352 20275972 20275972 20368393 20368393 20452868 20455630 20455630 20476251 20505312 20505312 20603229 20603229 20705593 20705593 20870031 20873333 20880833 20880833 20884381 20884973 20891772 20938518 20938518 20951332 20963938 21076721 21152240 21232803 21232803 21241744 21288970 21371196 21580938 21653983 22537264 22843449 22892638 23050423 23093232 23174479 23184327 23305406 23627416 23842690 24039779 24194160

SC

M AN U TE D

AC C

EP

rs80052570 rs76252297 rs12997522 rs11687591 rs754570 rs6708832 rs35019602 rs13002069 rs7563410 rs3731661 rs11680554 chr2_20177088_C_T rs2077676 rs2077676 rs13019569 rs13019569 rs11899291 rs11899291 rs741190 rs66826909 rs66826909 rs73214393 chr2_20505312_C_INDEL chr2_20505312_C_INDEL rs343142 rs343142 rs2348866 rs2348866 rs13013895 rs2242307 rs10193919 rs10193919 rs11693752 rs9085 rs4971524 rs76893106 rs76893106 rs619562 rs71797215 rs72784396 chr2_21152240_G_INDEL rs584542 rs584542 rs12720828 rs72780178 rs67545613 chr2_21580938_C_T rs11693815 rs4665177 rs10495730 rs10495729 rs6742401 chr2_23093232_C_T rs6726919 chr2_23184327_A_G rs13425087 rs4665209 rs605750 rs2339923 exm176343

genotype difference Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_52_IF Col_45_TS Col_12_CB Col_16_TS Col_38_TS Col_33_IF Col_38_IF Col_52_IF Col_38_IF Col_33_IF Col_52_CB Col_33_IF Col_34_TS Col_38_TS Col_12_CB Col_33_IF Col_33_IF Col_16_TS Col_45_IF Col_33_IF Col_33_CB Col_16_TS Col_33_IF Col_12_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_TS Col_12_CB Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF

RI PT


Marker ID

40

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP MINUS TOP MINUS BOT BOT BOT TOP BOT TOP BOT TOP TOP TOP TOP TOP BOT TOP BOT TOP BOT BOT BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP TOP TOP PLUS TOP TOP BOT BOT TOP

[A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [T/A] [T/A] [T/A] [T/C] [T/C] [A/G] [A/C] [A/G] [T/G] [A/G] [D/I] [A/G] [D/I] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/C] [A/C] [A/G] [A/G] [T/C] [A/T] [T/C] [A/G] [T/C] [T/C] [G/C] [A/G] [C/G] [A/G] [T/C] [A/G] [A/T] [T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [D/I] [A/G] [A/G] [T/C] [G/C] [A/G]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

24662502 24665197 24708417 24729639 24729639 24784168 24815624 24846981 24869151 24918159 24961054 24961054 24961054 25000901 25116966 25116977 25121168 25122852 25124388 25163364 25217659 25342914 25422606 25448197 25491016 26003230 26269731 26423040 26428132 26741551 26873672 27058451 27467943 27635582 27750545 28162749 28487706 28605588 28664547 28792359 28792359 28929720 28972579 28985674 28999943 29003451 29014585 29056801 29058501 29095990 29115289 29149051 29171381 29171381 29171588 29264326 29372369 29376110 29689693 30132986

SC

M AN U TE D

AC C

EP

rs2702056 chr2_24665197_A_G chr2_24708417_C_T kgp3296483 kgp3296483 rs7598617 chr2_24815624_A_G chr2_24846981_A_G chr2_24869151_C_T chr2_24918159_G_T chr2_24961054_A_T chr2_24961054_A_T chr2_24961054_A_T chr2_25000901_A_G chr2_25116966_C_T chr2_25116977_C_T chr2_25121168_G_T chr2_25122852_C_T chr2_25124388_A_C chr2_25163364_A_G chr2_25217659_G_INDEL rs7575363 chr2_25422606_AAG_INDEL chr2_25448197_A_G rs7586294 rs7605347 rs6741477 chr2_26423040_A_G rs17527979 rs7592040 rs752472 rs4513249 chr2_27467943_A_C rs1060525 chr2_27750545_A_G chr2_28162749_C_T chr2_28487706_A_T rs13411730 rs4260198 chr2_28792359_A_G chr2_28792359_A_G chr2_28929720_C_G chr2_28972579_C_T chr2_28985674_C_G chr2_28999943_A_G chr2_29003451_A_G chr2_29014585_C_T chr2_29056801_A_T chr2_29058501_A_C chr2_29095990_C_T chr2_29115289_C_T chr2_29149051_C_T chr2_29171381_C_T chr2_29171381_C_T chr2_29171588_INDEL_TG chr2_29264326_A_G rs3112916 rs3100241 chr2_29689693_C_G rs7589120

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_34_TS Col_12_CB Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_38_IF Col_12_CB Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_45_IF Col_52_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_52_TS Col_33_CB Col_08_TS Col_33_IF Col_52_IF Col_12_IF Col_33_CB

RI PT


Marker ID

41

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP BOT TOP BOT TOP TOP BOT TOP BOT TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP BOT TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP BOT TOP TOP BOT BOT BOT TOP BOT BOT TOP BOT TOP BOT TOP TOP TOP TOP

[A/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/C] [T/A] [A/G] [G/C] [T/C] [T/C] [A/C] [A/G] [T/C] [T/C] [T/C] [T/A] [T/A] [T/G] [T/G] [T/C] [T/A] [T/C] [A/G] [T/G] [T/C] [A/C] [T/C] [A/G] [A/C] [T/C] [A/G] [A/G] [A/G] [T/A] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

30135236 30497978 30716307 30905936 31077996 31184154 31479425 31571786 31571786 31616749 31733256 31910555 32081349 32192892 32550485 32740755 32775984 32782211 32804171 32816815 32816815 32843295 32843295 32922558 32922558 33144494 33223668 33245903 33264581 33314900 33320280 33362412 33365365 33429436 33438369 33455742 33474465 33516792 33521717 33549580 33583716 33606501 33634308 33655482 33678924 33678924 33689158 33695073 33695073 33757785 33814590 33852489 33944025 33960340 34047785 34083346 34159253 34159253 34159253 34159253

SC

M AN U TE D

AC C

EP

rs7605273 chr2_30497978_C_T rs13033111 rs2123752 rs2364430 chr2_31184154_C_T rs672364 rs1884725 rs1884725 rs206854 rs56148003 chr2_31910555_A_T chr2_32081349_C_T chr2_32192892_C_G rs6718214 exm185410 rs2243844 chr2_32782211_A_G chr2_32804171_A_G chr2_32816815_C_T chr2_32816815_C_T chr2_32843295_A_T chr2_32843295_A_T rs958243 rs958243 chr2_33144494_C_T rs74899461 rs17396558 rs17396759 rs218177 rs9678317 rs75296571 rs79452419 rs34972759 rs78414971 chr2_33455742_A_G rs78112570 rs57754730 rs80077313 rs57687710 rs56284019 rs72802034 rs72864162 chr2_33655482_C_T chr2_33678924_A_G chr2_33678924_A_G rs13398130 rs2887087 rs2887087 rs11685205 rs17657783 rs4670815 rs10469891 chr2_33960340_A_G rs1543978 rs1718739 rs79846118 rs79846118 rs79846118 rs79846118

genotype difference Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_16_TS Col_34_CB Col_12_CB Col_52_IF Col_12_CB Col_52_TS Col_52_TS Col_52_CB Col_33_IF Col_33_IF Col_08_IF Col_33_IF Col_33_IF Col_16_TS Col_33_CB Col_33_IF Col_12_CB Col_38_TS Col_52_IF Col_38_TS Col_33_IF Col_12_CB Col_33_IF Col_59_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_34_IF Col_08_CB Col_12_IF Col_33_IF Col_08_TS Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_38_TS Col_33_IF Col_16_CB Col_38_CB Col_52_IF Col_12_TS

RI PT


Marker ID

42

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP BOT TOP TOP BOT BOT TOP BOT TOP BOT TOP BOT BOT BOT BOT TOP TOP BOT TOP TOP BOT TOP TOP BOT TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP

[T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [C/G] [A/G] [A/C] [T/G] [A/C] [T/C] [A/C] [A/G] [T/G] [T/G] [A/C] [T/G] [A/G] [T/C] [A/G] [T/G] [T/C] [T/C] [T/C] [A/C] [A/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [T/C] [A/G] [T/G] [A/G]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

34169616 34253584 34378742 34392072 34392072 34460541 34516910 34608896 34688940 34810817 34952517 34968286 34997372 35032088 35089425 35095373 35388124 35404011 35670363 35670651 35688188 35772924 35821710 35831008 35908737 35940628 35944512 35944512 36083564 36083564 36162477 36234235 36457075 36731860 36785169 36785169 36834707 36849220 36920273 36967768 37237450 37260463 37414227 37449102 37471114 37596089 37678032 37678032 37678032 37832330 37902590 37902590 37902590 37908434 38015298 38296012 38296890 38345461 38432325 38483796

SC

M AN U TE D

AC C

EP

rs13427776 rs13033324 chr2_34378742_C_T chr2_34392072_A_G chr2_34392072_A_G rs7574426 rs34554577 rs10495819 chr2_34688940_A_G rs77967686 rs3115238 rs3115263 rs6747984 rs2456800 rs280758 rs280749 rs1371501 rs968059 rs4439937 rs12619050 rs10200472 chr2_35772924_C_T rs4670477 rs2043914 rs13025239 rs12105269 rs10451619 rs10451619 rs2968636 rs2968636 rs2968624 chr2_36234235_A_G rs6740757 rs711249 rs848641 rs848641 rs918067 rs12612163 rs7604443 rs10490661 rs10176270 rs17020147 rs6544062 chr2_37449102_C_T chr2_37471114_A_C rs3770745 chr2_37678032_A_G chr2_37678032_A_G chr2_37678032_A_G rs7605481 rs12615921 rs12615921 rs12615921 chr2_37908434_C_T rs7571582 kgp4128612 rs2855658 rs232545 rs10174646 rs17022391

genotype difference Col_33_IF Col_12_CB Col_33_IF Col_16_TS Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_38_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_12_CB Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_52_IF Col_16_TS Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_59_TS Col_33_IF Col_38_IF Col_52_TS Col_12_CB Col_33_IF Col_38_IF Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_45_IF Col_38_IF Col_33_IF

RI PT


Marker ID

43

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT MINUS MINUS BOT BOT TOP BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP TOP BOT TOP BOT

[A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [G/C] [A/G] [A/G] [A/G] [T/C] [G/C] [T/C] [T/C] [T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [C/G] [G/C] [D/I] [D/I] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/A] [T/A] [A/C] [T/C] [T/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [A/G] [A/G] [A/G] [A/G] [T/G] [T/C] [A/G] [A/G] [T/C] [A/C] [T/C]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

38487153 38819906 39216873 39216873 39294016 39417257 39476682 39499487 39514069 39515500 39519957 39543666 39543666 39583446 39680559 39917963 40250118 40282227 40504788 40509154 40538968 40541355 40547186 40597727 40624522 40628800 40628800 40710953 40736331 40742989 40754202 40764357 40807299 40812497 40812497 40850219 41113427 41137204 41155423 41161464 41327766 41327766 41336618 41342340 41342340 41351491 41391252 41415129 41446609 41487071 41629500 41632775 41802979 41840477 41848835 41872719 42018400 42027041 42087252 42139094

SC

M AN U TE D

AC C

EP

rs12617934 rs12996029 rs963731 rs963731 rs1377862 rs17023405 chr2_39476682_C_T exm188517 exm188541 rs12473473 exm188555 rs3770662 rs3770662 rs7422651 chr2_39680559_C_G corect_rs183974203 rs12468033 rs11892828 rs7571216 rs2192771 chr2_40538968_A_G chr2_40541355_C_T rs2160237 rs6712494 rs12465380 chr2_40628800_G_INDEL chr2_40628800_G_INDEL chr2_40710953_C_T rs10191613 chr2_40742989_A_G rs11675801 chr2_40764357_C_T chr2_40807299_A_G chr2_40812497_A_T chr2_40812497_A_T rs11887013 chr2_41113427_C_T chr2_41137204_G_T rs6725737 rs9309064 rs13411627 rs13411627 rs2374143 rs2059341 rs2059341 rs2194436 rs17027254 rs1899286 rs7567386 rs4140752 rs12619643 chr2_41632775_C_T rs6544449 rs1978635 rs13006557 rs1920509 rs4414724 rs10204821 rs10167265 rs6741942

genotype difference Col_33_IF Col_33_IF Col_16_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_45_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_08_IF Col_12_CB Col_33_IF Col_38_CB Col_38_TS Col_16_TS Col_33_IF Col_08_IF Col_12_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_12_CB Col_34_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_CB Col_08_TS

RI PT


Marker ID

44

IlmnStrand

SNP

Chr

MapInfo

MINUS TOP TOP BOT BOT TOP TOP BOT TOP BOT PLUS BOT BOT TOP BOT BOT BOT TOP TOP TOP PLUS PLUS BOT BOT BOT PLUS BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP BOT BOT TOP TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP

[I/D] [A/G] [A/G] [T/G] [T/C] [A/G] [A/G] [G/C] [A/C] [T/G] [I/D] [T/C] [G/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [I/D] [I/D] [T/A] [T/C] [T/C] [D/I] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/A] [A/G] [T/C] [T/C] [A/G] [A/C] [A/G] [A/C] [T/C] [A/C] [A/G] [T/C] [T/C] [T/G] [A/C] [A/C] [A/G] [T/C] [A/C] [A/G] [A/G] [A/G] [A/C] [A/G]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

42210772 42559288 42895816 43043308 43079925 43086466 43103756 43156729 43186311 43330109 43364920 43455967 43528519 43583156 43637998 43637998 43637998 43647464 43647464 43711925 43732461 43732461 43734300 43744461 43776853 43777105 43781360 43783228 43783228 43783273 43783273 43787576 43793725 43800174 43803428 43829540 43852589 43853181 43854377 43904138 43931168 43946046 44019930 44021980 44027302 44046226 44268800 44322668 44323135 44339612 44482099 44652343 44726639 44813925 44974370 45184927 45343740 45391271 45426205 45452838

SC

M AN U TE D

AC C

EP

chr2_42210773_A_INDEL rs13375 rs10865184 chr2_43043308_G_T rs6720904 rs7558605 chr2_43103756_A_G chr2_43156729_C_G chr2_43186311_A_C rs4567998 chr2_43364920_INDEL_T chr2_43455967_A_G chr2_43528519_C_G chr2_43583156_A_G chr2_43637998_A_G chr2_43637998_A_G chr2_43637998_A_G chr2_43647464_A_G chr2_43647464_A_G chr2_43711925_A_G chr2_43732461_A_INDEL chr2_43732461_A_INDEL chr2_43734300_A_T chr2_43744461_C_T chr2_43776853_C_T chr2_43777105_C_INDEL chr2_43781360_C_T c2_pos43636732 c2_pos43636732 chr2_43783273_A_G chr2_43783273_A_G chr2_43787576_A_G chr2_43793725_A_G rs11898207 chr2_43803428_C_T chr2_43829540_C_T chr2_43852589_A_T chr2_43853181_C_T chr2_43854377_C_T chr2_43904138_A_G exm189906 chr2_43946046_G_T chr2_44019930_C_T chr2_44021980_A_C rs7594731 chr2_44046226_A_C rs4953045 rs13023530 rs921680 rs12622038 rs12712916 rs1067370 rs786412 rs2341461 chr2_44974370_A_C chr2_45184927_C_T rs17033049 rs994293 rs3914636 rs13413031

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_45_IF Col_33_CB Col_08_TS Col_45_IF Col_12_CB Col_38_TS Col_33_CB Col_33_CB Col_12_TS Col_08_IF Col_33_IF Col_34_CB Col_16_TS Col_38_TS Col_33_IF Col_16_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_12_CB Col_34_TS Col_38_CB Col_38_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_12_IF Col_33_IF Col_33_IF Col_08_IF Col_33_IF Col_12_CB Col_33_IF Col_38_TS Col_33_IF Col_59_TS Col_33_IF Col_33_IF

RI PT


Marker ID

45

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP BOT BOT TOP TOP BOT TOP TOP TOP BOT TOP TOP BOT TOP BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT

[A/C] [A/G] [A/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/G] [A/G] [A/G] [A/G] [T/G] [A/G] [A/C] [T/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/G] [T/C] [A/C] [T/C] [A/G] [C/G] [C/G] [C/G] [T/C] [A/G] [A/G] [T/C] [T/G] [T/G] [T/C] [T/C] [T/C] [T/C] [A/C] [T/G] [A/G] [G/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [T/C] [T/G]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

45485957 45536799 45781771 46045959 46140804 46193347 46283677 46418059 46469828 46592006 46601112 46648548 46946370 47067214 47258332 47356049 47510765 47596720 47635667 47672687 47689920 47689920 47698108 47698201 47702409 48060313 48196989 48367696 48445680 48489733 48540649 48540649 48540649 48673328 48725610 48873582 48875108 48906693 48906693 48921375 49140983 49143993 49143993 49186480 49207268 49246729 49275344 49276771 49277823 49727500 49917644 49947538 49989643 49989643 49989643 49989643 49992053 49992135 50031813 50143336

SC

M AN U TE D

AC C

EP

chr2_45485957_G_T chr2_45536799_A_G rs6734588 chr2_46045959_C_T rs13010241 chr2_46193347_C_T chr2_46283677_A_G rs7572993 rs4337520 rs3768729 chr2_46601112_A_G chr2_46648548_C_T chr2_46946370_A_C rs17774013 chr2_47258332_G_T chr2_47356049_A_C chr2_47510765_A_G chr2_47596720_A_G chr2_47635667_A_G chr2_47672687_A_G chr2_47689920_A_G chr2_47689920_A_G chr2_47698108_C_T chr2_47698201_A_G chr2_47702409_A_G chr2_48060313_G_T rs6545008 chr2_48367696_G_T rs4375916 rs17397205 chr2_48540649_C_G chr2_48540649_C_G chr2_48540649_C_G rs4464333 chr2_48725610_C_T rs12988176 chr2_48875108_A_G rs17037507 rs17037507 chr2_48921375_C_T chr2_49140983_A_G chr2_49143993_C_T chr2_49143993_C_T corect_rs116099255 chr2_49207268_A_C chr2_49246729_C_T rs11125197 rs17038169 rs1504175 chr2_49727500_C_T rs1518825 rs17039201 rs7560845 rs7560845 rs7560845 rs7560845 rs7595014 rs13406948 rs7586200 chr2_50143336_G_T

genotype difference Col_33_CB Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_TS Col_33_CB Col_38_TS Col_33_IF Col_33_IF Col_08_TS Col_16_TS Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_16_TS Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_16_CB Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_52_TS Col_16_CB Col_38_CB Col_52_IF Col_12_IF Col_16_IF Col_38_CB Col_33_IF Col_33_IF

RI PT


Marker ID

46

IlmnStrand

SNP

Chr

MapInfo

PLUS BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT TOP BOT BOT PLUS BOT BOT TOP BOT TOP TOP TOP TOP BOT TOP TOP TOP BOT TOP TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP BOT TOP BOT BOT

[I/D] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [T/C] [T/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/C] [A/C] [A/G] [T/C] [T/G] [T/C] [A/C] [A/C] [T/C] [A/G] [T/G] [T/C] [T/C] [A/G] [T/C] [T/C] [D/I] [T/C] [T/C] [A/G] [T/G] [A/C] [A/C] [A/G] [A/G] [T/G] [A/C] [A/C] [A/C] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

50183642 50247620 50281638 50281638 50331458 50398712 50524783 50561823 50600861 50606032 50689260 50692186 50702945 50770218 50770218 50814968 50906725 50925921 50938133 51047313 51078112 51123048 51160560 51272375 51426304 51638488 51911579 52051069 52105849 52227824 52343686 52354990 52507412 52570207 52826401 52886040 52944875 52946337 52947356 52957024 53008618 53236032 53327137 53327137 53479450 53701324 53955850 54039747 54294319 54420617 54420839 54532019 54622582 54622582 54644991 54760038 54817683 54821836 54973807 55081376

SC

M AN U TE D

AC C

EP

chr2_50183643_INDEL_T rs10192012 rs4971644 rs4971644 chr2_50331458_A_G rs1403654 rs1104979 chr2_50561823_C_T rs71411506 chr2_50606032_A_G rs12997031 rs1879319 rs11677389 rs11125317 rs11125317 rs2351767 rs2216789 rs17040953 chr2_50938133_C_T rs11125326 chr2_51078112_A_G rs17571325 rs13028294 rs11889192 chr2_51426304_A_G chr2_51638488_A_C chr2_51911579_C_T rs7590117 chr2_52105849_A_G rs11125398 rs7563687 chr2_52354991_C_INDEL rs17042675 rs1946312 rs17043120 rs13418868 rs11897448 rs2626385 rs1483867 rs7605026 chr2_53008618_G_T chr2_53236032_G_T rs1424969 rs1424969 rs195583 chr2_53701324_C_T rs17521008 rs77197828 chr2_54294319_A_G rs13417493 rs843671 chr2_54532019_A_G rs7601198 rs7601198 rs13393949 rs4671952 rs6545432 chr2_54821836_C_T rs2288683 rs12713280

genotype difference Col_33_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_52_IF Col_16_TS Col_33_IF Col_33_IF Col_12_IF Col_34_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_12_CB Col_52_CB Col_52_IF Col_08_TS Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_TS Col_34_TS Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_CB Col_52_CB Col_16_TS Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

47

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT TOP TOP TOP BOT TOP TOP TOP BOT BOT TOP BOT TOP BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT TOP BOT TOP BOT BOT TOP TOP TOP BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT BOT BOT TOP BOT

[A/G] [A/G] [T/C] [T/C] [T/C] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/C] [T/C] [T/C] [A/G] [A/G] [A/C] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/C] [T/G] [A/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [T/C] [A/G] [T/G] [T/C] [A/C] [A/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/G] [T/C] [A/G] [T/C]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

55117853 55117853 55150611 55271875 55321517 55406602 55571085 55886780 55941440 55973732 56251882 56330812 56331228 56398230 56575020 56581199 56587749 56716008 56720337 56730155 56772337 56924658 56924658 57002106 57153537 57217196 57250415 57394031 57514841 57516048 57739441 57766378 57805439 57826028 57901997 57941185 58135872 58212839 58314209 58392789 58423312 58462731 58463541 58470342 58470342 58475916 58478179 58569066 58629752 58785543 58785922 58785922 58899650 58950863 59065808 59073367 59073367 59082438 59089629 59312140

SC

M AN U TE D

AC C

EP

rs4671988 rs4671988 rs6545459 rs7584354 chr2_55321517_A_G rs11692206 rs2589077 rs7575170 rs11125589 rs2163237 rs74792243 chr2_56330812_C_T rs1432567 rs13024922 rs10200604 rs2193481 rs6747380 chr2_56716008_A_G chr2_56720337_A_C rs17048024 rs10490411 rs2042119 rs2042119 rs10202227 rs7585535 rs1946500 rs996839 rs6760508 rs1916141 rs7603447 rs1881020 rs4671309 rs10196737 rs11125721 rs17049036 chr2_57941185_C_T rs2678905 rs1518397 chr2_58314209_A_C rs848288 rs11903212 rs2110664 rs11889211 chr2_58470342_A_C chr2_58470342_A_C chr2_58475916_C_T rs13411119 rs6734368 rs4444510 rs11125757 rs17049549 rs17049549 rs1990642 rs993532 rs7593324 chr2_59073367_G_T chr2_59073367_G_T rs10198586 rs17049785 rs10490105

genotype difference Col_08_TS Col_16_TS Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_52_CB Col_52_TS Col_16_IF Col_38_CB Col_12_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_CB Col_33_IF Col_16_TS Col_33_IF Col_38_TS Col_33_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_12_IF Col_38_TS Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_38_TS Col_34_CB

RI PT


Marker ID

48

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT TOP BOT BOT TOP BOT TOP TOP BOT BOT BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP TOP BOT TOP PLUS BOT BOT BOT BOT TOP TOP BOT TOP BOT TOP TOP TOP BOT BOT TOP BOT MINUS TOP BOT BOT BOT

[T/C] [A/G] [G/C] [A/G] [T/A] [T/G] [A/G] [T/C] [A/G] [A/C] [T/C] [T/C] [T/C] [T/G] [A/G] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [C/G] [C/G] [T/C] [A/G] [I/D] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [G/C] [A/G] [A/G] [A/C] [T/A] [T/A] [A/G] [G/C] [D/I] [A/G] [T/C] [T/C] [G/C]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

59348944 59403078 59790971 60272898 60346976 60589945 60608930 60624939 60736837 60744872 60764334 61167761 61232705 61235855 61338832 61348804 61500322 61757721 61798829 61985827 62366688 62407717 62453884 62637252 62637252 62723502 62723502 62756049 62794350 62818996 62822608 62825482 62853459 62867413 62869546 62869546 62880765 62891474 62892059 62906616 62906616 62914423 62914423 62927475 62930902 62953166 63024653 63048267 63156898 63169166 63257183 63341711 63341711 63347529 63381506 63392641 63466463 63476126 63478136 63485625

SC

M AN U

TE D

rs17049939 rs12611535 chr2_59790971_C_G chr2_60272898_C_T chr2_60346976_A_T rs243054 rs2540916 rs9309326 rs6724431 rs356991 chr2_60764334_A_G rs1053862 rs9309333 rs1182688 rs1177265 rs1177283 rs7583383 rs10186325 rs2441381 rs1186859 rs733517 rs12998341 chr2_62453884_C_T chr2_62637252_C_T chr2_62637252_C_T chr2_62723502_A_G chr2_62723502_A_G rs6726083 chr2_62794350_A_G kgp8635523 chr2_62822608_C_T chr2_62825482_C_T chr2_62853459_A_G chr2_62867413_C_T chr2_62869546_C_G chr2_62869546_C_G chr2_62880765_A_G chr2_62891474_A_G chr2_62892059_A_INDEL chr2_62906616_A_G chr2_62906616_A_G chr2_62914423_A_G chr2_62914423_A_G chr2_62927475_C_T c2_pos62784406 chr2_62953166_A_G chr2_63024653_A_G chr2_63048267_C_G chr2_63156898_A_G chr2_63169166_C_T chr2_63257183_G_T chr2_63341711_A_T chr2_63341711_A_T chr2_63347529_A_G chr2_63381506_C_G chr2_63392641_AATTTATAG_INDEL chr2_63466463_C_T chr2_63476126_A_G chr2_63478136_C_T chr2_63485625_C_G

genotype difference Col_33_IF Col_33_IF Col_12_CB Col_34_CB Col_33_IF Col_12_CB Col_38_TS Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_38_TS Col_12_TS Col_16_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_12_TS Col_16_IF Col_52_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_38_IF Col_52_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

49

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT BOT MINUS TOP BOT TOP TOP TOP MINUS TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP BOT TOP TOP TOP BOT BOT PLUS BOT TOP BOT BOT TOP TOP BOT BOT BOT TOP TOP BOT TOP BOT TOP TOP MINUS TOP BOT BOT TOP BOT TOP BOT TOP BOT TOP TOP BOT BOT BOT BOT

[T/C] [T/G] [D/I] [A/G] [T/C] [A/G] [A/C] [A/T] [D/I] [A/G] [A/G] [T/G] [A/G] [A/G] [A/G] [A/G] [A/C] [A/C] [A/G] [T/C] [A/G] [T/G] [A/C] [A/G] [A/G] [T/C] [T/C] [I/D] [T/C] [A/C] [T/C] [T/C] [A/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/G] [A/G] [A/G] [D/I] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/C] [T/G] [A/G] [A/G] [T/G] [T/G] [T/C] [T/C]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

63515934 63517133 63518343 63522578 63527859 63548856 63561332 63569494 63593662 63597605 63599530 63602689 63602942 63602942 63605430 63605430 63605540 63631889 63645034 63650582 63693992 63698162 63709708 63719887 63722433 63742810 63754275 63900924 63922369 63948135 64058713 64123006 64124722 64140852 64143474 64143474 64190732 64297550 64397568 64421249 64574188 64715165 64723091 64772146 64844612 64882414 64948378 64961036 65000458 65097201 65159596 65718174 65822917 65938740 65977863 65991365 66209485 66209485 66347442 66359326

SC

M AN U

TE D

chr2_63515934_C_T chr2_63517133_G_T chr2_63518343_C_INDEL chr2_63522578_A_G chr2_63527859_C_T chr2_63548856_C_T chr2_63561332_G_T chr2_63569494_A_T chr2_63593662_INDEL_TATCTATC chr2_63597605_A_G chr2_63599530_C_T chr2_63602689_A_C chr2_63602942_C_T chr2_63602942_C_T chr2_63605430_C_T chr2_63605430_C_T exm197357 chr2_63631889_A_C chr2_63645034_A_G chr2_63650582_C_T chr2_63693992_A_G chr2_63698162_G_T chr2_63709708_G_T chr2_63719887_C_T chr2_63722433_C_T chr2_63742810_A_G rs2421954 chr2_63900925_A_INDEL rs10209140 chr2_63948135_G_T chr2_64058713_C_T chr2_64123006_A_G chr2_64124722_A_C chr2_64140852_C_T chr2_64143474_C_T chr2_64143474_C_T rs12466966 chr2_64297550_A_G chr2_64397568_C_T rs2217968 chr2_64574188_C_T chr2_64715165_G_T rs13397929 rs6546086 chr2_64844612_AGCTG_INDEL chr2_64882414_C_T rs6760401 rs6744311 rs6742565 chr2_65097201_C_T rs1035165 chr2_65718174_C_T corect_rs190709365 rs12713544 rs2009778 rs2193467 rs10180226 rs10180226 chr2_66347442_C_T rs13033204

genotype difference Col_38_IF Col_33_IF Col_52_CB Col_33_CB Col_33_CB Col_59_TS Col_33_CB Col_52_CB Col_38_CB Col_52_IF Col_33_IF Col_38_CB Col_33_IF Col_52_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_34_TS Col_12_CB Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_34_IF Col_38_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_34_CB Col_33_IF Col_33_IF Col_52_CB Col_33_CB Col_33_IF

RI PT


Marker ID

50

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT TOP BOT BOT TOP TOP TOP TOP BOT BOT TOP TOP BOT TOP BOT BOT TOP BOT BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP BOT BOT TOP BOT BOT BOT TOP BOT BOT BOT

[T/C] [T/C] [A/G] [A/T] [A/T] [T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/G] [T/C] [A/C] [T/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

66359326 66528172 66551822 66720444 66720444 66834215 66896718 67429146 67452013 67513152 67554283 67633067 67637196 67724081 67962437 68030319 68192266 68196982 68573099 68717349 68728773 68799454 68799454 68799454 68800927 68911266 69090579 69129148 69334220 69444581 69512185 69515602 69915375 69916099 69987384 70762905 70825480 71068400 71068400 71309586 71431885 71523834 71734274 71988942 72013617 72013617 72273058 72334559 72648432 72650937 72684766 72692872 72745061 72982609 72982609 73641652 73652694 74212957 74345780 74999114

SC

M AN U TE D

AC C

EP

rs13033204 chr2_66528172_A_G rs13420077 chr2_66720444_A_T chr2_66720444_A_T rs12713569 rs9941639 rs11683984 chr2_67452013_A_G rs11900586 rs4671792 rs72835806 rs1569 chr2_67724081_C_T rs17034279 rs11126157 rs12713614 rs10191711 chr2_68573099_A_C chr2_68717349_C_T chr2_68728773_A_G rs6546420 rs6546420 rs6546420 chr2_68800927_A_G rs13423988 chr2_69090579_A_G chr2_69129148_A_G rs11689690 rs11680427 chr2_69512185_A_G chr2_69515602_C_T rs4852918 rs12468494 rs6727897 chr2_70762905_A_G rs2108483 rs1030046 rs1030046 rs1558899 rs12615297 chr2_71523834_A_G rs11686031 chr2_71988942_A_G rs1809265 rs1809265 rs6750558 rs6716351 rs7596126 rs640610 rs674863 chr2_72692872_A_G chr2_72745061_C_T rs13391151 rs13391151 rs7603754 chr2_73652694_C_T chr2_74212957_A_G rs1026150 rs11691168

genotype difference Col_12_CB Col_33_CB Col_52_IF Col_34_TS Col_12_CB Col_52_IF Col_33_IF Col_12_CB Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_IF Col_16_TS Col_34_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_38_TS Col_16_IF Col_33_IF Col_16_TS Col_52_CB Col_33_CB Col_33_IF Col_33_IF Col_16_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_38_TS Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF

RI PT


Marker ID

51

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP BOT TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP BOT TOP BOT TOP BOT BOT BOT TOP TOP TOP BOT TOP TOP BOT TOP BOT BOT BOT TOP BOT BOT TOP BOT BOT TOP BOT TOP BOT TOP BOT

[T/G] [T/C] [A/G] [T/C] [A/G] [T/C] [A/C] [A/C] [A/C] [A/G] [T/C] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/C] [A/G] [A/C] [T/G] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/C] [A/G] [T/C] [A/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [T/G]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

75070263 75087490 75319659 75384549 75577646 75644607 75814908 76001766 76072800 76122173 76153643 76248982 76442464 76490806 76588942 76785084 76826142 76922062 77041264 77049269 77062766 77123866 77141061 77161916 77168087 77188061 77234767 77307360 77330422 77345491 77491121 77524377 77553930 77612121 77857764 77857764 77940273 77989607 77990617 78011859 78067620 78111574 78120305 78249076 78260845 78376833 78381862 78423757 78434830 78480308 78496523 78567169 78590543 78590543 78755686 78937122 78967164 78999216 79116878 79185600

SC

M AN U TE D

AC C

EP

rs3821310 rs634849 rs3771811 rs759588 rs17011222 rs2110937 rs730048 rs17011768 rs10192722 chr2_76122173_C_T rs7558098 chr2_76248982_A_G rs17012308 rs13390508 rs6547078 rs991725 rs10153813 chr2_76922062_A_G rs2102827 rs4852419 chr2_77062766_A_C rs953855 chr2_77141061_G_T rs13417401 chr2_77168087_C_T rs4853285 rs17013592 chr2_77307360_A_G chr2_77330422_C_T rs1176782 chr2_77491121_C_T rs10179549 rs290039 rs427294 rs4485592 rs4485592 rs729756 rs1487036 rs4268948 chr2_78011859_C_T chr2_78067620_C_T rs12713927 rs1897616 corect_rs191042032 chr2_78260845_A_C chr2_78376833_C_T chr2_78381862_C_T rs2164850 rs1595422 chr2_78480308_C_T rs1358138 rs10169908 rs7606174 rs7606174 rs12477341 rs11883911 chr2_78967164_C_T rs6739221 rs13395260 rs17692933

genotype difference Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_52_CB Col_33_IF Col_12_IF Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_16_IF Col_33_IF Col_08_CB Col_52_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_12_CB Col_33_IF Col_33_IF Col_38_TS Col_12_CB Col_33_IF Col_45_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_52_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB

RI PT


Marker ID

52

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP TOP BOT TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP TOP BOT BOT TOP BOT TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT TOP BOT TOP BOT BOT TOP TOP TOP TOP PLUS TOP

[A/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/A] [T/C] [T/C] [A/G] [T/C] [T/C] [T/A] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/G] [A/C] [T/G] [A/C] [T/C] [T/C] [A/G] [T/G] [T/G] [T/G] [T/C] [T/A] [T/C] [T/C] [A/G] [A/G] [T/C] [A/C] [T/C] [T/C] [A/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/C] [A/G] [D/I] [A/G]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

79347745 79371625 79420044 79420044 79489923 79502890 79531826 79569237 79577890 79599199 79801922 79811402 79885978 79901899 79945441 80013650 80019076 80040923 80077611 80126697 80207607 80519814 80604806 80648211 80711325 80812057 80900986 80950629 81059194 81340758 81665310 81731317 81832382 82019665 82028095 82039382 82111514 82111514 82111514 82116344 82116860 82188494 82266773 82292908 82292908 82320474 82427826 82432988 82485620 82508415 82527769 82616474 82639858 82679050 82760396 82859580 82883860 82957817 83125743 83335757

SC

M AN U TE D

AC C

EP

rs283890 rs1589615 rs7592506 rs7592506 rs17705745 rs1434191 rs62156616 rs1368964 rs6734043 chr2_79599199_C_T rs2685151 rs11126737 rs17017430 chr2_79901899_A_T rs13034159 rs75696989 chr2_80019076_A_G rs1001112 rs4852165 rs10865446 rs10197907 rs10170020 chr2_80604806_C_T rs10164980 chr2_80711325_A_G rs11901871 rs6718076 rs6755493 chr2_81059194_A_G rs1379380 rs1347504 rs12474704 chr2_81832382_G_T rs6717916 rs1368041 rs11126830 rs2163633 rs2163633 rs2163633 kgp3642417 chr2_82116860_A_T rs6723804 chr2_82266773_A_G rs2566748 rs2566748 rs1344739 rs6736459 rs4852681 rs72835995 chr2_82508415_G_T rs6734995 chr2_82616474_C_T chr2_82639858_A_G chr2_82679050_A_G rs2862943 rs12104529 rs1393504 rs17022288 chr2_83125743_CTT_INDEL rs10496291

genotype difference Col_33_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_CB Col_33_CB Col_12_CB Col_34_IF Col_16_TS Col_12_CB Col_16_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_12_IF Col_52_IF Col_52_CB Col_33_IF Col_38_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_TS Col_52_CB Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_34_TS Col_52_CB Col_33_IF Col_52_CB Col_52_IF Col_12_CB Col_08_CB Col_52_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_38_TS Col_52_IF Col_33_IF Col_33_CB Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_CB

RI PT


Marker ID

53

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT PLUS TOP BOT BOT MINUS TOP BOT BOT TOP TOP BOT BOT TOP TOP TOP BOT TOP BOT TOP TOP TOP TOP TOP TOP MINUS TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT

[A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [I/D] [A/G] [T/C] [T/C] [D/I] [A/G] [T/C] [T/C] [A/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [D/I] [A/C] [A/C] [A/C] [A/G] [A/G] [T/G] [T/G] [T/G] [A/C] [T/G] [A/C] [A/G] [T/C]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

83335757 83447066 83538976 83572567 83632334 83718206 83864501 83893260 83944713 84385203 84443628 84446193 84446193 84504547 84509017 84759082 84806854 84806854 85096481 85168080 85168080 85414647 85431421 85654299 85689845 85741613 85840829 85874845 85916005 86044275 86187595 86275985 86343316 86354704 86630192 86889476 86902815 87108211 88389761 88615224 88867996 89109747 89109747 95615157 95615157 95778365 96852855 98208253 98208253 98208253 98487414 98700071 98726903 98989700 99900248 99961357 99967779 99973747 100055506 100057489

SC

M AN U TE D

AC C

EP

rs10496291 chr2_83447066_A_G rs6547485 kgp12157028 rs10179347 rs11126917 rs76338043 chr2_83893260_C_T chr2_83944713_A_G rs6737955 rs10178271 chr2_84446193_C_T chr2_84446193_C_T chr2_84504547_A_G rs731331 chr2_84759082_A_G chr2_84806854_A_G chr2_84806854_A_G rs1000919 chr2_85168080_C_T chr2_85168080_C_T rs13432342 chr2_85431421_A_INDEL rs1877954 chr2_85689845_A_G chr2_85741613_A_G chr2_85840829_C_INDEL chr2_85874845_A_G rs4832181 chr2_86044275_A_G rs1866242 chr2_86275985_C_T chr2_86343316_A_G chr2_86354704_C_T rs12617075 rs13010845 rs7425154 rs6709175 rs2919854 rs1258391 rs10167879 chr2_89109747_A_G chr2_89109747_A_G rs1914687 rs1914687 rs10184772 chr2_96852855_AAG_INDEL corect_rs193300791 corect_rs193300791 corect_rs193300791 kgp3870952 corect_rs180928114 rs6733249 rs3769754 rs13033740 chr2_99961357_A_C chr2_99967779_A_C rs75105166 rs3087386 rs1451245

genotype difference Col_52_IF Col_52_CB Col_38_TS Col_52_IF Col_52_IF Col_52_CB Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_34_TS Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_34_IF Col_52_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_34_IF Col_33_IF Col_33_CB Col_33_IF Col_38_TS Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_38_CB

RI PT


Marker ID

54

IlmnStrand

SNP

Chr

MapInfo

BOT MINUS TOP BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT

[T/C] [D/I] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [A/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/C] [A/C] [A/C] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [T/C] [A/G] [A/T] [T/C] [T/C] [T/C] [T/C] [T/G] [T/C] [T/C] [A/G] [A/T] [A/T] [A/G] [A/G] [A/G] [A/G] [T/C]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

100057489 100081561 100227635 100240189 100687778 100687778 100760486 100760486 101050915 101050915 101655021 101761744 102233080 102639209 102776202 102776202 102776202 102980977 103225209 103309233 103487128 103531680 103531680 103531680 103592127 103592127 103592127 103712090 103798217 103881423 103987135 103987135 103994511 103994511 103994511 104057312 104058957 104437649 104458763 104678160 104757743 105019418 105053265 105108409 105202257 105279091 105279091 105318351 105318351 105507589 105690215 105846287 105960333 106540553 106540553 106580259 106610454 106970517 107091864 107135170

SC

M AN U TE D

AC C

EP

rs1451245 rs28369942 chr2_100227635_C_T chr2_100240189_C_T rs1370355 rs1370355 chr2_100760486_A_G chr2_100760486_A_G corect_rs181107919 corect_rs181107919 exm216914 rs6749166 rs78792064 rs2072474 chr2_102776202_C_T chr2_102776202_C_T chr2_102776202_C_T rs11465576 rs6543166 chr2_103309233_A_G chr2_103487128_C_T chr2_103531680_G_T chr2_103531680_G_T chr2_103531680_G_T chr2_103592127_A_G chr2_103592127_A_G chr2_103592127_A_G chr2_103712090_A_G rs1430071 rs12104734 rs1433312 rs1433312 rs6707103 rs6707103 rs6707103 chr2_104057312_C_T chr2_104058957_A_G chr2_104437649_A_G rs2582953 rs11123976 rs4558603 rs7425226 rs11888862 chr2_105108409_A_G corect_rs145095123 chr2_105279091_C_T chr2_105279091_C_T rs77290319 rs77290319 rs6719286 rs12620928 rs13020904 rs2576767 chr2_106540553_A_T chr2_106540553_A_T rs7606899 rs1647646 chr2_106970517_C_T rs12471101 rs7575343

genotype difference Col_52_IF Col_38_CB Col_12_CB Col_33_TS Col_38_TS Col_52_IF Col_33_CB Col_38_TS Col_33_IF Col_52_IF Col_16_IF Col_33_IF Col_33_IF Col_12_IF Col_16_IF Col_33_CB Col_45_IF Col_12_CB Col_12_CB Col_33_IF Col_34_TS Col_16_TS Col_38_TS Col_52_TS Col_34_IF Col_52_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_16_TS Col_38_TS Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_16_IF Col_33_IF Col_16_IF Col_38_TS Col_38_TS Col_45_IF Col_12_CB Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

55

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP TOP BOT TOP TOP TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP

[A/C] [T/G] [T/C] [T/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/C] [T/C] [A/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [G/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/C] [A/G] [C/G] [A/T] [T/C] [T/G] [T/C] [T/C] [A/G] [T/C] [A/G] [A/C] [T/G] [T/G] [T/C] [T/C] [A/T] [A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [T/C] [A/G]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

107330753 107640555 107990409 108019522 108059147 108114085 108206092 108206092 108543102 108543102 108645033 108656351 108925103 109025351 109393703 109942206 109942206 110255567 110937101 111500360 111723392 111728482 111728492 111915068 111915068 111915068 111934909 111934909 112072286 112856755 113041461 113079010 113079010 113079010 113489255 113591655 113805118 113805229 113806334 113891412 114493315 114710034 114710034 114712977 114786011 115406526 115418679 115429810 115501123 115614088 115614088 115736057 115861277 116454257 116499896 116548526 116587138 116716621 116716621 116864243

SC

M AN U TE D

AC C

EP

chr2_107330753_A_C rs4676099 rs2889765 rs972881 rs6753038 rs166464 chr2_108206092_A_G chr2_108206092_A_G rs2052819 rs2052819 rs12712007 rs12617914 kgp24422537 chr2_109025351_A_G chr2_109393703_A_G rs891415 rs891415 rs28410095 rs11898910 chr2_111500360_A_G rs6746739 rs4849303 chr2_111728492_A_G chr2_111915068_C_T chr2_111915068_C_T chr2_111915068_C_T rs74897861 rs74897861 chr2_112072286_C_T chr2_112856755_C_T chr2_113041461_C_T rs76184111 rs76184111 rs76184111 rs12622683 rs1143630 rs10179714 rs34645153 rs34284370 rs9005 rs10199515 corect_rs191491181 corect_rs191491181 rs974057 rs13387565 rs10496470 chr2_115418679_G_T kgp8732854 chr2_115501123_A_C chr2_115614088_C_T chr2_115614088_C_T chr2_115736057_A_T rs11123279 rs10201225 rs1446492 rs6735355 rs1446481 rs13387046 rs13387046 rs7557744

genotype difference Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_38_TS Col_52_IF Col_16_TS Col_38_TS Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_16_TS Col_12_CB Col_33_IF Col_33_CB Col_34_TS Col_33_IF Col_38_CB Col_33_CB Col_38_TS Col_52_TS Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_38_CB Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_CB Col_33_IF Col_08_CB Col_12_CB Col_33_IF Col_38_IF Col_33_IF Col_52_TS Col_12_CB Col_33_IF Col_38_IF Col_52_CB Col_33_IF Col_52_IF Col_33_IF Col_52_CB Col_52_CB Col_45_IF Col_33_CB Col_12_IF Col_33_IF

RI PT


Marker ID

56

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP BOT BOT BOT TOP TOP BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT PLUS BOT TOP TOP TOP TOP PLUS BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT TOP BOT TOP BOT TOP TOP BOT TOP TOP BOT

[T/C] [T/C] [A/C] [T/C] [T/C] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/G] [T/C] [D/I] [T/C] [A/G] [A/G] [A/G] [A/G] [D/I] [T/C] [T/G] [T/G] [A/G] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G] [T/G] [T/C] [A/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/C] [A/G] [T/C]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

117179661 117290472 117449086 117776201 117900052 117912256 118005365 118152675 118177150 118177150 118403937 118466558 118529856 118856914 118934246 119205841 119450163 119511582 119639647 119718028 120696342 120777865 120847642 120847642 121028191 121095920 121217572 121252490 121284463 121296174 121513993 121527169 121840183 121938362 122566566 122992064 123234677 123607246 123647424 123679353 123780262 123797042 123797042 123857742 123857742 123981311 124049457 124088863 124273697 124280718 124331984 124375146 124399518 124508051 124523311 124540542 124621860 124685686 124970109 125108191

SC

M AN U TE D

AC C

EP

rs6744644 chr2_117290472_C_T chr2_117449086_A_C rs1561243 rs10205198 rs10192798 rs333885 chr2_118152675_C_T rs7587292 rs7587292 rs13402352 rs2010944 rs6542393 rs2161829 chr2_118934246_A_G rs10192071 rs512681 rs332683 chr2_119639648_G_INDEL rs4491733 chr2_120696342_A_G chr2_120777865_A_G chr2_120847642_A_G chr2_120847642_A_G rs35100122 rs7589138 rs10168345 chr2_121252490_A_C chr2_121284463_A_G rs55697601 rs11901641 chr2_121527169_A_G rs4076328 chr2_121938362_A_G rs1026224 chr2_122992064_G_T rs753620 chr2_123607246_A_C rs296069 chr2_123679353_C_T rs17009204 rs7574923 rs7574923 rs10183651 rs10183651 rs1850810 rs13002629 rs1356669 corect_rs116701105 rs17195650 rs6708378 chr2_124375146_A_G chr2_124399518_C_T rs10496618 rs1355834 rs782377 chr2_124621860_C_T rs1214132 chr2_124970109_A_G rs796641

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_CB Col_33_IF Col_52_IF Col_12_TS Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_52_TS Col_33_IF Col_38_IF Col_38_TS Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_52_IF Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_33_CB Col_52_TS Col_33_IF Col_33_CB Col_12_CB Col_12_CB Col_52_IF Col_38_TS Col_33_IF Col_33_IF Col_16_TS Col_52_IF Col_38_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_34_TS

RI PT


Marker ID

57

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP BOT TOP PLUS BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT BOT

[T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [A/G] [T/C] [A/C] [A/G] [T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [T/G] [T/G] [T/C] [A/G] [T/G] [A/G] [A/C] [A/G] [T/C] [T/G] [A/G] [A/C] [A/T] [A/G] [A/G] [T/C] [T/C] [A/G] [T/G] [T/G] [T/G] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [I/D] [T/C] [A/G] [A/G] [A/G] [T/G] [T/C] [A/C] [A/C] [A/G] [A/G] [T/C] [T/C]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

125108364 125322835 125331096 125331126 125362837 125415995 125499930 125518567 126013778 126042867 126095439 126159556 126406933 126523177 126539458 126619460 126799433 127008196 127046316 127167247 127174701 127228805 127244028 127351413 127387469 127552872 127868435 127909259 128007686 128057835 128641031 128724477 128796177 129104653 129235584 129872225 130022702 130065486 130167765 130231345 130296464 130418868 130669088 130774930 130982377 131063801 131489113 131662884 132141767 132410986 132712154 133308005 133438939 133468426 133483067 133517783 133746273 133875148 133955999 134014961

SC

M AN U TE D

AC C

EP

rs7582767 rs6541961 rs17011732 rs10445861 rs11123053 rs10202736 rs10194544 chr2_125518567_A_G rs314948 rs11123082 rs314980 rs1836858 rs12373714 rs2421684 chr2_126539458_G_T rs17013094 rs17695598 rs771078 rs10928762 rs12998429 kgp9252223 rs6754762 chr2_127244028_C_T chr2_127351413_A_C rs12692111 rs4075997 rs6743470 rs2118508 rs6430936 chr2_128057835_A_T rs13398811 chr2_128724477_A_G rs4325703 rs17016151 chr2_129235584_A_G rs35164188 chr2_130022702_G_T rs7349444 rs13387772 rs10185238 rs10174711 chr2_130418868_A_G chr2_130669088_A_G rs4663010 rs11695567 rs13022580 rs13400337 chr2_131662885_INDEL_T rs13425822 rs4850224 rs2314793 rs10166090 chr2_133438939_A_C rs2250481 chr2_133483067_A_C rs13006029 rs4954014 rs3795847 rs6719786 rs7600871

genotype difference Col_16_IF Col_33_IF Col_33_IF Col_33_CB Col_38_TS Col_38_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_12_CB Col_52_TS Col_16_TS Col_33_CB Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_52_IF Col_33_CB Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_08_TS Col_33_IF Col_08_TS Col_45_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_52_CB Col_16_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF

RI PT


Marker ID

58

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP MINUS BOT TOP BOT BOT TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP BOT MINUS TOP BOT TOP TOP BOT TOP BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT TOP BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP

[A/G] [A/G] [A/G] [D/I] [T/C] [A/G] [T/C] [T/G] [A/G] [T/C] [A/G] [A/C] [A/C] [T/C] [T/G] [A/G] [A/G] [A/G] [T/C] [D/I] [A/G] [T/C] [A/G] [A/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/C] [A/C] [A/C] [T/C] [A/G] [T/C] [T/C] [C/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/T] [T/C] [A/C] [A/G] [A/T] [T/C] [T/C] [T/C] [T/A] [A/G] [A/C] [A/G] [A/G] [A/G]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

134128159 134128159 134128159 134183962 134196632 134361085 134377167 134512727 134583314 134680503 134731059 134806823 134806823 134817016 134985914 135105867 135114889 135142222 135157953 135216512 135292049 135954797 136158473 136323787 136416533 136707480 137155850 137332558 137592304 137607974 137607974 137626175 137710582 137868740 137868769 137875875 138258714 138430975 138510148 138600801 138624319 138693619 138694162 138703598 138727607 138759649 138793242 138960852 139085690 139130069 139132030 139388182 139427669 139441682 139532162 139631970 139667920 139687946 139687946 139703024

SC

M AN U TE D

AC C

EP

rs2289076 rs2289076 rs2289076 chr2_134183962_C_INDEL rs13422893 chr2_134361085_C_T rs1622528 rs7559696 rs6430460 chr2_134680503_A_G rs12477481 rs4953899 rs4953899 rs1715008 rs1257210 chr2_135105867_A_G rs2290049 rs6714520 rs999925 chr2_135216512_G_INDEL rs12623888 chr2_135954797_C_T rs7578657 rs16831827 rs1900306 rs6750549 rs2048756 rs13412518 rs778189 rs778211 rs778211 rs778178 chr2_137710582_C_T chr2_137868740_A_G rs1368061 rs1469622 chr2_138258714_C_G chr2_138430975_A_G corect_rs187940354 rs6730857 rs1456005 rs72860345 corect_rs115753946 rs16839937 rs3100702 kgp8241224 chr2_138793242_A_T chr2_138960852_A_G rs11900575 chr2_139130069_C_T rs4516493 chr2_139388182_A_G rs10496799 chr2_139441682_C_T chr2_139532162_A_T chr2_139631970_C_T rs1948019 rs1485053 rs1485053 rs1485091

genotype difference Col_08_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_12_CB Col_38_TS Col_33_IF Col_52_TS Col_59_CB Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_38_CB Col_52_IF Col_38_CB Col_52_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_45_IF Col_33_IF Col_08_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_16_TS Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_08_CB Col_33_CB Col_33_IF

RI PT


Marker ID

59

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT TOP BOT TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT TOP BOT TOP BOT TOP TOP BOT BOT BOT BOT BOT BOT MINUS BOT BOT BOT

[T/C] [A/G] [T/C] [T/C] [T/G] [A/C] [A/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/C] [T/C] [C/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/G] [A/G] [A/G] [T/C] [T/C] [A/C] [T/G] [T/A] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [T/C] [A/G] [T/C] [T/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/C] [T/G] [T/G] [T/A] [T/A] [T/A] [T/G] [I/D] [T/C] [T/C] [T/C]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

139803091 139810224 139821717 139823059 139914782 139947776 139947776 140032275 140071800 140095800 140200435 140565694 140666027 140683305 140698631 140723694 140900604 140900604 140900604 141024545 141130097 141190436 141192924 141251001 141269323 141274576 141274576 141348478 141348478 141354396 141391918 141410860 141423316 141541296 141796256 141872505 141872505 141955000 141997870 142179191 142231898 142238800 142245947 142403763 142430592 142501896 142509570 142610307 142630661 142735212 142743140 142743140 142763745 142763745 142763745 142856523 142926972 142928238 142928238 142935055

SC

M AN U TE D

AC C

EP

chr2_139803091_A_G rs13395791 rs4954738 rs16841575 rs13029794 chr2_139947776_G_T chr2_139947776_G_T chr2_140032275_A_G rs1371112 rs344868 rs11688725 rs1401935 rs7606774 rs7568693 corect_rs113172739 rs3856354 rs2966395 rs2966395 rs2966395 rs16843732 rs2931465 rs11897270 chr2_141192924_C_T corect_rs187998926 rs6430904 rs4954672 rs4954672 rs6752743 rs6752743 rs1372256 rs506281 rs4954848 rs1441470 rs13429001 rs10202342 rs1922697 rs1922697 rs17592904 rs1401308 rs12468848 rs13030335 rs10173806 rs10496882 rs7560183 rs355546 chr2_142501896_C_T rs1437347 chr2_142610307_A_G chr2_142630661_A_G chr2_142735212_G_T chr2_142743140_G_T chr2_142743140_G_T rs76601560 rs76601560 rs76601560 rs11680286 chr2_142926973_A_INDEL rs4662239 rs4662239 chr2_142935055_A_G

genotype difference Col_33_IF Col_52_IF Col_33_CB Col_33_IF Col_12_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_16_IF Col_38_IF Col_59_TS Col_38_TS Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_16_CB Col_52_TS Col_33_IF Col_34_TS Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_16_TS Col_45_IF Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_34_TS Col_38_IF Col_52_IF Col_59_TS Col_16_TS Col_16_TS Col_16_IF Col_38_CB Col_16_TS

RI PT


Marker ID

60

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT TOP TOP BOT TOP TOP BOT BOT TOP BOT BOT TOP BOT MINUS TOP TOP TOP BOT TOP BOT TOP BOT TOP BOT BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT TOP TOP BOT TOP TOP TOP BOT BOT BOT TOP BOT TOP BOT TOP TOP BOT BOT BOT BOT TOP BOT BOT

[A/G] [A/C] [T/C] [T/C] [T/C] [A/G] [A/T] [T/G] [A/G] [A/G] [T/G] [T/G] [A/G] [T/C] [T/C] [A/G] [T/C] [I/D] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/T] [T/C] [A/G] [T/C] [T/C] [A/G] [A/C] [A/G] [A/G] [A/G] [T/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/C] [T/C] [A/G] [A/G] [T/C] [T/A] [T/A] [T/C] [A/G] [T/G] [T/G]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

143165531 143269355 143407798 143407798 143558760 143560569 143773450 143781731 143920385 143951325 144070983 144114419 144126903 144194565 144238800 144517069 144662334 144716895 145027454 145041374 145041374 145426180 145837285 145874327 145910162 146006855 146015334 146035401 146055813 146154475 146157046 146255994 146255994 146344233 146450099 146490561 146548018 146691431 146736345 146736345 146835932 146889404 146896906 147137675 147406770 147539571 147558579 147612734 148148960 148153368 148327589 148515565 148561676 148588526 148628982 148628982 148716428 148725160 148767821 148767821

SC

M AN U TE D

AC C

EP

rs4273167 rs16857354 chr2_143407798_A_G chr2_143407798_A_G rs4662299 rs13402740 rs77582721 rs13008636 rs13406460 rs7595079 rs6430022 rs62170428 rs78637349 chr2_144194565_C_T rs34228014 rs1517915 rs13402786 chr2_144716896_A_INDEL rs7589628 chr2_145041374_C_T chr2_145041374_C_T chr2_145426180_A_G chr2_145837285_C_T rs1858152 chr2_145910162_A_T rs17409360 rs6756883 rs4662238 chr2_146055813_A_G rs10204857 chr2_146157046_A_C rs78165666 rs78165666 rs10186882 rs2381762 rs2246147 rs10427396 rs10200377 rs10173102 rs10173102 rs10496995 rs11680349 rs10202961 rs4488597 rs13421774 rs6430137 rs9287403 rs4128364 rs16827299 rs1439678 rs12327971 rs4662293 chr2_148561676_A_G rs1364659 chr2_148628982_A_T chr2_148628982_A_T rs2307394 chr2_148725160_A_G kgp10838230 kgp10838230

genotype difference Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_52_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_16_IF Col_16_TS Col_52_IF Col_33_CB Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_33_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_52_CB

RI PT


Marker ID

61

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP

[T/A] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [G/C] [A/G] [T/C] [T/C] [A/C] [A/C] [T/C] [A/G] [T/C] [T/G] [T/G] [T/C] [T/C] [A/G] [A/C] [T/C] [G/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/G] [A/C] [A/G] [A/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/C] [A/C] [T/C] [T/C] [A/C] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

148793465 148820503 148820503 148970147 149136161 149233056 149233056 149531363 149531363 149915112 149947362 150212010 150212010 150397218 150417007 150425917 150450828 150492237 150508359 150508359 150553984 150828833 151034931 151121028 151170534 151189838 151279440 151296205 151311055 151311055 151311055 151324688 151341888 151753135 151932232 152224339 152340685 152392977 152392977 152644148 152788303 152902751 152998467 152998596 153115431 153286715 153493435 153535987 153545442 153691033 153887190 153887190 153929960 153982792 153997058 154131206 154131206 154131374 154171024 154178949

SC

M AN U TE D

AC C

EP

rs1234416 chr2_148820503_C_T chr2_148820503_C_T rs11694397 chr2_149136161_C_T chr2_149233056_A_G chr2_149233056_A_G chr2_149531363_A_G chr2_149531363_A_G chr2_149915112_C_G chr2_149947362_A_G chr2_150212010_A_G chr2_150212010_A_G rs7578361 chr2_150417007_A_C rs10173317 rs4667337 rs10211034 rs1526284 rs1526284 rs6727151 rs1020088 rs12618949 chr2_151121028_G_T chr2_151170534_C_T chr2_151189838_C_G chr2_151279440_A_G chr2_151296205_A_G chr2_151311055_A_G chr2_151311055_A_G chr2_151311055_A_G rs1372438 chr2_151341888_G_T chr2_151753135_A_G rs7585884 rs3771895 rs11680579 corect_rs114549990 corect_rs114549990 chr2_152644148_A_G rs11895837 chr2_152902751_A_G rs16830744 rs10166701 rs6722815 rs13388095 rs11883762 chr2_153535987_A_C chr2_153545442_A_G rs1427390 rs12618194 rs12618194 rs7572009 rs10931475 chr2_153997058_C_T rs17230094 rs17230094 rs1439630 rs6757880 rs6434548

genotype difference Col_38_IF Col_33_IF Col_52_CB Col_33_CB Col_52_IF Col_33_IF Col_52_TS Col_33_CB Col_12_CB Col_16_TS Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_52_IF Col_12_TS Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_52_IF Col_33_IF Col_52_IF Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_33_CB Col_38_CB Col_33_IF Col_16_TS Col_52_IF Col_12_CB Col_33_CB Col_33_IF

RI PT


Marker ID

62

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT TOP BOT BOT BOT TOP BOT TOP BOT TOP TOP TOP BOT TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT TOP TOP BOT TOP TOP BOT BOT TOP BOT BOT TOP TOP BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP BOT TOP BOT BOT TOP TOP BOT

[A/C] [A/G] [T/A] [T/C] [A/G] [T/C] [T/C] [T/G] [C/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/G] [T/C] [A/C] [A/C] [A/C] [T/C] [T/C] [T/G] [A/G] [A/C] [T/G] [A/C] [A/C] [T/C] [T/G] [A/T] [T/C] [T/C] [A/G] [A/C] [T/G] [T/C] [A/C] [A/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/G] [A/G] [A/G] [A/G] [T/C] [A/C] [T/G] [T/C] [A/C] [A/G] [T/G]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

154185954 154417270 154460586 154479909 154515483 154574231 154664805 154886245 155064676 155094145 155226644 155307617 155399735 155489236 155494606 155607966 155629561 156010473 156023165 156277532 156286670 156338251 156338251 156358938 156358938 156467786 156562591 156571307 156580482 156785684 156785684 156869592 156950640 156975522 156984088 157030835 157034020 157534037 157617340 157758173 157774494 157774494 158105322 158333323 158333323 158432280 158460413 158508271 158765030 158874478 158994990 159114394 159114394 159202999 159213880 159289746 159329196 159391780 159433065 159559774

SC

M AN U TE D

AC C

EP

rs7579834 rs7564934 chr2_154460586_A_T chr2_154479909_C_T rs4664695 rs12479422 rs10187119 rs13427314 chr2_155064676_C_G chr2_155094145_A_G rs707039 rs707081 rs774503 chr2_155489236_A_G rs1429254 rs2591163 rs985092 chr2_156010473_A_G rs1994247 rs11691512 chr2_156286670_A_C rs1876110 rs1876110 rs35430310 rs35430310 rs843212 corect_rs145591386 rs4664773 rs13405540 rs10200202 rs10200202 rs1405869 rs11692441 rs11900795 rs13011491 rs2049582 rs10932909 rs17268385 rs6716024 rs10204885 rs13394736 rs13394736 rs11891616 chr2_158333323_C_T chr2_158333323_C_T rs3934681 rs2603276 chr2_158508271_C_T rs12472133 rs4664919 rs16842635 rs10497198 rs10497198 rs4602177 rs13399899 rs11675870 rs17492981 rs6728605 rs1990155 rs11685862

genotype difference Col_38_CB Col_34_IF Col_33_CB Col_33_CB Col_12_CB Col_16_IF Col_33_IF Col_52_IF Col_12_CB Col_52_IF Col_33_IF Col_33_CB Col_33_IF Col_52_TS Col_12_IF Col_34_CB Col_33_IF Col_08_CB Col_33_IF Col_16_IF Col_33_IF Col_16_TS Col_12_IF Col_33_TS Col_38_CB Col_52_IF Col_33_IF Col_16_IF Col_12_TS Col_33_IF Col_12_CB Col_34_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_12_IF Col_33_IF Col_52_IF Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_CB Col_16_IF Col_12_IF Col_33_IF Col_08_CB Col_38_TS Col_45_IF Col_33_IF Col_33_IF Col_12_CB

RI PT


Marker ID

63

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP BOT TOP BOT BOT BOT TOP BOT TOP BOT BOT BOT TOP BOT TOP TOP MINUS TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT TOP BOT

[A/C] [T/C] [A/G] [T/C] [A/G] [A/G] [G/C] [G/C] [G/C] [G/C] [G/C] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/G] [A/G] [T/G] [T/G] [T/C] [A/C] [T/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [I/D] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [A/C] [T/C] [G/C] [G/C] [A/G] [T/C]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

159638666 159643758 159651734 159683357 159913942 159928138 160103589 160103589 160103589 160103589 160103589 160247075 160259258 160386903 160515651 160542967 160584761 160604768 160688557 160825953 160870601 160893260 160893260 160935582 160968628 161477970 161631419 161739776 162018643 162021715 162064364 162064364 162092640 162263475 162737714 162750449 162751233 162798423 162866255 163005158 163063913 163321014 163416245 163435583 163519902 163577551 163627077 163680253 163965160 164279151 164432175 164499515 164699481 164787621 164787621 164900843 165089889 165089889 165130868 165419009

SC

M AN U TE D

AC C

EP

chr2_159638666_A_C chr2_159643758_A_G rs925781 rs11685379 chr2_159913942_A_G chr2_159928138_C_T chr2_160103589_C_G chr2_160103589_C_G chr2_160103589_C_G chr2_160103589_C_G chr2_160103589_C_G rs7560385 rs13028985 chr2_160386903_C_T rs13397722 chr2_160542967_A_G rs7607143 chr2_160604768_A_G rs16844380 rs2175414 rs1039931 rs6722275 rs6722275 rs7598162 rs16844790 rs4268941 rs7574698 rs6730050 rs1267059 chr2_162021715_C_T rs10186736 rs10186736 rs7309 chr2_162263475_G_T rs6707956 chr2_162750449_C_T newrs61748241 chr2_162798423_A_G rs2909448 rs5647 rs7601089 chr2_163321014_C_T chr2_163416245_A_G chr2_163435592_INDEL_T rs13022851 rs13390307 rs1434999 chr2_163680253_A_G rs10167931 rs13413641 rs10199735 rs1561609 rs1816644 rs7574118 rs7574118 corect_rs183021647 chr2_165089889_C_G chr2_165089889_C_G rs16849404 chr2_165419009_C_T

genotype difference Col_12_CB Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_33_IF Col_34_TS Col_38_IF Col_52_CB Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_33_CB Col_38_IF Col_52_CB Col_33_CB Col_12_CB Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_34_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_16_CB Col_33_IF Col_12_CB Col_38_IF Col_52_IF Col_33_IF Col_33_IF

RI PT


Marker ID

64

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT TOP TOP BOT TOP TOP TOP PLUS PLUS PLUS TOP BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP BOT TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT TOP PLUS BOT BOT MINUS BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT TOP

[A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [D/I] [D/I] [D/I] [A/C] [T/G] [T/C] [A/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [A/C] [A/C] [T/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [I/D] [T/C] [T/G] [D/I] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/G] [T/C] [A/G]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

165548415 165631433 165649177 165737931 165737931 165776177 165808057 165830388 165864012 165984635 165984635 165984635 166030257 166076177 166101193 166109634 166266891 166281132 166318788 166326888 166368762 166437284 166598478 166788336 166845794 166963467 167007743 167016281 167028525 167144748 167266312 167423347 167425526 167463166 167463166 167568220 167629579 167747964 167772293 167772293 167813566 167813566 167856987 168119209 168127837 168136191 168338520 168392764 168489824 168544279 168659362 169214903 169252417 169583149 169783728 169801905 169867192 169870295 169893949 169927200

SC

M AN U TE D

AC C

EP

rs17244444 rs355870 rs10490693 rs1509097 rs1509097 rs10202959 rs4667775 rs10930143 rs11895069 chr2_165984635_C_INDEL chr2_165984635_C_INDEL chr2_165984635_C_INDEL chr2_166030257_G_T rs7561455 chr2_166101193_A_G rs10182570 rs16850602 rs6706169 rs4667825 rs10497261 rs17249048 corect_rs144576008 rs1974924 exm238222 rs7577411 chr2_166963467_C_T chr2_167007743_C_T chr2_167016281_A_G rs10210369 rs7596100 exm238741 corect_rs114497198 corect_rs186449250 rs6745751 rs6745751 chr2_167568220_G_T rs2664016 chr2_167747964_A_G rs1567534 rs1567534 chr2_167813566_A_G chr2_167813566_A_G chr2_167856987_A_G chr2_168119209_A_G rs7578175 chr2_168136192_INDEL_T rs7567362 chr2_168392764_G_T chr2_168489824_CC_INDEL rs2029079 rs4667977 rs7561814 rs6433058 rs6754773 rs1521808 rs853788 rs6751546 rs2241339 chr2_169893949_C_T kgp10951475

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_45_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_12_IF Col_33_IF Col_33_IF Col_08_IF Col_33_IF Col_12_CB Col_38_TS Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_CB Col_16_IF Col_38_CB Col_12_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_38_TS Col_33_IF Col_52_IF Col_33_IF Col_52_IF Col_33_IF Col_38_TS Col_38_CB Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

65

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT BOT TOP TOP BOT TOP BOT TOP MINUS BOT BOT MINUS TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT PLUS TOP BOT PLUS PLUS BOT

[T/C] [T/C] [T/C] [T/C] [A/C] [T/C] [T/A] [T/A] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [A/C] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [C/G] [C/G] [T/C] [A/G] [T/C] [A/C] [D/I] [T/C] [T/C] [I/D] [A/G] [T/C] [T/C] [A/G] [A/G] [A/T] [T/G] [T/C] [G/C] [T/G] [T/G] [D/I] [A/G] [T/C] [I/D] [D/I] [T/C]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

169938077 169938208 169974671 169974671 170037401 170103336 170200452 170200452 170249802 170463551 170469839 170672843 170771022 170798103 170964822 171022073 171026184 171026184 171223111 171223111 171262499 171392992 171511791 171539261 171702480 171702960 171868342 171946572 171949154 171958363 171981227 172018218 172034292 172158381 172158381 172239759 172326068 172520642 172528095 172582345 172582619 172582619 172704421 172772533 172820250 172841213 172912052 172932333 172963359 173015044 173042216 173106931 173107486 173195634 173237268 173288817 173325489 173370689 173371621 173406270

SC

M AN U TE D

AC C

EP

kgp14957850 kgp3443283 rs6433105 rs6433105 chr2_170037401_G_T rs831043 rs16856823 rs16856823 rs12619539 rs2592813 rs16857073 rs10190853 rs1031773 chr2_170798103_C_T rs13384346 rs13007861 rs10930407 rs10930407 rs6761096 rs6761096 rs10497368 chr2_171392992_C_T rs7569594 rs1035150 rs701492 rs16858988 chr2_171868342_G_T chr2_171946572_C_T rs3755123 chr2_171958363_A_G chr2_171981227_C_T rs79700496 rs1989613 chr2_172158381_C_G chr2_172158381_C_G rs17285688 chr2_172326068_A_G rs1399957 rs979956 chr2_172582345_AC_INDEL rs62184167 rs62184167 rs71013079 rs11695887 rs10177679 exm242062 chr2_172912052_A_G rs62183853 rs4519482 rs4972639 rs10183347 chr2_173106931_C_G rs11688652 rs6755520 rs67357572 rs2178476 rs71415299 chr2_173370690_A_INDEL rs10576240 rs72894386

genotype difference Col_33_IF Col_33_CB Col_34_TS Col_12_IF Col_12_IF Col_33_CB Col_16_TS Col_52_CB Col_12_CB Col_08_CB Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_38_TS Col_33_IF Col_52_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_TS Col_38_TS Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB

RI PT


Marker ID

66

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT BOT BOT BOT BOT BOT PLUS BOT MINUS MINUS BOT TOP TOP TOP BOT MINUS MINUS TOP MINUS TOP TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT MINUS BOT BOT TOP BOT BOT TOP TOP BOT BOT PLUS TOP TOP TOP BOT TOP BOT TOP BOT TOP TOP TOP BOT BOT TOP BOT

[A/T] [T/C] [T/C] [T/C] [T/C] [T/A] [T/A] [T/C] [T/G] [I/D] [T/C] [I/D] [I/D] [T/G] [A/G] [A/G] [A/G] [T/A] [I/D] [I/D] [A/G] [I/D] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [I/D] [T/C] [T/C] [A/G] [T/C] [T/C] [A/C] [A/G] [T/C] [T/C] [I/D] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/G] [T/C] [A/C] [T/C]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

173429033 173435757 173589848 173703573 173713635 173713951 173772983 173780607 173784900 173793097 173836201 173867058 173867058 173871359 173909659 173909659 173918638 173993455 174014165 174014165 174038633 174064424 174085747 174085747 174086672 174088266 174111056 174141670 174143627 174182985 174211856 174211856 174228418 174229178 174229328 174230698 174244037 174257310 174258214 174279714 174292922 174293195 174332958 174378899 174471410 174472960 174477276 174507880 174541694 174550506 174613828 174616587 174627054 174629287 174629287 174629287 174745793 174826366 175003613 175454894

SC

M AN U TE D

AC C

EP

chr2_173429033_A_T rs13394924 rs62168079 rs7581330 rs72906192 rs3769298 rs62174625 rs75058657 rs67492029 rs3835838 rs3769245 rs76758923 rs76758923 rs12473597 rs2012213 rs2012213 rs17760587 rs16861279 rs61120804 rs61120804 rs3769176 chr2_174064424_INDEL_T rs1371573 rs1371573 rs11249 rs10497402 rs16861422 rs1442973 rs72895294 rs6714014 rs57537703 rs57537703 rs4972555 rs15618 rs34997141 rs6743216 rs11899634 chr2_174257310_A_G rs72625244 chr2_174279714_A_G rs16861655 rs78863805 rs4972574 rs1561045 rs72444075 rs72906769 rs6735947 rs12999413 rs10930613 rs10170039 chr2_174613828_C_T rs35604184 rs73034530 rs6433436 rs6433436 rs6433436 rs10177396 chr2_174826366_C_T chr2_175003613_A_C chr2_175454894_C_T

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_12_TS Col_52_IF Col_34_CB Col_33_IF Col_52_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_52_IF Col_33_IF Col_59_TS Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_08_TS Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_16_IF Col_38_CB Col_59_TS Col_33_CB Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

67

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP BOT TOP BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP BOT TOP TOP BOT TOP BOT BOT TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT

[A/G] [T/C] [T/C] [A/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/C] [T/C] [A/G] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [A/G] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/G] [A/G] [A/G] [T/G] [A/G] [T/A] [T/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [T/G] [T/G] [A/G] [A/G] [G/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

175487706 175641575 175691945 175722369 175780603 175829844 175903954 176042819 176089888 176107396 176317989 176526784 176590041 176699698 176705420 176719631 176844577 176857110 176877813 176877813 176922517 176942464 177007664 177008921 177033779 177043226 177105429 177105429 177127695 177152343 177326682 177334816 177370519 177389173 177432974 177494043 177530805 177599824 177625373 178014315 178090070 178095045 178095045 178301404 178301404 178302791 178479661 178513706 178513706 178513706 178513894 178518154 178684720 178881926 178957158 178957158 179166242 179166242 179166242 179166242

SC

M AN U TE D

AC C

EP

chr2_175487706_C_T rs2244340 rs2646167 rs17270470 rs4324297 chr2_175829844_C_T chr2_175903954_A_G rs2288960 rs7580618 corect_rs187956526 rs2437890 rs1446806 rs10209318 chr2_176699698_A_G chr2_176705420_G_T c2_pos176427877 exm243506 chr2_176857110_G_T c2_pos176586059 c2_pos176586059 c2_pos176630763 c2_pos176650710 rs10188827 chr2_177008921_G_T chr2_177033779_C_T chr2_177043226_G_T c2_pos176813675 c2_pos176813675 c2_pos176835941 chr2_177152343_A_G chr2_177326682_A_G chr2_177334816_A_G chr2_177370519_A_C rs1375175 chr2_177432974_C_T chr2_177494043_A_C rs16864176 chr2_177599824_A_T chr2_177625373_A_C chr2_178014315_C_T chr2_178090070_A_G kgp24403068 kgp24403068 chr2_178301404_A_G chr2_178301404_A_G chr2_178302791_C_T rs3731806 chr2_178513706_G_T chr2_178513706_G_T chr2_178513706_G_T rs1527402 rs6746845 chr2_178684720_C_G rs6758442 rs6433712 rs6433712 rs334613 rs334613 rs334613 rs334613

genotype difference Col_12_TS Col_33_CB Col_52_CB Col_52_IF Col_33_IF Col_16_IF Col_16_TS Col_16_IF Col_12_IF Col_12_CB Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_52_TS Col_52_CB Col_52_CB Col_33_IF Col_16_TS Col_38_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_52_IF Col_08_IF Col_52_CB Col_52_IF Col_33_IF Col_12_CB Col_38_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_08_CB Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_33_CB Col_34_IF Col_38_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_34_CB Col_16_IF Col_33_IF Col_45_IF Col_12_IF

RI PT


Marker ID

68

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP BOT TOP BOT BOT TOP BOT BOT TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT

[T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/G] [A/G] [A/C] [A/G] [A/C] [A/G] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [T/G] [A/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/A] [T/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/T] [A/G] [T/C] [T/C] [T/C] [T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [T/C]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

179401293 179464527 179554305 179611934 179615887 179655195 179655195 179721046 179900720 179923269 180311207 180370497 180374598 180492282 180593759 180631925 180773096 180773096 180773096 180826451 180826451 180976481 181043495 181055597 181257458 181415464 181423661 181468010 181522907 181522907 181609561 181640043 181686400 181745504 181747707 181772262 181807231 182062879 182214697 182292903 182292903 182346528 182350087 182364245 182382316 182382316 182382316 182419986 182460714 182486386 182504283 182655006 182655006 182659893 182781419 182852282 182919993 182919993 183013947 183023484

SC

M AN U TE D

AC C

EP

chr2_179401293_C_T rs1001238 chr2_179554305_C_T exm248848 rs922984 rs16866535 rs16866535 rs17362588 rs7581299 chr2_179923269_A_C rs2271760 rs7604698 rs1400820 rs3112960 rs17772551 rs1486239 rs9288043 rs9288043 rs9288043 rs16867120 rs16867120 rs16867190 chr2_181043495_C_T rs1529121 chr2_181257458_G_T rs6760894 chr2_181423661_C_T rs991055 rs6712389 rs6712389 rs4402718 rs76598400 rs35436959 rs4132910 rs12619437 rs3922472 rs10173769 rs12616042 rs16867414 chr2_182292903_A_G chr2_182292903_A_G chr2_182346528_A_G chr2_182350087_A_T chr2_182364245_C_T rs3770111 rs3770111 rs3770111 rs10490689 rs10445770 rs2053471 rs13398869 rs9807949 rs9807949 rs11902326 chr2_182781419_C_T rs1196291 chr2_182919993_C_T chr2_182919993_C_T chr2_183013947_G_T rs1432523

genotype difference Col_16_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_CB Col_34_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_45_IF Col_33_IF Col_52_CB Col_33_CB Col_33_IF Col_16_IF Col_45_TS Col_52_IF Col_33_IF Col_12_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_12_CB Col_33_CB Col_33_IF Col_52_CB Col_33_IF Col_34_TS Col_38_CB Col_33_IF Col_12_CB Col_52_IF Col_16_TS Col_33_IF Col_12_IF Col_38_CB Col_52_TS Col_38_IF Col_33_IF Col_33_IF Col_33_CB Col_38_TS Col_12_IF Col_33_CB Col_59_TS Col_52_CB Col_33_IF Col_16_TS Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_52_CB Col_52_IF Col_33_IF

RI PT


Marker ID

69

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP BOT BOT TOP BOT TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT TOP TOP BOT BOT BOT

[T/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [A/G] [T/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

183092726 183217916 183322664 183341932 183354887 183806430 183952469 183998817 184009676 184014595 184024702 184142975 184495927 184565940 184575438 184601289 184601289 184629427 184629427 184799555 184820021 184833189 184849109 184849109 185021912 185099836 185131675 185133082 185157366 185157366 185205871 185229307 185344637 185344637 185404338 185448865 185448865 185476050 185556142 185570211 185570211 185570211 185627519 185671187 185671187 185756082 185756082 185829672 185921692 186208756 186217312 186240504 186341741 186341741 186516552 186534954 186536171 186857379 186857379 186857379

SC

M AN U TE D

AC C

EP

rs1432520 rs1564542 chr2_183322664_C_T rs11900878 rs4666587 chr2_183806430_A_G rs12463411 rs9917390 rs2705762 chr2_184014595_C_T rs6434006 chr2_184142975_A_G rs10497630 chr2_184565940_A_G rs7576486 chr2_184601289_C_T chr2_184601289_C_T chr2_184629427_A_G chr2_184629427_A_G chr2_184799555_A_G rs11883645 chr2_184833189_C_T rs4638756 rs4638756 rs1526208 rs12621296 rs17500954 chr2_185133082_A_G chr2_185157366_C_T chr2_185157366_C_T chr2_185205871_A_G rs4666976 chr2_185344637_C_T chr2_185344637_C_T rs75254889 chr2_185448865_C_T chr2_185448865_C_T rs722385 chr2_185556142_A_C chr2_185570211_C_T chr2_185570211_C_T chr2_185570211_C_T rs11903945 chr2_185671187_A_G chr2_185671187_A_G rs16826274 rs16826274 rs6709418 rs263771 rs1159985 rs78192681 rs9288114 chr2_186341741_A_G chr2_186341741_A_G chr2_186516552_A_G chr2_186534954_C_T chr2_186536171_A_G rs16827374 rs16827374 rs16827374

genotype difference Col_52_TS Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_CB Col_34_CB Col_38_CB Col_33_IF Col_12_CB Col_16_TS Col_33_IF Col_33_CB Col_33_IF Col_34_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_IF Col_38_CB Col_52_IF Col_33_CB Col_16_IF Col_33_IF Col_38_IF Col_52_TS Col_33_IF Col_16_IF Col_34_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_38_CB Col_59_TS Col_33_IF Col_08_IF Col_33_IF Col_08_TS Col_16_IF Col_52_IF

RI PT


Marker ID

70

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT TOP BOT TOP TOP BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT TOP BOT BOT BOT TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP MINUS BOT TOP TOP TOP TOP TOP TOP

[A/G] [T/G] [T/C] [T/C] [T/G] [A/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/G] [T/C] [C/G] [T/C] [T/C] [A/G] [G/C] [G/C] [G/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/G] [T/C] [T/C] [A/G] [A/G] [G/C] [T/C] [T/C] [A/T] [G/C] [T/C] [T/C] [T/C] [A/G] [D/I] [T/C] [A/G] [A/G] [A/C] [A/G] [A/G] [A/C]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

186861063 186862693 186863347 186915437 187041149 187103445 187208651 187393729 187447140 187481835 187493841 187508198 187518260 187692794 187705633 187709483 187752291 187882931 187944900 188115398 188324986 188419590 188604168 188744807 188789727 188855719 188871008 188871008 188871008 188923773 189001642 189091513 189195208 189308284 189377509 189460553 189602559 189682074 189784822 189878267 189878267 189879843 190088475 190194419 190305297 190317931 190334119 190362758 190635143 190717335 190717470 190719584 190719740 190921491 190934349 191189633 191366579 191410909 191410909 191757059

SC

M AN U TE D

AC C

EP

rs12618471 chr2_186862693_A_C chr2_186863347_A_G rs6434159 rs13425057 rs3107406 chr2_187208651_C_T rs13397032 chr2_187447140_C_T rs3768781 rs2197138 rs1839121 rs3768787 exm251692 chr2_187705633_A_G chr2_187709483_C_T rs7582212 rs17754256 rs12623026 chr2_188115398_A_G chr2_188324986_A_C rs10153820 rs77660710 rs12474851 rs35429436 chr2_188855719_A_G chr2_188871008_C_G chr2_188871008_C_G chr2_188871008_C_G rs1579690 rs12469006 rs13416775 rs4433962 rs10931359 rs6724428 rs8273 rs4667244 rs16830657 rs10202533 corect_rs142206432 corect_rs142206432 chr2_189879843_A_G chr2_190088475_C_T chr2_190194419_C_G chr2_190305297_A_G rs79964941 exm252454 rs10176947 rs1055091 chr2_190717335_A_G chr2_190717470_C_T chr2_190719584_A_G chr2_190719739_INDEL_TTG rs16832285 chr2_190934349_C_T chr2_191189633_A_G rs7721 chr2_191410909_A_G chr2_191410909_A_G chr2_191757059_A_C

genotype difference Col_33_IF Col_52_IF Col_12_CB Col_45_IF Col_52_IF Col_33_CB Col_33_IF Col_33_IF Col_16_CB Col_33_IF Col_33_CB Col_12_CB Col_34_IF Col_33_IF Col_38_CB Col_08_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_16_CB Col_34_IF Col_52_CB Col_12_CB Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_38_IF Col_33_CB Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_12_CB Col_33_IF

RI PT


Marker ID

71

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP TOP TOP BOT TOP TOP BOT BOT TOP BOT BOT TOP BOT TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP

[C/G] [A/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/C] [T/G] [T/C] [A/G] [T/G] [T/C] [C/G] [T/C] [A/G] [A/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/C] [A/G] [T/G] [A/G] [A/G] [A/C] [T/G] [T/C] [A/C] [T/A] [T/A] [T/C] [T/C] [T/A] [T/C] [T/C] [T/G] [A/G]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

191757077 191833540 192002538 192024904 192090231 192102471 192102471 192110026 192175824 192176595 192253037 192260277 192366645 192368660 192383966 192391282 192442429 192468143 192506225 192514856 192523029 192526951 192562764 192567912 192587933 192589399 192668095 192720548 192736287 192768340 192769311 192769892 192769892 192818166 192836099 192850804 192874825 192878532 192932791 192942018 192980006 193018411 193128123 193203397 193219298 193293088 193312496 193422394 193489504 193491125 193532639 193543322 193543322 193775570 193775570 193800706 193809475 193809475 193954458 194094198

SC

M AN U TE D

AC C

EP

chr2_191757077_C_G chr2_191833540_G_T rs2356350 rs13001658 rs921738 rs72910592 rs72910592 rs6750597 rs17348355 rs55691753 rs1568218 rs10439263 rs62179687 rs56168509 rs2356653 rs4853611 rs6713885 rs10931507 rs6434497 rs13392977 chr2_192523029_C_G rs78053298 rs75610640 rs12464838 rs76964779 rs6717668 rs77366412 rs73065349 rs10183721 rs61432860 rs13388477 rs57779510 rs57779510 rs7600878 rs75327548 rs4311010 rs12612937 rs13020688 rs10931519 rs35602760 rs10174885 rs12693637 rs2592240 rs12993533 rs16834478 rs2357140 rs1484884 rs77895161 rs10931561 chr2_193491125_C_T chr2_193532639_G_T chr2_193543322_A_T chr2_193543322_A_T rs13006067 rs13006067 chr2_193800706_A_T chr2_193809475_C_T chr2_193809475_C_T rs2357537 rs6434595

genotype difference Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_12_IF Col_38_TS Col_33_IF Col_33_CB Col_33_IF Col_34_TS Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_52_TS Col_12_CB Col_33_IF Col_08_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_08_CB Col_52_TS Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_12_TS Col_52_TS Col_16_TS Col_52_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_34_IF Col_12_IF Col_33_IF Col_16_CB Col_33_IF Col_34_IF Col_33_IF

RI PT


Marker ID

72

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP MINUS TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT

[A/G] [T/C] [T/C] [T/G] [T/C] [T/G] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/C] [A/G] [T/C] [T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [D/I] [A/G] [A/G] [A/G] [A/G] [T/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/G] [A/G] [A/G] [T/C]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

194189578 194226166 194424244 195056933 195352886 195365585 195389486 195484228 195564847 195663691 195896262 195968050 195971878 196217326 196217326 196309161 196360157 196775588 197023812 197045077 197045688 197087162 197092786 197092786 197238970 197697926 197788896 197845449 198148767 198297156 198349536 198590886 198614612 198754246 198819824 198825668 198879893 198879893 199095875 199144261 199479235 199479235 199499356 199606419 199625393 199630556 199642335 199703618 199766051 199955318 200010475 200014483 200036945 200073190 200291535 200435744 200676926 200751509 200872831 201096453

SC

M AN U TE D

AC C

EP

rs6434599 rs10174139 chr2_194424244_C_T chr2_195056933_G_T rs7421656 chr2_195365585_G_T rs2360093 rs11679788 chr2_195564847_C_T rs2215453 rs1430676 rs4850358 rs10171891 chr2_196217326_C_T chr2_196217326_C_T chr2_196309161_C_T rs2889103 rs16841955 chr2_197023812_C_T rs1378624 rs13003408 chr2_197087162_A_C rs10497781 rs10497781 chr2_197238970_A_G chr2_197697926_C_T chr2_197788896_A_G rs6735887 rs12619296 rs16865650 rs6745660 rs700640 rs1065953 chr2_198754246_CC_INDEL rs4410288 rs10497809 chr2_198879893_A_G chr2_198879893_A_G rs9807926 rs1456550 rs983733 rs983733 chr2_199499356_C_T rs4675429 chr2_199625393_A_G chr2_199630556_C_T chr2_199642335_G_T rs16830580 rs1456524 rs1451479 chr2_200010475_A_G chr2_200014483_C_T rs4675343 rs12616812 chr2_200291535_C_T rs16831604 rs7605378 chr2_200751509_C_T rs2136585 rs983407

genotype difference Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_34_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_34_TS Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_38_IF Col_33_IF Col_33_IF

RI PT


Marker ID

73

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP BOT BOT TOP BOT TOP PLUS TOP BOT TOP BOT TOP BOT BOT TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT TOP BOT MINUS MINUS TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP

[T/G] [A/C] [A/C] [A/G] [T/C] [T/C] [A/G] [T/G] [A/G] [I/D] [A/C] [T/C] [A/G] [G/C] [A/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [A/C] [A/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/A] [T/G] [T/G] [T/C] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [I/D] [I/D] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [G/C] [A/G] [A/G] [A/G]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

201204576 201208692 201208692 201312663 201347929 201390951 201504404 201505269 201535646 201746389 201776988 201800167 201837772 201847886 201854175 201876052 201876052 201897882 201909515 201933121 201933739 201941977 201942367 201942480 201974896 202127863 202127947 202149440 202205197 202216916 202251534 202271738 202279933 202340073 202361910 202367568 202418184 202497586 202527467 202623065 203074911 203150528 203164972 203425475 203527979 203605586 203605586 203845646 204009393 204009393 204062061 204309325 204339350 204373568 204411875 204818924 205076554 205111927 205132626 205572718

SC

M AN U TE D

AC C

EP

rs11676345 rs985256 rs985256 rs6722649 chr2_201347929_A_G kgp8479697 rs4541241 rs7587871 kgp5072783 chr2_201746390_A_INDEL rs4381763 chr2_201800167_A_G chr2_201837772_A_G rs10931929 chr2_201854175_A_C chr2_201876052_C_T chr2_201876052_C_T kgp1758175 rs13015798 chr2_201933121_A_G chr2_201933739_A_G chr2_201941977_G_T chr2_201942367_A_G rs10194347 chr2_201974896_A_G chr2_202127863_A_G chr2_202127947_A_C chr2_202149440_G_T chr2_202205197_C_T chr2_202216916_A_G chr2_202251534_C_T chr2_202271738_C_T rs12473209 rs56258603 chr2_202361910_A_C chr2_202367568_G_T chr2_202418184_C_T rs1208082 chr2_202527467_A_G chr2_202623065_C_T chr2_203074911_C_T chr2_203150528_C_T chr2_203164972_C_T rs6435156 rs7569317 chr2_203605587_A_INDEL chr2_203605587_A_INDEL rs10197426 exm258395 exm258395 rs4675323 rs2246849 chr2_204339350_A_G rs79097984 rs35778280 chr2_204818924_A_C chr2_205076554_C_G rs16840921 rs6733573 rs2160690

genotype difference Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_38_TS Col_12_TS Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_38_CB Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_34_IF Col_52_CB Col_12_CB Col_52_IF Col_12_CB Col_12_TS Col_33_IF Col_12_CB Col_38_IF Col_33_IF Col_33_CB Col_33_IF Col_12_TS Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_38_CB Col_52_TS Col_33_IF Col_16_TS Col_38_TS Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_CB Col_38_CB Col_33_IF Col_33_CB Col_33_IF

RI PT


Marker ID

74

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

PLUS BOT TOP TOP BOT TOP BOT TOP BOT BOT TOP TOP BOT TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT PLUS TOP MINUS TOP TOP BOT TOP BOT TOP

[I/D] [T/A] [A/C] [A/G] [T/C] [C/G] [T/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/G] [A/C] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [T/C] [T/G] [T/C] [A/G] [A/G] [T/C] [D/I] [A/G] [D/I] [A/G] [A/G] [T/C] [A/G] [T/C] [A/T]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

205653469 205736242 205737630 205747878 205763480 205827781 205866960 205917195 205997457 206012261 206039171 206063298 206105258 206146564 206202196 206256232 206449649 206511008 206636123 206862015 207145650 207418899 207535058 207535058 207574944 207574944 207733838 207941850 207964848 207974818 208012509 208014898 208173545 208555031 208591523 208591523 208706437 208715314 208986049 209100914 209470820 209516429 209574314 209574314 209574314 209635009 209878841 210013527 210053781 210053781 210257567 210295707 210341484 210344155 210408477 210608101 210722742 211105516 211264173 211309298

SC

M AN U

TE D

chr2_205653469_A_INDEL rs72940411 chr2_205737630_A_C chr2_205747878_A_G rs13031723 chr2_205827781_C_G rs11695066 chr2_205917195_C_T rs919936 chr2_206012261_A_G rs7597102 rs11681930 rs1012337 chr2_206146564_C_T chr2_206202196_C_T chr2_206256232_A_C rs17596643 rs6435300 chr2_206636123_A_C rs10192718 rs13000165 rs3770977 rs13415248 rs13415248 rs10490749 rs10490749 rs6705071 rs1263599 chr2_207964848_A_G rs2244923 chr2_208012509_A_G chr2_208014898_C_T rs16839586 rs2663867 chr2_208591523_A_G chr2_208591523_A_G rs6728825 rs6435396 rs6435415 rs16840781 rs10198932 chr2_209516429_G_T chr2_209574314_A_G chr2_209574314_A_G chr2_209574314_A_G rs11897307 rs13387460 rs6740556 rs12464060 rs12464060 rs1993235 chr2_210295707_C_INDEL chr2_210341484_A_G chr2_210344155_ATAG_INDEL rs288070 chr2_210608101_A_G chr2_210722742_C_T rs16844231 rs6745925 rs55725016

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_52_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_16_IF Col_52_IF Col_33_IF Col_38_TS Col_16_TS Col_12_CB Col_12_CB Col_33_IF Col_38_IF Col_12_CB Col_16_TS Col_12_CB Col_12_CB Col_33_IF Col_16_TS Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_16_TS Col_38_CB Col_52_TS Col_12_CB Col_52_IF Col_12_CB Col_08_TS Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_12_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB

RI PT


Marker ID

75

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP TOP TOP TOP BOT BOT TOP BOT TOP BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP BOT BOT TOP BOT BOT TOP TOP TOP BOT TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP

[A/G] [T/C] [A/G] [A/G] [A/G] [A/C] [T/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/A] [A/G] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [A/C] [T/C] [T/G] [T/C] [A/C] [T/C] [T/C] [T/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/C] [A/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/C] [T/C] [A/C] [T/C] [A/G] [A/C] [A/G] [A/G] [A/C] [T/A] [T/G] [T/G] [T/G] [A/G]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

211465113 211547469 211637929 211856725 211912713 211960740 211982807 212181355 212196284 212226177 212238541 212245489 212245489 212356992 212379145 212486350 212509321 212519028 212562500 212570507 212570507 212655885 212707967 212866473 212869780 212888988 212914726 212974828 213028059 213043071 213089095 213113079 213115743 213201725 213224540 213224540 213236480 213283190 213283190 213363130 213363130 213413231 213486423 213649587 213838869 213838869 213977913 214080362 214107264 214217706 214225606 214572679 214594856 214702402 214717579 214885805 214917402 214917402 214917402 214940909

SC

M AN U TE D

AC C

EP

rs9288418 rs13386056 rs74383434 rs651797 chr2_211912713_A_G rs13005623 chr2_211982807_A_C rs1992027 rs10804193 rs6712652 rs1971802 rs4672612 rs4672612 rs4672615 rs10164847 rs10469656 rs10194698 rs6730119 rs10195194 rs10174518 rs10174518 rs6435670 chr2_212707967_C_T rs13020474 chr2_212869780_G_T chr2_212888988_C_T rs1464443 rs17416172 rs16847823 rs10497961 rs939224 rs10497966 rs10497969 rs1394783 rs13014726 rs13014726 rs6435700 rs1394780 rs1394780 rs16848719 rs16848719 rs7599312 rs6704686 rs6710703 rs1384394 rs1384394 chr2_213977913_G_T rs6435758 chr2_214107264_A_C rs10804214 rs10172140 rs6758514 rs9283526 chr2_214702402_A_G rs10498015 chr2_214885805_A_T rs1510552 rs1510552 rs1510552 rs6715997

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_38_CB Col_33_IF Col_16_CB Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_38_IF Col_33_IF Col_52_IF Col_33_IF Col_12_TS Col_52_IF Col_33_IF Col_38_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_52_IF Col_16_TS Col_38_CB Col_12_CB Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_34_CB Col_52_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_TS Col_08_TS Col_16_CB Col_38_CB Col_33_IF

RI PT


Marker ID

76

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT PLUS BOT BOT TOP TOP BOT BOT BOT TOP MINUS MINUS TOP BOT TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP BOT TOP TOP MINUS MINUS BOT BOT BOT TOP BOT BOT PLUS BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP

[A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [I/D] [T/C] [T/C] [A/G] [A/C] [T/C] [T/C] [G/C] [A/G] [I/D] [I/D] [A/C] [T/C] [A/G] [A/C] [T/A] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [C/G] [T/C] [A/G] [C/G] [I/D] [I/D] [T/G] [T/G] [T/G] [A/G] [T/G] [G/C] [I/D] [T/C] [C/G] [C/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

215009358 215081910 215091316 215107556 215108398 215108398 215257671 215374587 215374587 215518312 215529096 215579548 215636963 215645930 215661725 215832746 216364035 216403098 216524456 216750036 217001547 217061628 217536998 217558749 217558749 217588017 217623232 217661788 217803756 217811668 217858489 217866032 217866364 217867396 217883304 217884429 217892280 217892714 217898935 217925123 217944925 217944925 217964882 217964882 217964882 218058184 218085609 218104100 218161658 218234493 218236890 218254269 218276657 218276657 218276657 218318878 218356528 218395037 218413982 218481552

SC

M AN U

TE D

chr2_215009358_C_T rs16851611 chr2_215091316_C_T rs2052440 rs16825126 rs16825126 chr2_215257671_A_G chr2_215374587_C_T chr2_215374587_C_T rs1018323 rs10932556 rs280645 chr2_215636963_A_G chr2_215645930_C_T chr2_215661724_AT_INDEL rs13024862 rs1437793 chr2_216403098_C_T rs1316689 chr2_216750036_A_G chr2_217001547_C_T chr2_217061628_C_G chr2_217536998_A_G rs3836027 rs3836027 rs6435948 rs737309 rs2712162 rs2705592 chr2_217811668_A_T rs2705593 rs13413746 chr2_217866364_A_G chr2_217867396_C_T chr2_217883304_C_T chr2_217884429_C_T chr2_217892280_C_G chr2_217892714_C_T chr2_217898935_C_T chr2_217925123_C_G chr2_217944925_INDEL_TGTTTA chr2_217944925_INDEL_TGTTTA chr2_217964882_G_T chr2_217964882_G_T chr2_217964882_G_T chr2_218058184_C_T chr2_218085609_A_C chr2_218104100_C_G chr2_218161658_ACTT_INDEL chr2_218234493_A_G chr2_218236890_C_G chr2_218254269_C_G chr2_218276657_A_G chr2_218276657_A_G chr2_218276657_A_G chr2_218318878_A_G chr2_218356528_C_T chr2_218395037_A_G rs4674189 rs1814354

genotype difference Col_16_TS Col_33_IF Col_33_IF Col_52_IF Col_38_CB Col_59_TS Col_38_IF Col_52_IF Col_12_IF Col_33_IF Col_33_IF Col_52_TS Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_38_TS Col_12_CB Col_52_TS Col_12_CB Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_IF Col_52_TS Col_12_IF Col_33_IF Col_12_CB Col_33_IF Col_34_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_16_IF Col_33_IF Col_33_IF Col_16_TS Col_34_IF Col_38_TS Col_33_IF Col_12_CB Col_12_CB Col_33_CB Col_08_TS

RI PT


Marker ID

77

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT BOT MINUS TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP PLUS PLUS PLUS BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT

[A/G] [A/G] [T/C] [T/C] [T/C] [T/G] [I/D] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/G] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/G] [T/G] [T/C] [T/G] [T/C] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [T/G] [T/C] [A/G] [I/D] [I/D] [I/D] [T/G] [T/C] [T/G] [A/G] [A/G] [A/G] [A/C] [A/G] [A/C] [T/C] [A/C] [C/G] [A/C] [A/G] [T/G] [T/G] [T/C] [T/G]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

218481552 218481552 218665262 218955809 219716488 220513872 220554526 220663477 220697511 220747717 220827502 220838089 220845194 221201659 221201659 221291935 221479073 221574589 221607036 221607399 221607399 221607399 221607399 221609137 221609137 221610232 221638121 221678075 221826031 221835326 222058767 222058767 222194885 222194885 222219604 222282959 222295760 222299999 222318513 222490764 222490764 222490764 222527701 222636828 222739011 222789024 223083079 223083079 223101726 223172227 223554054 223658212 223872815 223938654 224001910 224146067 224235559 224235559 224318539 224418252

SC

M AN U TE D

AC C

EP

rs1814354 rs1814354 chr2_218665262_A_G rs10804264 chr2_219716488_C_T chr2_220513872_A_C chr2_220554527_INDEL_T rs982458 chr2_220697511_C_T chr2_220747717_C_T chr2_220827502_A_G chr2_220838089_C_T rs750894 rs10208333 rs10208333 chr2_221291935_A_G rs1517442 chr2_221574589_A_G rs6743505 chr2_221607399_A_G chr2_221607399_A_G chr2_221607399_A_G chr2_221607399_A_G chr2_221609137_A_C chr2_221609137_A_C chr2_221610232_A_G chr2_221638121_A_C rs10205272 rs1550068 rs1542355 rs1583236 rs1583236 chr2_222194885_C_T chr2_222194885_C_T rs10168570 rs8508 rs3770205 rs3770199 rs4674599 chr2_222490765_INDEL_T chr2_222490765_INDEL_T chr2_222490765_INDEL_T chr2_222527701_A_C chr2_222636828_C_T rs4099418 chr2_222789024_A_G rs2253377 rs2253377 chr2_223101726_A_C rs10202724 exm270593 rs11683720 rs1371648 chr2_223938654_C_G rs4674744 rs1914484 rs1250927 rs1250927 rs934995 rs1371549

genotype difference Col_16_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_08_CB Col_16_TS Col_38_CB Col_52_IF Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_52_CB Col_16_TS Col_52_TS Col_52_TS Col_33_TS Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_CB Col_59_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_38_TS Col_38_CB Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_38_CB Col_33_IF Col_59_CB Col_12_CB Col_33_IF

RI PT


Marker ID

78

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP TOP BOT BOT TOP BOT TOP BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT BOT TOP TOP TOP BOT TOP BOT BOT TOP BOT BOT BOT TOP TOP TOP TOP TOP

[T/C] [C/G] [A/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/G] [A/G] [T/G] [T/C] [T/C] [A/G] [A/C] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [T/G] [T/C] [A/G] [T/C] [A/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/A] [T/C] [C/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

225244352 225269198 225443901 225563591 225588620 225641952 225672460 226148248 226157800 226216097 226413483 226480454 226517182 226811827 227049972 227151291 227345365 227417011 227418826 227647630 227647630 227805426 228053601 228091661 228093667 228103702 228111435 228130088 228493598 228511913 228531214 228568600 228580910 228845975 229005731 229014719 229207194 229211957 229226132 229490307 229494571 229608271 229612145 229612145 229866471 229969039 229999532 230116035 230166647 230225985 230278731 230325234 230439721 230505033 230641870 230899765 230899765 231029409 231283711 231339731

SC

M AN U TE D

AC C

EP

exm271051 rs72968596 rs6749402 rs16866119 rs13384654 chr2_225641952_A_G rs12328236 chr2_226148248_C_T rs2044236 rs1517481 rs7586576 corect_rs114969939 rs4627553 chr2_226811827_A_G rs12185648 rs6733028 rs1392841 kgp6295895 kgp7479110 chr2_227647630_C_T chr2_227647630_C_T kgp6032604 chr2_228053601_C_T rs13028299 rs11884740 rs4675157 rs10178458 rs4603754 chr2_228493598_C_T rs73082830 rs10169147 rs55683694 rs77539316 rs7600201 rs4519515 rs4438470 rs13021389 rs17235156 chr2_229226132_A_G rs1469837 rs76768477 rs6722400 chr2_229612145_A_G chr2_229612145_A_G rs13410077 chr2_229969039_A_G rs17676147 rs10498235 rs4973184 chr2_230225985_A_T rs6739440 chr2_230325234_C_G chr2_230439721_A_G rs6436883 rs7584686 rs7355333 rs7355333 rs17327304 chr2_231283711_C_T rs4539783

genotype difference Col_33_IF Col_52_CB Col_45_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_38_TS Col_16_IF Col_33_IF Col_33_IF Col_38_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_CB Col_12_CB Col_33_IF Col_38_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_38_TS Col_16_CB Col_12_CB Col_33_IF Col_38_IF Col_33_IF Col_34_CB Col_38_TS Col_33_IF Col_33_CB

RI PT


Marker ID

79

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT TOP BOT TOP TOP BOT BOT PLUS PLUS TOP TOP BOT TOP TOP

[A/G] [A/G] [T/C] [T/C] [G/C] [G/C] [A/G] [T/C] [A/C] [T/C] [T/C] [T/C] [A/G] [A/C] [A/G] [T/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/A] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [D/I] [D/I] [A/G] [A/G] [T/A] [A/G] [A/C]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2

231427877 231448374 231792534 231921109 231966246 231966246 232077075 232376126 232381245 232744209 233396375 233406805 233426526 233496975 233610991 233639748 233869480 233904259 233943293 234287221 234458204 234512819 234512819 234532712 234556474 234558212 234567427 234584324 234585780 234663045 234679384 234682062 234685964 234687418 234706216 234966238 235103289 235229127 235304659 235477398 235806859 235806859 235806859 235857114 235857114 235972328 236100957 236205639 236682444 236700821 237866575 238070885 238085153 238128886 238128886 238137652 238144228 238173064 238208652 238208745

SC

M AN U TE D

AC C

EP

rs1649917 chr2_231448374_A_G chr2_231792534_A_G rs3754982 corect_rs115181978 corect_rs115181978 rs5018532 rs78205285 rs6754952 rs10179086 rs3762528 rs1656389 rs1656402 rs11902420 chr2_233610991_C_T rs9288676 chr2_233869480_A_G chr2_233904259_C_T rs6708049 rs6726046 chr2_234458204_C_T chr2_234512819_A_G chr2_234512819_A_G rs28969676 rs28969989 rs13431913 rs28969994 rs2602381 rs28970014 rs1054804 chr2_234679384_C_T rs4148329 rs9784064 rs10203853 rs2110297 rs13396164 rs6758970 rs2885958 rs4663398 rs77554001 rs10929070 rs10929070 rs10929070 rs2042831 rs2042831 chr2_235972328_G_T rs10929104 rs4561612 chr2_236682444_A_G chr2_236700821_C_T rs2060518 chr2_238070885_A_G chr2_238085153_C_T chr2_238128886_G_INDEL chr2_238128886_G_INDEL rs10180362 chr2_238144228_A_G rs79297464 chr2_238208652_A_G chr2_238208745_A_C

genotype difference Col_33_IF Col_52_TS Col_38_TS Col_08_CB Col_33_CB Col_38_IF Col_12_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_CB Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_34_CB Col_52_IF Col_33_CB Col_08_IF Col_33_IF Col_38_TS Col_33_IF Col_45_IF Col_12_CB Col_38_TS Col_08_TS Col_33_CB Col_12_IF Col_52_TS Col_12_CB Col_33_IF Col_38_IF Col_16_TS Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_38_TS Col_08_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

80

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP MINUS PLUS TOP BOT BOT TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP BOT MINUS MINUS BOT BOT BOT TOP BOT BOT BOT TOP TOP PLUS PLUS TOP PLUS BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP TOP

[A/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [A/G] [A/G] [A/G] [I/D] [I/D] [A/G] [G/C] [G/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/C] [T/G] [D/I] [D/I] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/G] [A/G] [A/G] [I/D] [D/I] [A/G] [D/I] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [C/G] [T/A] [T/A] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G]

2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 3 3

238208745 238241642 238241642 238241642 238299189 238395871 238440449 238491003 238496849 238541792 238581822 238627524 238729161 238731355 238731355 238731931 238807077 239023528 239211380 239237388 239503407 239723593 239723593 240303312 240709286 240730845 240932326 240966872 240976581 240988710 240988710 241359366 241359366 241586810 241695096 241900843 242149010 242161999 242163359 242194150 242197282 242214897 242217627 242271567 242275579 242316512 242406245 242436238 242447157 242457864 242477457 242498984 242780332 242780332 242977440 242977440 242977440 243040173 185281 214121

SC

M AN U

TE D

chr2_238208745_A_C chr2_238241642_C_T chr2_238241642_C_T chr2_238241642_C_T chr2_238299189_A_G rs1574529 chr2_238440449_G_T chr2_238491003_A_G chr2_238496849_C_T chr2_238541792_C_T chr2_238581822_A_INDEL chr2_238627524_INDEL_TTAAATC chr2_238729161_A_G chr2_238731355_C_G chr2_238731355_C_G rs4663794 chr2_238807077_A_G rs10186514 rs12692218 chr2_239237388_A_G rs6716187 rs10929297 rs10929297 chr2_240303312_A_G rs10195015 rs7572106 chr2_240932326_A_G chr2_240966872_A_C rs13415895 chr2_240988710_G_INDEL chr2_240988710_G_INDEL rs2078402 rs2078402 rs6724516 rs4676447 chr2_241900843_C_T exm283977 chr2_242161999_G_T chr2_242163359_A_G chr2_242194150_A_G chr2_242197286_AGAC_INDEL chr2_242214897_G_INDEL chr2_242217627_C_T chr2_242271567_INDEL_TTC chr2_242275579_A_G chr2_242316512_C_T chr2_242406245_C_T chr2_242436238_A_G rs10207214 chr2_242457864_C_T rs2174276 exm284661 chr2_242780332_A_T chr2_242780332_A_T chr2_242977440_C_T chr2_242977440_C_T chr2_242977440_C_T chr2_243040173_C_T rs9878349 rs9872695

genotype difference Col_12_IF Col_08_TS Col_33_CB Col_12_IF Col_33_CB Col_52_IF Col_12_CB Col_33_CB Col_08_TS Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_08_TS Col_33_CB Col_33_IF Col_33_CB Col_33_CB Col_38_IF Col_52_TS Col_08_TS Col_33_IF Col_33_IF Col_38_TS Col_33_CB Col_38_TS Col_33_IF Col_34_TS Col_33_CB Col_12_CB Col_33_CB Col_34_IF Col_33_CB Col_16_TS Col_33_IF Col_12_CB Col_38_TS Col_33_IF Col_34_CB Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_52_CB Col_16_TS Col_38_TS Col_45_IF Col_38_TS Col_33_IF Col_33_IF

RI PT


Marker ID

81

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT BOT MINUS TOP TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT TOP BOT TOP BOT TOP BOT TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP TOP BOT BOT TOP

[A/G] [C/G] [A/G] [T/G] [T/C] [I/D] [A/G] [A/G] [A/G] [A/C] [A/C] [T/C] [T/C] [A/G] [T/C] [T/G] [T/C] [A/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/T] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [G/C] [T/A] [T/A] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/A] [T/G] [T/G] [T/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [C/G] [A/G] [T/C] [G/C] [A/C]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

234877 304419 309363 366039 469463 712090 722279 785352 864513 877925 958096 1061761 1069913 1096770 1187510 1191638 1227382 1253821 1327522 1420519 1425506 1491953 1537398 1557413 1623393 1684091 1722181 1807252 1807913 1814068 1827927 1863664 1878339 1878339 1881842 1920032 1949227 2029929 2035573 2050777 2056240 2114929 2114929 2160106 2160472 2260651 2284224 2335062 2357019 2357019 2401736 2401736 2426642 2502638 2538769 2598419 2653577 2738457 2749563 2772077

SC

M AN U TE D

AC C

EP

rs17044266 chr3_304419_C_G chr3_309363_C_T rs162416 rs1155327 chr3_712091_INDEL_T rs2627965 corect_rs141661494 rs11914853 rs13066227 rs9838891 rs4686384 rs17032463 rs6442164 rs1504073 rs17034364 rs1499097 rs17035611 chr3_1327522_A_G rs155387 rs3845158 chr3_1491953_C_T chr3_1537398_C_T rs11128726 rs402675 chr3_1684091_C_T rs6801074 rs17043656 rs17043661 rs17786331 chr3_1827927_C_T rs7640707 chr3_1878339_A_T chr3_1878339_A_T chr3_1881842_C_T chr3_1920032_A_G rs11710889 rs2600046 rs2634135 rs2727956 corect_rs111847981 rs9880266 rs9880266 rs9842506 chr3_2160472_C_T rs1183149 chr3_2284224_A_G rs11915941 rs984085 rs984085 rs17194322 rs17194322 chr3_2426642_A_G rs9860735 rs4571230 chr3_2598419_C_G rs1020997 chr3_2738457_A_G chr3_2749563_C_G rs73114556

genotype difference Col_33_IF Col_52_CB Col_52_TS Col_33_IF Col_33_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_45_IF Col_33_IF Col_16_IF Col_33_IF Col_38_TS Col_38_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_16_CB Col_52_CB Col_33_IF Col_16_CB Col_33_IF Col_52_TS Col_33_IF Col_16_TS Col_33_IF Col_16_IF Col_52_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_CB Col_38_TS Col_38_TS Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_16_IF Col_33_CB

RI PT


Marker ID

82

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT PLUS BOT BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT TOP TOP BOT TOP BOT BOT TOP BOT BOT TOP BOT BOT TOP BOT BOT PLUS PLUS TOP BOT BOT

[T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [G/C] [I/D] [T/A] [T/C] [A/G] [A/G] [A/G] [T/C] [A/C] [A/C] [T/C] [T/C] [T/C] [T/G] [C/G] [T/C] [T/C] [T/C] [A/G] [A/C] [T/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [C/G] [T/G] [T/G] [A/G] [T/C] [T/G] [I/D] [I/D] [A/G] [T/C] [T/C]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

2821345 2821345 2932614 2988368 3108083 3108083 3228123 3228123 3401272 3421278 3423954 3513435 3513435 3530023 3709508 3712236 3771470 3775107 3802465 3812310 3859814 3859814 3862026 3884631 3901727 3967200 4153654 4317445 4382928 4403614 4412437 4486303 4535701 4535701 4577500 4582680 4603648 4621315 4661803 4661803 4661966 4665228 4681908 4714337 4730867 4731505 4731586 4731593 4744047 4754570 4756338 4756338 4762891 4785431 4837269 4857484 4857484 4880300 4903876 4906628

SC

M AN U TE D

AC C

EP

rs955340 rs955340 rs17586083 corect_rs115389452 rs340828 rs340828 rs9828825 rs9828825 chr3_3401272_C_T rs979152 rs9838824 rs74869774 rs74869774 rs1967251 rs6442820 rs764593 rs17361688 rs769798 rs711540 rs11708888 rs17690433 rs17690433 rs76691189 rs5846293 rs11129793 chr3_3967200_A_G chr3_4153654_A_G rs314416 chr3_4382928_A_G rs2819562 chr3_4412437_A_C chr3_4486303_A_C chr3_4535701_C_T chr3_4535701_C_T chr3_4577500_C_T rs17040868 chr3_4603648_C_G rs6442888 rs2639802 rs2639802 chr3_4661966_C_T chr3_4665228_A_C chr3_4681908_A_C chr3_4714337_C_T rs4685799 rs6802947 chr3_4731586_A_G chr3_4731593_A_G chr3_4744047_C_T chr3_4754570_C_G chr3_4756338_G_T chr3_4756338_G_T rs901852 chr3_4785431_A_G rs11713160 chr3_4857485_A_INDEL chr3_4857485_A_INDEL rs3805035 chr3_4903876_A_G rs6794744

genotype difference Col_33_IF Col_52_CB Col_52_TS Col_33_IF Col_33_IF Col_12_CB Col_34_CB Col_12_IF Col_33_IF Col_33_IF Col_12_IF Col_34_CB Col_12_CB Col_16_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_12_CB Col_16_TS Col_33_CB Col_33_IF Col_33_IF Col_59_TS Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_CB Col_38_TS Col_12_CB Col_38_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_38_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_45_IF Col_33_IF Col_33_IF Col_12_IF

RI PT


Marker ID

83

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP BOT TOP BOT BOT TOP BOT TOP PLUS PLUS BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT MINUS BOT BOT TOP TOP BOT BOT BOT TOP TOP

[T/C] [C/G] [T/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [I/D] [I/D] [T/C] [A/C] [A/C] [A/G] [A/G] [T/C] [T/G] [T/G] [T/C] [T/C] [I/D] [T/C] [T/C] [A/C] [A/G] [T/A] [T/G] [T/C] [A/G] [A/T]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

4922720 4946359 4985243 5013876 5013876 5047271 5064834 5085835 5097993 5103086 5121078 5170002 5249916 5312162 5352849 5472187 5474807 5541735 5548037 5663942 5822491 5883135 5926673 5938105 6089091 6089091 6099472 6126242 6134046 6154425 6182793 6265920 6292920 6298349 6328081 6342860 6343913 6472288 6551153 6551153 6645359 6665147 6684736 6688219 6955734 7116696 7128166 7128166 7182177 7182177 7472868 7531715 7578531 7729841 7821610 7907891 7991775 7992035 8487491 8646437

SC

M AN U TE D

AC C

EP

chr3_4922720_C_T chr3_4946359_C_G chr3_4985243_G_T rs6442925 rs6442925 chr3_5047271_A_G chr3_5064834_A_G rs11918600 rs6442929 chr3_5103086_A_G chr3_5121078_C_T chr3_5170002_A_G newrs139708132 rs12485270 rs13068773 chr3_5472187_C_T chr3_5474807_C_T rs9311542 rs12715476 chr3_5663942_A_G rs9864734 rs4685991 rs6791121 rs12233495 rs3941735 rs3941735 rs6773693 chr3_6126242_A_G rs9311784 rs6443025 rs7638535 rs9870867 rs9818235 rs7636434 rs1595039 rs157301 rs1369621 rs115904 chr3_6551154_A_INDEL chr3_6551154_A_INDEL chr3_6645359_C_T rs352284 chr3_6684736_G_T chr3_6688219_C_T rs9311966 rs6772333 chr3_7128166_G_T chr3_7128166_G_T rs9813030 rs9813030 chr3_7472868_A_INDEL rs1450101 rs779746 chr3_7729841_G_T rs161909 chr3_7907891_A_T chr3_7991775_A_C chr3_7992035_C_T rs1161149 rs355089

genotype difference Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_08_TS Col_12_CB Col_33_IF Col_08_TS Col_52_CB Col_38_TS Col_33_IF Col_34_IF Col_33_IF Col_33_IF Col_38_CB Col_16_TS Col_33_CB Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_52_IF Col_16_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_08_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_38_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_38_IF Col_12_CB Col_52_TS Col_52_TS Col_16_IF Col_33_IF

RI PT


Marker ID

84

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP BOT TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT TOP TOP BOT TOP BOT TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT

[T/G] [T/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/A] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [T/G] [T/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/G] [T/G] [T/G] [T/G] [T/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/G] [T/C] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/C] [T/A] [T/C] [T/C] [T/C] [T/C]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

8684193 8729551 8808285 8851872 8978476 9260103 9381994 10020087 10088914 10129118 10830882 11053389 11284950 11302884 11360997 11706403 11801890 11916653 11917239 12075218 12402474 12779409 12788082 12788082 12869690 12869690 12869690 13476507 13679695 13799270 13799270 14084157 14123906 14347847 14483826 14496162 14709935 14818231 14829349 15224983 15224983 15271883 15610070 16251995 16771147 16778701 16860824 17421310 17469978 17942245 18190267 18193653 18196527 18235724 18271059 18352408 18443796 18478967 18478967 18519259

SC

M AN U TE D

AC C

EP

rs6782117 rs350811 rs237897 rs1714302 rs11709327 rs4108605 chr3_9381994_C_T chr3_10020087_A_G rs2687893 rs17609118 chr3_10830882_A_T rs2930154 rs1666988 rs1809049 rs2594992 chr3_11706403_C_T rs17610125 chr3_11916653_G_T rs12631353 rs9822753 rs1373641 chr3_12779409_A_G rs76968767 rs76968767 rs6442335 rs6442335 rs6442335 rs6799613 rs1061398 rs7612896 rs7612896 rs2168718 rs17038868 rs4685119 rs7638413 rs11128699 rs3773490 chr3_14818231_C_T rs13100512 rs353093 rs353093 chr3_15271883_A_G chr3_15610070_C_T rs6807124 rs2044739 rs9829793 rs9836131 corect_rs114845881 exm294742 chr3_17942245_A_G chr3_18190267_A_G chr3_18193653_C_T rs66659472 rs13076743 rs13092526 chr3_18352408_A_T chr3_18443796_C_T chr3_18478967_C_T chr3_18478967_C_T rs13080136

genotype difference Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_TS Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_38_TS Col_16_TS Col_33_CB Col_52_TS Col_33_IF Col_33_TS Col_33_IF Col_38_IF Col_33_CB Col_34_CB Col_08_TS Col_33_CB Col_12_CB Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_CB Col_12_CB Col_12_IF Col_33_IF Col_12_IF Col_38_IF Col_33_IF Col_33_CB Col_52_IF Col_33_IF

RI PT


Marker ID

85

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT TOP BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP BOT BOT TOP BOT TOP BOT BOT BOT TOP TOP TOP TOP BOT TOP BOT PLUS BOT TOP BOT TOP TOP TOP BOT BOT TOP TOP BOT TOP BOT TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP BOT TOP

[A/C] [A/T] [T/C] [T/C] [A/C] [T/C] [T/C] [T/G] [A/G] [T/C] [A/G] [A/G] [A/T] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/C] [T/C] [D/I] [T/C] [A/G] [T/G] [C/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/G] [A/C] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/G] [A/G]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

18695490 18840933 18990356 19121644 19123532 19297335 19322009 19405172 19450214 19476445 19592688 19786794 19840854 19961562 20014747 20042834 20191421 20231519 20339157 20367901 20496022 20583674 20583674 20703952 20708397 20708397 20708397 20708761 20736153 20898944 20953743 20984501 21006294 21103323 21295754 21354506 21389545 21411341 21411341 21416406 21416406 21512235 21572733 21617726 21701712 21802296 21809702 21841904 21909725 21925140 21976413 22054604 22131055 22131055 22131055 22207033 22278497 22309538 22350042 22532660

SC

M AN U

TE D

rs9848614 rs7640928 rs9872071 rs9837132 rs9847518 rs7628012 chr3_19322009_A_G rs13094042 rs6799035 rs10514672 rs7626907 chr3_19786794_C_T chr3_19840854_A_T rs73819048 rs7650521 rs4103004 chr3_20191421_A_G rs6550413 rs9838186 rs7624305 rs6793867 rs996482 rs996482 rs7647157 rs7623569 rs7623569 rs7623569 chr3_20708761_A_G rs931717 rs1391857 chr3_20953743_GCCTATCTGAA_INDEL rs9863026 rs13061016 rs12637202 chr3_21295754_C_G chr3_21354506_A_G rs2731948 rs1395991 rs1395991 rs1573960 rs1573960 rs1457587 rs4858328 rs17009067 rs1320292 rs1320288 rs12715020 rs11129023 chr3_21909725_C_T chr3_21925140_A_C rs1553084 rs78653890 rs2695641 rs2695641 rs2695641 rs9310685 rs2035848 chr3_22309538_A_G rs4858031 rs2122369

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_12_IF Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_52_IF Col_08_IF Col_52_IF Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_12_IF Col_52_IF Col_33_CB Col_52_IF Col_38_IF Col_33_IF Col_33_IF Col_16_IF Col_52_IF Col_52_IF Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_45_IF Col_12_CB Col_33_IF Col_12_CB Col_08_CB Col_33_CB Col_33_IF

RI PT


Marker ID

86

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP BOT TOP BOT BOT TOP TOP TOP TOP BOT BOT TOP TOP BOT TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP TOP TOP TOP TOP BOT TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP

[T/G] [T/C] [T/C] [T/G] [T/C] [T/G] [A/G] [T/C] [A/T] [A/G] [T/C] [A/G] [T/A] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/C] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [T/G] [T/C] [T/C] [A/C] [A/G] [A/G] [A/G] [A/C] [T/C] [A/C] [T/C] [T/A] [A/C] [A/G] [A/T] [T/C] [T/A] [T/A] [T/A] [T/A] [T/G] [A/G] [A/G] [A/T] [A/T] [T/C] [A/G]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

22675098 22709578 22713211 22716572 22799314 22936263 23078311 23173734 23184464 23186657 23476481 23511338 23514921 23534064 23594908 23799983 24220680 24275163 24346981 24516898 24818050 24934705 25077674 25261724 25632894 25725070 26106208 26127535 26127535 26127535 26146839 26420135 26469815 26473842 26843377 26863714 26871939 26872435 26877519 26877966 26878587 26902649 26903228 26903893 26934787 26965375 26968631 27020985 27026742 27035025 27049540 27049540 27049540 27054896 27055891 27057245 27062913 27062913 27146250 27170426

SC

M AN U TE D

AC C

EP

rs1459522 rs4858046 chr3_22713211_C_T chr3_22716572_A_C rs7611994 chr3_22936263_A_C rs1817582 rs7615823 rs77708552 chr3_23186657_C_T chr3_23476481_A_G rs999764 rs59235066 chr3_23534064_C_T chr3_23594908_C_T chr3_23799983_C_T rs7652347 chr3_24275163_A_G rs9850879 rs9310744 rs11927156 chr3_24934705_C_T rs7640521 rs9830578 rs2164360 rs10446418 rs12629334 chr3_26127535_C_T chr3_26127535_C_T chr3_26127535_C_T rs6551046 chr3_26420135_A_C rs9814029 rs13327627 rs1155107 chr3_26863714_A_G rs12631641 chr3_26872435_A_G rs12636156 chr3_26877966_C_T chr3_26878587_A_C chr3_26902649_C_T chr3_26903228_G_T chr3_26903893_C_T chr3_26934787_A_T chr3_26965375_G_T chr3_26968631_C_T chr3_27020985_A_T chr3_27026742_A_G chr3_27035025_A_T chr3_27049540_A_T chr3_27049540_A_T chr3_27049540_A_T chr3_27054896_A_C rs34826374 rs1402987 chr3_27062913_A_T chr3_27062913_A_T rs1522160 chr3_27170426_A_G

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_38_CB Col_33_IF Col_16_TS Col_52_CB Col_34_IF Col_52_CB Col_16_TS Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_59_TS Col_38_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_34_TS Col_52_CB Col_33_IF Col_38_CB Col_34_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_16_IF Col_52_IF Col_12_IF Col_08_TS Col_33_IF Col_52_TS Col_52_TS Col_12_CB Col_59_TS Col_33_IF

RI PT


Marker ID

87

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT TOP BOT TOP MINUS BOT TOP BOT BOT BOT TOP BOT BOT TOP BOT BOT TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT TOP BOT TOP TOP TOP BOT BOT TOP MINUS MINUS MINUS TOP TOP TOP BOT TOP BOT TOP TOP BOT TOP TOP BOT

[A/G] [A/G] [A/C] [A/G] [A/C] [A/G] [T/C] [T/C] [T/C] [A/C] [T/G] [T/C] [A/G] [T/C] [A/G] [D/I] [T/C] [A/C] [T/C] [T/G] [T/A] [A/C] [G/C] [G/C] [A/G] [T/G] [T/C] [A/G] [A/C] [T/C] [T/C] [T/C] [A/G] [T/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/C] [A/C] [T/C] [T/C] [A/C] [D/I] [D/I] [D/I] [A/G] [A/G] [A/G] [T/C] [C/G] [T/G] [A/G] [A/T] [G/C] [A/C] [A/G] [G/C]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

27207700 27207760 27223319 27225449 27230230 27231558 27232227 27236385 27236385 27237080 27241936 27244833 27245393 27251609 27252703 27253855 27257026 27268398 27268634 27281769 27296822 27297190 27297816 27297816 27299001 27313122 27320210 27322207 27326097 27327143 27327214 27329540 27337929 27338424 27343549 27343549 27345103 27345381 27345397 27349047 27350384 27389599 27403304 27403453 27406924 27414642 27414642 27414642 27416013 27416013 27421024 27421427 27422378 27431898 27432871 27434732 27434909 27439678 27439888 27444524

SC

M AN U

TE D

chr3_27207700_C_T chr3_27207760_C_T chr3_27223319_A_C c3_pos27200453 chr3_27230230_A_C chr3_27231558_A_G chr3_27232227_C_T chr3_27236385_C_T chr3_27236385_C_T chr3_27237080_G_T chr3_27241936_A_C chr3_27244833_C_T chr3_27245393_A_G chr3_27251609_C_T chr3_27252703_C_T chr3_27253855_C_INDEL chr3_27257026_A_G chr3_27268398_G_T chr3_27268634_A_G chr3_27281769_A_C rs1550768 chr3_27297190_A_C chr3_27297816_C_G chr3_27297816_C_G chr3_27299001_A_G chr3_27313122_G_T chr3_27320210_A_G chr3_27322207_A_G rs11129280 chr3_27327143_C_T chr3_27327214_C_T chr3_27329540_C_T chr3_27337929_A_G chr3_27338424_A_C chr3_27343549_C_T chr3_27343549_C_T chr3_27345103_A_G chr3_27345381_A_G chr3_27345397_A_G rs4973760 chr3_27350384_G_T chr3_27389599_G_T c3_pos27378308 chr3_27403453_C_T chr3_27406924_G_T chr3_27414642_AAAAC_INDEL chr3_27414642_AAAAC_INDEL chr3_27414642_AAAAC_INDEL rs4973768 rs4973768 chr3_27421024_A_G rs11709954 c3_pos27397382 chr3_27431898_G_T chr3_27432871_A_G c3_pos27409736 c3_pos27409913 newrs139916793 rs6799847 chr3_27444524_C_G

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_16_IF Col_33_IF Col_52_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_CB Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_52_CB Col_12_IF Col_08_IF Col_33_IF Col_12_IF Col_38_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_34_CB

RI PT


Marker ID

88

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT TOP TOP BOT TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT BOT TOP BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT

[A/G] [A/G] [G/C] [A/G] [A/G] [T/C] [A/C] [A/G] [A/G] [A/G] [T/C] [T/A] [T/A] [A/G] [T/G] [T/A] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [T/C] [T/C] [C/G] [C/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/C] [A/G] [T/C] [T/C] [A/C] [T/G] [T/C] [A/C] [A/G] [A/G] [T/G] [T/C] [T/C] [T/A] [T/C]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

27448701 27465180 27473556 27475351 27481041 27487916 27499620 27512546 27515308 27549021 27565787 27612304 27612304 27666362 27758274 27780573 27798199 27820208 27843368 27924505 27924505 28137183 28149666 28149666 28149666 28156309 28193856 28197450 28203966 28204584 28332087 28335650 28422197 28549395 28631107 28631107 28687473 28687473 28687473 28689218 28745139 28752588 28769680 28771502 28869733 28989612 29017757 29139548 29251548 29270895 29289643 29382541 29394976 29422997 29428187 29459473 29483373 29493709 29530962 29534726

SC

M AN U TE D

AC C

EP

chr3_27448701_A_G chr3_27465180_A_G chr3_27473556_C_G chr3_27475351_A_G c3_pos27456045 c3_pos27462920 chr3_27499620_A_C c3_pos27487550 chr3_27515308_C_T c3_pos27524025 chr3_27565787_C_T chr3_27612304_A_T chr3_27612304_A_T rs6551219 chr3_27758274_G_T chr3_27780573_A_T chr3_27798199_A_G chr3_27820208_A_G chr3_27843368_A_G rs2618101 rs2618101 rs338616 chr3_28149666_C_T chr3_28149666_C_T chr3_28149666_C_T chr3_28156309_C_T rs925527 rs11705740 chr3_28203966_C_T rs6788643 rs11709034 chr3_28335650_A_G chr3_28422197_A_G rs11717248 chr3_28631107_C_G chr3_28631107_C_G chr3_28687473_A_G chr3_28687473_A_G chr3_28687473_A_G rs1870816 rs6549877 rs1461811 rs17653235 rs6549883 chr3_28869733_A_G chr3_28989612_G_T chr3_29017757_A_G rs474161 chr3_29251548_A_G rs4680812 rs6770284 rs7431530 chr3_29394976_G_T chr3_29422997_C_T rs4377455 rs9835541 chr3_29483373_A_G rs9310899 rs3773024 rs12489361

genotype difference Col_33_CB Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_59_TS Col_33_IF Col_33_TS Col_12_CB Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_CB Col_38_CB Col_33_IF Col_34_IF Col_52_IF Col_12_IF Col_16_TS Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_52_IF Col_12_TS Col_33_IF Col_52_TS Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_52_CB Col_16_TS Col_33_IF Col_33_IF Col_16_TS Col_52_IF Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF

RI PT


Marker ID

89

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP BOT MINUS TOP TOP TOP TOP BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT TOP PLUS TOP TOP TOP TOP TOP BOT TOP MINUS BOT BOT BOT BOT TOP TOP BOT TOP TOP BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT TOP BOT BOT BOT TOP

[A/G] [A/G] [A/G] [A/G] [T/C] [I/D] [A/C] [A/G] [A/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [C/G] [T/C] [A/G] [D/I] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/C] [D/I] [T/C] [T/C] [T/C] [T/C] [A/C] [A/G] [T/G] [A/G] [A/G] [T/C] [A/C] [T/C] [T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [T/A] [T/A] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

29585324 29641658 29761506 29877387 29907479 29911254 29995340 30153132 30175885 30192906 30197661 30209784 30210392 30234301 30234766 30235221 30252123 30252123 30252515 30260454 30263989 30354360 30371233 30447161 30460903 30571935 30625123 30784486 30784486 30860012 30862962 30870256 30871224 30883830 31018965 31061561 31173171 31173171 31179339 31541869 31804842 32092872 32092872 32120106 32154422 32205940 32401993 32704457 33182052 33321616 33453720 33531800 33659426 33730875 33745827 33801024 33824031 33824031 34183065 34270550

SC

M AN U TE D

AC C

EP

rs9861213 chr3_29641658_C_T rs1371844 chr3_29877387_A_G chr3_29907479_C_T chr3_29911255_A_INDEL rs1449295 rs34045576 rs6778417 rs12629933 chr3_30197661_C_T chr3_30209784_C_T chr3_30210392_A_G chr3_30234301_C_T chr3_30234766_A_G rs1036308 rs17025096 rs17025096 rs9851923 chr3_30260454_A_G chr3_30263989_C_T rs11129397 chr3_30371233_C_G chr3_30447161_C_T rs4279142 rs66638612 rs7648529 chr3_30784486_C_T chr3_30784486_C_T chr3_30860012_C_T chr3_30862962_C_T rs11129425 rs5004864 chr3_30883830_G_INDEL chr3_31018965_C_T chr3_31061561_C_T rs11925641 rs11925641 rs1485916 rs7641067 rs2168422 rs12488844 rs12488844 rs4955237 rs13061945 rs11129500 rs11129517 rs9864339 rs7623768 rs7626634 rs12493761 rs6781106 chr3_33659426_A_T chr3_33730875_A_T rs9839042 rs3934853 chr3_33824031_C_T chr3_33824031_C_T corect_rs116539206 rs4678665

genotype difference Col_33_IF Col_33_IF Col_38_IF Col_16_CB Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_08_CB Col_45_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_38_CB Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_38_TS Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_52_IF Col_33_IF Col_38_CB

RI PT


Marker ID

90

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP PLUS TOP BOT TOP PLUS PLUS TOP BOT BOT TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP

[A/G] [T/C] [T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/G] [A/G] [T/C] [A/C] [A/G] [I/D] [A/G] [T/C] [A/G] [D/I] [D/I] [A/G] [T/G] [T/C] [A/C] [A/C] [A/C] [T/A] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/A] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

34500346 34684572 34684572 34688851 34698297 34708263 34778581 35199092 35263550 35263550 35296489 35298744 35377428 35390220 35486613 35509452 35580968 35692163 35694744 35711184 35713837 35799942 35810749 35925852 35925852 36015107 36033247 36285604 36318161 36352364 36388644 36751806 36831937 36873285 36898991 36953043 37092337 37323142 37526013 38237514 38298405 38327292 38365841 38461279 38590275 38830893 38842907 38842907 38942618 39427713 39509440 39813422 39940997 40012079 40188936 40188936 40188936 40236723 40249244 40301504

SC

M AN U TE D

AC C

EP

rs9875352 chr3_34684572_C_T chr3_34684572_C_T rs2216180 rs13075731 rs13061601 chr3_34778581_C_T chr3_35199092_A_G corect_rs192853736 corect_rs192853736 chr3_35296489_C_T rs4678757 chr3_35377428_A_G rs4086242 rs13322664 rs17033272 rs6787053 rs9311103 chr3_35694744_A_G chr3_35711184_INDEL_T rs4678791 rs6550369 chr3_35810749_A_G chr3_35925852_C_INDEL chr3_35925852_C_INDEL chr3_36015107_A_G rs9850040 rs17034665 rs73066129 rs2046000 rs6807628 chr3_36751806_A_T chr3_36831937_C_T chr3_36873285_A_G chr3_36898991_C_T rs11709254 chr3_37092337_A_G chr3_37323142_C_T rs6550478 chr3_38237514_G_T chr3_38298405_C_T rs4679028 rs6792261 rs13085153 rs41315485 rs4676595 chr3_38842907_C_T chr3_38842907_C_T rs4374473 chr3_39427713_C_T rs1768190 chr3_39813422_A_G rs13060185 rs1599004 rs4676471 rs4676471 rs4676471 rs9311235 rs1344189 chr3_40301504_C_T

genotype difference Col_38_TS Col_08_TS Col_38_CB Col_33_IF Col_38_CB Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_38_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_16_TS Col_33_IF Col_33_CB Col_33_IF Col_08_TS Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_12_CB Col_45_IF Col_38_CB Col_45_IF Col_16_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_TS Col_38_CB Col_52_IF Col_33_IF Col_52_CB Col_33_IF

RI PT


Marker ID

91

IlmnStrand

SNP

Chr

MapInfo

TOP TOP MINUS MINUS BOT BOT BOT TOP TOP TOP BOT TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT TOP TOP BOT BOT TOP TOP BOT TOP TOP BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT

[A/G] [A/C] [D/I] [D/I] [T/G] [T/G] [T/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/G] [T/G] [A/C] [A/C] [T/C] [T/G] [T/G] [T/C] [A/C] [T/G] [A/C] [A/G] [A/G] [A/G] [T/G] [T/G] [T/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/C] [T/G] [T/G] [A/G] [A/C] [T/C] [A/C] [A/G] [T/G] [T/A] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

40465884 40595426 40722028 40722028 40758560 40758560 40758560 40759912 40851608 40855937 40952167 40976480 41057865 41057865 41258307 41258307 41279440 41339984 41339984 41379517 41618420 41630175 41667545 42274243 42447587 42447587 42455807 42492513 42492513 42713014 42726064 42832979 42849818 42857757 43184573 43213787 43276146 43946897 43968796 44015285 44131189 44137919 44358525 44503633 44839350 45759654 45830886 46234073 46239220 46295777 46346874 46352908 46906593 47279697 47281637 47652795 47780965 47912703 48241930 48643891

SC

M AN U TE D

AC C

EP

rs11921197 rs11915318 chr3_40722028_AAC_INDEL chr3_40722028_AAC_INDEL rs76307802 rs76307802 rs76307802 rs9853518 rs75275737 corect_rs115468628 chr3_40952167_A_G rs2371346 rs6599134 rs6599134 rs11129892 rs11129892 rs4135385 rs17055247 rs17055247 rs880603 rs1691986 chr3_41630175_G_T rs4973978 rs12152415 chr3_42447587_C_T chr3_42447587_C_T corect_rs185971465 rs11717603 rs11717603 rs9647353 rs339703 rs13061576 rs6779561 rs17317763 rs9848231 chr3_43213787_C_T chr3_43276146_C_T rs7612822 rs6441805 rs6806526 chr3_44131189_A_G chr3_44137919_A_G chr3_44358525_A_C rs6441845 chr3_44839350_A_C rs2673028 rs7644870 rs11918542 rs73830796 rs6441948 rs11712150 rs62244806 chr3_46906593_C_T chr3_47279697_A_G rs6798440 rs1014229 kgp3632844 chr3_47912703_A_G chr3_48241930_A_G rs17080289

genotype difference Col_12_IF Col_33_IF Col_16_TS Col_34_CB Col_16_TS Col_38_TS Col_52_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_59_IF Col_33_IF Col_33_CB Col_38_TS Col_34_TS Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_38_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

92

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

PLUS BOT TOP TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT PLUS BOT TOP BOT BOT TOP BOT BOT BOT TOP TOP TOP BOT TOP BOT BOT BOT TOP BOT TOP TOP BOT BOT TOP BOT MINUS TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT

[D/I] [T/C] [A/G] [A/G] [T/C] [T/C] [T/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/G] [T/C] [T/C] [T/C] [I/D] [T/C] [A/G] [T/G] [T/C] [A/C] [T/C] [T/C] [T/C] [A/C] [A/G] [A/G] [T/G] [A/G] [T/C] [T/C] [T/C] [A/G] [G/C] [A/G] [A/G] [T/G] [T/C] [A/G] [T/C] [I/D] [A/G] [A/G] [A/G] [A/G] [T/G] [A/G] [T/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/C] [T/A] [T/C] [T/C]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

49575138 50093209 50332378 50332378 50849368 50932324 50971599 51245578 51342947 51356823 51508158 51663912 52070955 52537408 52831009 52968726 53013207 53024022 53379453 53495847 53805023 54117849 54129143 54159417 54417839 54446376 54447789 54447789 54622000 54816469 54889044 54966536 54966536 55038279 55056859 55062852 55062852 55232588 55235377 55531267 55539560 55613354 55653812 55803332 55932827 56028793 56264451 56411332 56432160 56453197 56683066 56702553 56760277 56954521 57080938 57414117 57414330 57493410 58423288 58543512

SC

M AN U

TE D

chr3_49575138_INDEL_TTTCT chr3_50093209_A_G exm317665 exm317665 rs9869945 rs11130263 chr3_50971599_A_C rs4367100 chr3_51342947_A_G chr3_51356823_C_T chr3_51508158_A_G chr3_51663912_A_G rs9848727 chr3_52537408_C_T rs2240920 rs2257216 chr3_53013208_A_INDEL rs6798309 rs11925433 rs555480 rs9881910 rs1449334 rs6768219 rs9881544 rs6778504 corect_rs115762232 rs7638153 rs7638153 rs1851046 rs4955894 chr3_54889044_C_T chr3_54966536_A_G chr3_54966536_A_G rs2138398 chr3_55056859_C_G rs358055 rs358055 rs9857899 rs6793267 rs557077 rs1795651 chr3_55613355_A_INDEL rs17055518 rs9852746 chr3_55932827_A_G rs9809605 chr3_56264451_G_T rs11923975 rs10212434 rs9815821 exm325107 chr3_56702553_C_T chr3_56760277_A_G chr3_56954521_A_G rs755871 exm325639 rs11915740 chr3_57493410_A_T rs11130643 rs12488633

genotype difference Col_52_CB Col_12_CB Col_08_TS Col_38_TS Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_52_CB Col_12_CB Col_33_IF Col_12_CB Col_52_CB Col_33_CB Col_33_IF Col_52_IF Col_33_IF Col_34_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_38_CB Col_52_IF Col_33_IF Col_12_TS Col_33_IF Col_16_TS Col_38_TS Col_33_IF Col_33_IF Col_16_TS Col_38_TS Col_12_TS Col_52_CB Col_33_CB Col_38_TS Col_33_CB Col_12_CB Col_12_CB Col_59_TS Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB

RI PT


Marker ID

93

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP BOT TOP BOT TOP BOT BOT BOT BOT TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT TOP TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT

[A/G] [A/C] [T/G] [T/C] [T/C] [T/G] [T/C] [T/C] [T/G] [A/G] [T/C] [T/C] [A/G] [T/G] [A/G] [T/C] [A/G] [T/C] [T/G] [T/C] [T/G] [A/G] [A/C] [T/C] [G/C] [G/C] [A/G] [T/C] [T/C] [T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/G] [A/G] [A/G] [A/G] [A/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/T] [T/G] [A/C] [A/C] [T/G] [A/G] [A/G] [A/C] [A/G] [A/G] [T/A] [T/C] [G/C]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

58560625 58970958 59318138 59474911 59501351 59506755 59730239 59730239 59733262 59736299 59898962 59973302 60091796 60152814 60194059 60194570 60260223 60267052 60339499 60351746 60353622 60491503 60575784 60613659 60679298 60679298 60689476 60720891 61004965 61027643 61081536 61348592 61509137 61586124 61624478 61662996 61708608 61751127 61924199 61953101 62000476 62012687 62046468 62053586 62069750 62659132 62693396 62760326 62803545 62826497 62964824 62979757 62984179 62984179 63372279 63501674 63501674 63501695 63502356 63503884

SC

M AN U TE D

AC C

EP

chr3_58560625_C_T rs2086195 rs6808731 rs7626018 rs12629410 chr3_59506755_A_C chr3_59730239_A_G chr3_59730239_A_G chr3_59733262_A_C chr3_59736299_C_T rs4679622 rs3772497 chr3_60091796_A_G chr3_60152814_A_C rs213322 rs213323 rs213347 rs12487741 chr3_60339499_G_T rs6786100 rs12489534 rs6783802 rs73093567 rs7633853 chr3_60679298_C_G chr3_60679298_C_G rs9861551 chr3_60720891_C_T rs17064316 chr3_61027643_A_C rs9820971 rs9826581 rs7427981 rs12715572 chr3_61624478_C_T chr3_61662996_A_G rs7637558 rs7648560 rs1479401 chr3_61953101_C_T rs6804425 rs7434122 chr3_62046468_C_T rs2107557 rs2526424 chr3_62659132_A_G rs4688139 chr3_62760326_A_T rs7610255 rs304185 chr3_62964824_A_C rs11719211 chr3_62984179_C_T chr3_62984179_C_T rs59068131 chr3_63501674_A_G chr3_63501674_A_G chr3_63501695_A_T chr3_63502356_C_T chr3_63503884_C_G

genotype difference Col_38_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_38_CB Col_12_CB Col_52_CB Col_33_IF Col_16_IF Col_33_IF Col_12_CB Col_33_CB Col_52_CB Col_52_IF Col_33_IF Col_12_CB Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_16_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

94

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP TOP BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT TOP TOP BOT TOP BOT MINUS BOT TOP BOT BOT TOP TOP TOP BOT TOP BOT BOT BOT TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP BOT TOP BOT TOP TOP TOP BOT TOP BOT

[A/G] [G/C] [T/C] [A/C] [A/C] [T/C] [T/C] [T/A] [A/G] [T/C] [A/G] [A/G] [A/G] [T/A] [T/G] [T/G] [A/G] [A/G] [T/A] [A/C] [T/G] [I/D] [T/C] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

63504600 63524804 63543345 63654362 63728571 63841228 63841228 63842221 63881091 63936281 63943984 63943984 64005452 64038816 64059211 64059211 64080489 64166741 64254336 64274183 64309551 64409363 64424271 64497351 64548968 64621779 64650587 64650587 64650587 64801187 64842960 64920084 64958608 64958608 65053239 65206583 65597953 65697014 65986180 66285824 66293480 66297309 66298941 66319769 66320080 66321079 66321079 66329571 66346834 66349071 66387105 66454296 66541666 66581197 66605129 66634175 66759545 66833437 66914689 67293110

SC

M AN U TE D

AC C

EP

rs11708840 chr3_63524804_C_G rs13097916 rs11718760 rs7635168 chr3_63841228_C_T chr3_63841228_C_T chr3_63842221_A_T chr3_63881091_A_G chr3_63936281_C_T chr3_63943984_A_G chr3_63943984_A_G chr3_64005452_C_T chr3_64038816_A_T chr3_64059211_G_T chr3_64059211_G_T rs14056 rs697277 chr3_64254336_A_T rs704423 rs1462744 chr3_64409363_INDEL_TGTT rs1443513 rs4688470 chr3_64548968_C_T rs7652820 rs13085838 rs13085838 rs13085838 rs998394 chr3_64842960_A_G chr3_64920084_A_G chr3_64958608_C_T chr3_64958608_C_T corect_rs139836816 rs6768701 rs4407359 rs11922649 rs4688258 rs36147484 rs2311298 rs1680397 rs77090316 rs75934158 rs332341 corect_rs114804865 corect_rs114804865 rs13083304 rs782746 rs782750 rs74842464 rs13093856 rs78767823 rs75765056 corect_rs146496074 corect_rs116060256 rs9873886 rs6768767 rs7648743 chr3_67293110_C_T

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_52_IF Col_33_IF Col_38_IF Col_16_TS Col_38_TS Col_33_IF Col_12_CB Col_33_CB Col_16_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_38_IF Col_33_IF Col_38_CB Col_45_IF Col_52_IF Col_33_CB Col_16_IF Col_12_CB Col_52_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_IF Col_34_TS Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_CB

RI PT


Marker ID

95

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP BOT BOT BOT TOP BOT BOT BOT TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT BOT BOT BOT TOP BOT TOP BOT TOP BOT BOT BOT BOT TOP TOP BOT BOT BOT TOP BOT BOT BOT TOP TOP BOT TOP BOT TOP TOP TOP BOT BOT TOP BOT BOT TOP TOP BOT BOT TOP

[A/C] [T/C] [T/G] [A/C] [T/C] [T/C] [T/C] [A/C] [T/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/G] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/G] [A/C] [T/C] [T/C] [T/C] [T/A] [A/G] [A/G] [T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [A/G] [A/C] [T/C] [A/T] [T/C] [A/G] [C/G] [A/G] [T/C] [T/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

67293492 67294593 67449926 67450230 67452891 67497589 67584363 67615531 67833293 68257048 68457521 68542647 68561209 68594889 68594889 69117097 69126495 69222863 69328971 69406469 69572321 69621800 69647242 69927382 69944306 69993313 70015647 70285244 70300475 70307605 70333089 70417993 70529408 70626360 70626360 70627634 70627634 70627634 70839752 71024676 71025076 71235982 71236128 71389142 71398494 71410024 71821490 72050367 72887108 73088632 73167031 73363208 73394114 73566832 73699557 73721258 73756870 73987905 74064614 74131709

SC

M AN U TE D

AC C

EP

chr3_67293492_G_T chr3_67294593_A_G chr3_67449926_A_C rs1552626 rs1352656 chr3_67497589_C_T rs11919650 rs1028950 chr3_67833293_G_T rs1388495 rs9833308 rs7653709 rs2665551 rs2137182 rs2137182 chr3_69117097_A_G rs3853156 rs4473559 rs9847661 rs2008239 chr3_69572321_A_C rs1121758 chr3_69647242_A_G chr3_69927382_A_G corect_rs116722366 rs13072665 rs2131025 rs6790613 rs12486303 rs7616565 chr3_70333089_A_G rs13314351 chr3_70529408_A_T rs7628219 rs7628219 chr3_70627634_A_G chr3_70627634_A_G chr3_70627634_A_G rs10511012 chr3_71024676_C_T rs6781897 chr3_71235982_C_T chr3_71236128_C_T rs1300170 rs1997479 rs11720350 rs6782813 chr3_72050367_A_G rs77407285 chr3_73088632_A_G rs1552688 rs1482171 chr3_73394114_C_T rs11128343 rs9834016 rs4599238 rs13060404 rs11718192 chr3_74064614_A_G rs79273964

genotype difference Col_34_IF Col_12_CB Col_38_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_38_TS Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_CB Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_08_TS Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_59_TS Col_16_TS Col_38_CB Col_52_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

96

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT MINUS BOT BOT TOP BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP

[A/C] [A/G] [T/C] [T/G] [T/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [I/D] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/G] [C/G] [A/G] [T/A] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/C] [A/C] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/G] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [A/G]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

74168617 74213573 74236743 74490422 74620076 74669407 74965601 75109887 75195743 75202547 75202547 75224330 75243988 75244137 75374095 75861696 75963686 75965758 75965758 76077143 76103687 76159352 76159821 76281716 76313793 76313793 76447667 76456239 76702186 76780491 76780491 76897232 76910935 76954084 76972804 76992952 77031939 77114928 77231394 77244307 77320482 77382285 77604690 77608880 77608880 77608880 77650799 77672006 77675638 78012759 78027530 78121394 78121394 78121394 78434843 78620239 78625338 78625338 78756044 78756044

SC

M AN U TE D

AC C

EP

rs1440629 rs6799162 chr3_74236743_C_T rs6549595 chr3_74620076_G_T chr3_74669407_A_G chr3_74965601_A_G chr3_75109887_A_G rs11928892 rs9841544 rs9841544 chr3_75224330_A_G chr3_75243989_A_INDEL chr3_75244137_C_T rs6768580 rs7633390 rs4856024 chr3_75965758_C_T chr3_75965758_C_T rs679219 rs9868043 chr3_76159352_C_G chr3_76159821_A_G chr3_76281716_A_T chr3_76313793_C_T chr3_76313793_C_T rs9815217 rs3849483 rs2121791 rs6808931 rs6808931 chr3_76897232_A_G rs3911526 rs1166992 rs9827948 rs9858491 chr3_77031939_A_G rs7640155 corect_rs114775147 rs17820386 rs13064976 rs13323053 rs10514734 chr3_77608880_C_T chr3_77608880_C_T chr3_77608880_C_T rs1666125 chr3_77672006_C_T rs876675 rs17775669 chr3_78027530_A_C chr3_78121394_A_G chr3_78121394_A_G chr3_78121394_A_G rs11920974 rs11127627 chr3_78625338_C_T chr3_78625338_C_T chr3_78756044_C_T chr3_78756044_C_T

genotype difference Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_45_TS Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_12_CB Col_16_IF Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_38_CB Col_38_CB Col_12_CB Col_33_IF Col_33_IF Col_38_IF Col_38_TS Col_16_IF Col_38_IF Col_12_IF Col_33_IF Col_52_CB Col_33_IF Col_33_CB Col_38_TS Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_52_TS Col_38_CB Col_52_IF Col_59_TS Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_38_IF Col_52_TS Col_16_TS Col_33_IF Col_34_TS Col_52_IF Col_33_CB Col_38_TS

RI PT


Marker ID

97

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT TOP BOT TOP BOT BOT BOT TOP

[T/G] [T/A] [A/G] [A/G] [T/C] [T/A] [T/A] [A/G] [T/G] [T/G] [T/G] [A/C] [T/G] [T/G] [A/T] [A/C] [T/C] [T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/T] [T/C] [T/C] [T/C] [T/C] [T/G] [T/G] [A/G] [A/C] [T/G] [T/C] [T/C] [T/G] [T/C] [A/G] [A/C] [A/C] [C/G] [A/C] [A/G] [T/C] [A/G] [T/C] [A/C] [T/G] [T/G] [T/G] [A/G]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

78757783 78830840 79077887 79077887 79104209 79160979 79160979 79190911 79206820 79206820 79206820 79208412 79210610 79210610 79226017 79227552 79239033 79278099 79312185 79412870 79461529 79493603 79562067 79662284 79674538 79696496 79737657 79757107 79988626 80013246 80013246 80124685 80181655 80242147 80265153 80294041 80696606 80713938 80713938 80734996 80785415 80859757 80961543 80961543 80973816 81061928 81096365 81136951 81763410 82077244 82249474 82391706 82398445 82436358 82447707 82488254 82562418 82562418 82562418 82596134

SC

M AN U TE D

AC C

EP

chr3_78757783_A_C chr3_78830840_A_T rs6766522 rs6766522 rs7625358 chr3_79160979_A_T chr3_79160979_A_T rs7631687 chr3_79206820_G_T chr3_79206820_G_T chr3_79206820_G_T chr3_79208412_A_C chr3_79210610_G_T chr3_79210610_G_T chr3_79226017_A_T rs11925923 corect_rs188240989 chr3_79278099_C_T chr3_79312185_A_C chr3_79412870_A_G rs4680962 rs6803667 rs9880584 chr3_79662284_A_G rs9881556 rs78619763 rs7427034 rs7433871 corect_rs140888029 rs9810312 rs9810312 rs9823341 chr3_80181655_A_T rs12493467 chr3_80265153_A_G rs6795725 rs6775791 rs658551 rs658551 rs78907739 rs13078019 rs7642458 chr3_80961543_A_G chr3_80961543_A_G chr3_80973816_A_C rs13067126 rs2639280 chr3_81136951_G_T rs7623056 chr3_82077244_C_G rs4384977 kgp3105803 kgp7187042 chr3_82436358_C_T chr3_82447707_C_T rs9309903 rs6788150 rs6788150 rs6788150 rs1463336

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_CB Col_16_TS Col_38_CB Col_33_CB Col_34_IF Col_52_IF Col_12_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_52_IF Col_33_IF Col_52_CB Col_33_IF Col_33_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_45_IF Col_33_IF Col_33_CB Col_33_IF Col_38_IF Col_52_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_16_IF Col_38_CB Col_52_IF Col_33_IF

RI PT


Marker ID

98

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP BOT BOT TOP TOP MINUS

[T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [G/C] [G/C] [T/G] [T/C] [T/C] [T/C] [T/C] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/G] [T/G] [T/G] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [A/T] [A/T] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/G] [A/G] [T/C] [T/C] [A/G] [A/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/G] [T/C] [C/G] [C/G] [D/I]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

82625877 82642734 82749782 82768479 82973130 83102322 83102322 83192826 83283699 83283699 83501948 83794919 83794919 83794919 83794919 83873179 83907981 83907981 83997097 83997097 84108706 84173079 84494692 84495097 84628663 84738400 84738400 84738400 84806803 84829109 84887157 84887157 84930139 85040204 85051235 85051235 85076092 85406367 85457240 85509457 85551820 85592228 85603643 85661265 85687552 85798932 85799283 85903031 85986720 86118206 86254241 86255672 86271772 86271772 86278951 86321544 86381883 86418285 86496853 86678229

SC

M AN U TE D

AC C

EP

rs879794 rs7647242 rs12494363 chr3_82768479_C_T rs9869425 corect_rs115775782 corect_rs115775782 corect_rs142268169 corect_rs115986364 corect_rs115986364 rs1376967 corect_rs114764049 corect_rs114764049 corect_rs114764049 corect_rs114764049 rs62258019 rs7628076 rs7628076 chr3_83997097_C_T chr3_83997097_C_T rs12639222 chr3_84173079_A_G rs9881708 rs4348007 corect_rs147385280 rs4528958 rs4528958 rs4528958 rs17501615 rs9309963 rs1146755 rs1146755 rs9847448 rs17022167 chr3_85051235_A_T chr3_85051235_A_T chr3_85076092_A_G rs12498010 rs62250685 rs79136328 rs12638798 chr3_85592228_C_T rs7652808 rs11928368 rs9860249 chr3_85798932_C_T rs34666213 rs3901898 rs9812103 rs17024876 chr3_86254241_A_G rs7428796 rs1913188 rs1913188 rs13063456 corect_rs71318651 rs1170214 chr3_86418285_C_G rs80198339 rs68175845

genotype difference Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_45_CB Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_16_TS Col_38_CB Col_45_IF Col_12_IF Col_16_TS Col_38_CB Col_59_TS Col_33_CB Col_38_CB Col_12_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_38_CB Col_59_TS Col_12_IF Col_33_IF Col_33_IF Col_38_CB Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_34_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_16_TS Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_CB Col_38_IF Col_12_IF Col_33_IF Col_38_CB Col_33_IF Col_52_CB Col_33_IF Col_16_IF

RI PT


Marker ID

99

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP TOP PLUS TOP TOP TOP TOP TOP TOP BOT TOP TOP BOT TOP TOP TOP TOP BOT TOP BOT TOP TOP TOP BOT BOT TOP BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT TOP TOP TOP TOP BOT BOT TOP BOT TOP TOP PLUS TOP TOP TOP BOT TOP PLUS PLUS TOP BOT BOT

[A/C] [T/C] [T/G] [A/G] [A/G] [D/I] [A/G] [A/C] [A/G] [A/C] [A/C] [A/G] [T/C] [C/G] [C/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/G] [A/G] [T/C] [T/C] [A/T] [A/G] [A/G] [A/G] [T/G] [A/C] [T/C] [T/G] [A/C] [A/C] [A/C] [A/C] [T/A] [T/G] [A/G] [T/C] [A/G] [A/G] [D/I] [A/C] [A/C] [A/G] [T/C] [C/G] [D/I] [D/I] [A/G] [T/C] [T/C]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

86693504 86763610 86841601 86845934 86845934 86890565 86908387 86916026 86937114 86955570 86955570 86967150 86996332 87019033 87033559 87037978 87047899 87047899 87048311 87055061 87062942 87065836 87079981 87089576 87089576 87094995 87104547 87104547 87104899 87110467 87110467 87114893 87115233 87115233 87123952 87131541 87131812 87134412 87134948 87139842 87139842 87139842 87139842 87140008 87140314 87151340 87151623 87161835 87161835 87165863 87171824 87171824 87172005 87172515 87175728 87184135 87184135 87184311 87189024 87195327

SC

M AN U TE D

AC C

EP

rs9829630 chr3_86763610_A_G chr3_86841601_A_C rs12489711 rs12489711 chr3_86890565_G_INDEL chr3_86908387_A_G chr3_86916026_G_T chr3_86937114_A_G chr3_86955570_G_T chr3_86955570_G_T chr3_86967150_A_G chr3_86996332_A_G chr3_87019033_C_G c3_pos87116249 chr3_87037978_C_T chr3_87047899_A_G chr3_87047899_A_G chr3_87048311_A_G rs2196523 chr3_87062942_C_T chr3_87065836_G_T chr3_87079981_C_T chr3_87089576_A_G chr3_87089576_A_G chr3_87094995_C_T chr3_87104547_G_T chr3_87104547_G_T rs17023854 chr3_87110467_C_T chr3_87110467_C_T chr3_87114893_A_T chr3_87115233_C_T chr3_87115233_C_T chr3_87123952_C_T chr3_87131541_A_C c3_pos87214502 chr3_87134412_C_T chr3_87134948_G_T chr3_87139842_G_T chr3_87139842_G_T chr3_87139842_G_T chr3_87139842_G_T chr3_87140008_A_T chr3_87140314_A_C chr3_87151340_A_G chr3_87151623_A_G chr3_87161835_C_T chr3_87161835_C_T chr3_87165863_INDEL_TTG chr3_87171824_G_T chr3_87171824_G_T chr3_87172005_A_G chr3_87172515_C_T chr3_87175728_C_G chr3_87184135_C_INDEL chr3_87184135_C_INDEL chr3_87184311_C_T chr3_87189024_C_T chr3_87195327_A_G

genotype difference Col_33_IF Col_33_IF Col_08_TS Col_16_TS Col_52_IF Col_33_IF Col_33_IF Col_38_CB Col_16_IF Col_16_IF Col_52_TS Col_38_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_CB Col_45_IF Col_33_CB Col_38_TS Col_33_IF Col_33_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_52_IF Col_12_IF Col_52_TS Col_52_CB Col_12_CB Col_52_CB Col_08_TS Col_12_CB Col_52_TS Col_34_IF Col_52_CB Col_33_IF Col_33_IF Col_08_IF Col_16_IF Col_52_IF Col_12_CB Col_08_TS Col_52_IF Col_33_IF Col_33_IF Col_34_IF Col_59_TS Col_52_IF Col_34_CB Col_52_IF Col_12_IF Col_59_TS Col_33_IF Col_08_TS Col_38_CB Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

100

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

MINUS BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP PLUS TOP TOP TOP TOP MINUS TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT PLUS BOT TOP BOT TOP TOP

[I/D] [T/G] [T/C] [A/C] [T/C] [T/C] [T/C] [T/A] [T/C] [G/C] [A/G] [A/G] [A/T] [D/I] [A/G] [A/G] [A/G] [A/G] [I/D] [A/G] [A/G] [T/G] [T/G] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G] [G/C] [A/G] [T/C] [G/C] [C/G] [A/T] [A/C] [A/G] [T/G] [T/C] [T/C] [C/G] [A/G] [A/G] [T/C] [T/C] [T/G] [T/C] [T/C] [A/C] [T/C] [A/G] [T/C] [T/C] [T/G] [D/I] [T/C] [A/G] [T/A] [A/G] [A/G]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

87204483 87204954 87205010 87210094 87215648 87215648 87217117 87220868 87221400 87221962 87223646 87228472 87237221 87238161 87239874 87243559 87243559 87253520 87260580 87263523 87263906 87264474 87271180 87284092 87292053 87293542 87295897 87295897 87298488 87298758 87300476 87301395 87304475 87308553 87311893 87315800 87318787 87323334 87332669 87342944 87345592 87346707 87346735 87347115 87347115 87347739 87352498 87352498 87365769 87367060 87367573 87368022 87369939 87374853 87383341 87395326 87397813 87400130 87427186 87427186

SC

M AN U

TE D

chr3_87204483_INDEL_TTAT chr3_87204954_A_C chr3_87205010_C_T chr3_87210094_G_T chr3_87215648_A_G chr3_87215648_A_G chr3_87217117_C_T chr3_87220868_A_T chr3_87221400_C_T chr3_87221962_C_G rs963622 rs6805890 chr3_87237221_A_T chr3_87238161_GTAACATTTCTT_INDEL chr3_87239874_C_T chr3_87243559_A_G chr3_87243559_A_G chr3_87253520_A_G chr3_87260580_A_INDEL chr3_87263523_A_G chr3_87263906_A_G chr3_87264474_A_C chr3_87271180_A_C chr3_87284092_C_T chr3_87292053_G_T rs2879985 chr3_87295897_A_G chr3_87295897_A_G chr3_87298488_A_G chr3_87298758_C_G chr3_87300476_A_G chr3_87301395_C_T chr3_87304475_C_G chr3_87308553_C_G chr3_87311893_A_T chr3_87315800_A_C chr3_87318787_A_G chr3_87323334_G_T chr3_87332669_A_G chr3_87342944_A_G chr3_87345592_C_G rs13082131 chr3_87346735_A_G chr3_87347115_A_G chr3_87347115_A_G chr3_87347739_G_T chr3_87352498_C_T chr3_87352498_C_T chr3_87365769_G_T chr3_87367060_C_T chr3_87367573_C_T chr3_87368022_C_T chr3_87369939_C_T rs11713655 chr3_87383341_G_INDEL chr3_87395326_A_G chr3_87397813_C_T chr3_87400130_A_T chr3_87427186_C_T chr3_87427186_C_T

genotype difference Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_34_IF Col_52_IF Col_33_IF Col_34_IF Col_33_IF Col_12_CB Col_12_IF Col_33_IF Col_16_TS Col_38_CB Col_33_IF Col_38_CB Col_59_TS Col_33_IF Col_12_CB Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_38_CB Col_16_CB Col_34_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_52_IF Col_16_TS Col_16_IF Col_33_IF Col_52_IF Col_52_TS Col_38_CB Col_52_TS Col_52_IF Col_38_TS Col_52_CB Col_12_IF Col_52_IF Col_52_IF Col_12_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_CB Col_52_CB Col_33_CB Col_33_IF Col_12_CB Col_38_IF Col_12_CB

RI PT


Marker ID

101

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP TOP PLUS BOT BOT BOT BOT TOP MINUS TOP MINUS MINUS TOP BOT PLUS BOT TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT MINUS BOT TOP BOT TOP TOP

[G/C] [T/G] [T/C] [T/C] [T/C] [T/A] [T/A] [A/G] [A/C] [T/C] [A/T] [A/G] [D/I] [T/A] [T/C] [G/C] [T/C] [A/G] [I/D] [A/G] [I/D] [I/D] [A/C] [T/G] [I/D] [T/G] [A/G] [T/G] [T/G] [G/C] [T/C] [A/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/A] [T/G] [T/C] [T/C] [D/I] [T/C] [A/C] [T/A] [A/G] [A/G]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

87428750 87439452 87472145 87475037 87480944 87483848 87483848 87485054 87488369 87489554 87490245 87495550 87517779 87532267 87535571 87535724 87536731 87539393 87539608 87544224 87552286 87552286 87563847 87579179 87581112 87582571 87594454 87614390 87614390 87647967 87673192 87674605 87686989 87693823 87703580 87718469 87718469 87727232 87731302 87731302 87733256 87746555 87750612 87759638 87766543 87766735 87794458 87798972 87800177 87811831 87829052 87836186 87836939 87837810 87841675 87843941 87863197 87864006 87885350 87914294

SC

M AN U TE D

AC C

EP

chr3_87428750_C_G chr3_87439452_G_T chr3_87472145_A_G chr3_87475037_A_G chr3_87480944_A_G chr3_87483848_A_T chr3_87483848_A_T chr3_87485054_C_T chr3_87488369_G_T chr3_87489554_C_T chr3_87490245_A_T rs9834692 chr3_87517779_G_INDEL chr3_87532267_A_T chr3_87535571_C_T chr3_87535724_C_G chr3_87536731_C_T chr3_87539393_C_T chr3_87539617_A_INDEL chr3_87544224_A_G chr3_87552293_INDEL_T chr3_87552293_INDEL_T chr3_87563847_A_C chr3_87579179_G_T chr3_87581112_AT_INDEL chr3_87582571_A_C rs4858963 rs993407 rs993407 chr3_87647967_C_G chr3_87673192_A_G chr3_87674605_A_C chr3_87686989_A_G chr3_87693823_A_G chr3_87703580_A_G chr3_87718469_C_T chr3_87718469_C_T chr3_87727232_A_C chr3_87731302_C_T chr3_87731302_C_T rs9843580 chr3_87746555_A_G chr3_87750612_C_T chr3_87759638_A_G rs6769025 rs4547727 chr3_87794458_A_G chr3_87798972_A_G chr3_87800177_C_T chr3_87811831_A_G chr3_87829052_A_T chr3_87836186_A_C chr3_87836939_C_T chr3_87837810_C_T chr3_87841675_GAG_INDEL chr3_87843941_C_T chr3_87863197_A_C chr3_87864006_A_T chr3_87885350_A_G rs7647226

genotype difference Col_33_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_12_CB Col_33_CB Col_34_TS Col_59_TS Col_33_CB Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_38_CB Col_33_IF Col_12_TS Col_33_IF Col_52_IF Col_33_IF Col_34_CB Col_12_CB Col_33_IF Col_16_TS Col_52_TS Col_52_TS Col_33_IF Col_38_TS Col_33_IF Col_16_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_33_IF

RI PT


Marker ID

102

IlmnStrand

SNP

Chr

MapInfo

MINUS PLUS TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP BOT TOP TOP TOP TOP TOP BOT BOT TOP PLUS PLUS TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP

[D/I] [D/I] [A/C] [A/G] [A/C] [A/G] [A/G] [A/C] [A/G] [A/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [T/C] [T/G] [A/G] [A/G] [T/G] [A/C] [A/C] [A/G] [A/G] [A/G] [T/G] [T/C] [A/G] [I/D] [I/D] [A/G] [A/G] [A/C] [T/G] [T/C] [T/C] [T/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/T] [T/C] [T/C] [T/C] [T/G] [T/C] [A/G] [A/C]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

87914655 87915968 87926852 88092679 88206531 88287719 88287719 88301893 88461825 88532455 88933154 89103302 89237309 90030538 90118156 90402558 90428286 93923642 94010621 94202010 94239587 94454528 94454528 94500476 94800969 94803053 94869452 94896920 94953355 95064285 95064285 95080377 95156135 95159211 95186258 95257932 95435329 95519536 95760926 95773241 95910584 95912978 96049190 96216144 96442435 96577828 96577828 96720266 96874360 96959048 96959048 96959048 97025684 97103648 97188153 97212542 97376223 97386798 97443050 97526218

SC

M AN U TE D

AC C

EP

chr3_87914655_INDEL_TGAC chr3_87915968_GC_INDEL chr3_87926852_A_C rs2033389 kgp8020644 rs6419870 rs6419870 chr3_88301893_A_C rs1458006 rs4859036 chr3_88933154_C_T rs1496504 chr3_89237309_C_T rs11128078 rs12631097 rs9856545 rs9714342 rs12695630 chr3_94010621_A_G rs9871395 chr3_94239587_G_T chr3_94454528_A_C chr3_94454528_A_C rs13321334 rs75912299 rs10933879 rs2310773 rs9814404 rs9870724 chr3_95064286_A_INDEL chr3_95064286_A_INDEL rs523450 rs12493110 rs9847422 rs6437879 chr3_95257932_C_T chr3_95435329_A_G rs6780568 rs9990104 rs7615218 chr3_95910584_C_T rs9860584 rs1473914 rs326308 rs1395769 chr3_96577828_C_T chr3_96577828_C_T chr3_96720266_A_G rs2221205 kgp8880772 kgp8880772 kgp8880772 chr3_97025684_A_T kgp8705283 rs6784670 chr3_97212542_C_T rs301957 rs1009521 rs4257593 chr3_97526218_A_C

genotype difference Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_16_CB Col_52_IF Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_38_TS Col_52_CB Col_52_IF Col_08_IF Col_52_IF Col_52_CB Col_38_TS Col_33_IF Col_38_CB Col_52_CB Col_33_IF Col_52_IF Col_33_IF Col_52_IF Col_33_IF Col_16_CB Col_16_TS Col_33_IF Col_33_IF Col_16_IF Col_38_CB Col_12_CB Col_52_IF Col_33_IF Col_16_TS Col_38_TS Col_52_IF Col_33_IF Col_16_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_59_TS Col_33_IF

RI PT


Marker ID

103

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP BOT BOT BOT TOP TOP BOT BOT BOT PLUS TOP BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT TOP BOT TOP BOT BOT TOP BOT BOT BOT TOP TOP TOP TOP

[T/C] [A/C] [A/G] [T/C] [T/C] [T/C] [A/C] [A/C] [T/C] [T/C] [T/C] [I/D] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [G/C] [T/G] [A/G] [T/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

97536006 97704434 97767182 97784559 97784559 97885241 97942333 97942333 97983942 98019629 98208873 98250078 98273979 98292683 98298600 98433611 98541633 98573580 98635705 98639447 98822132 98835121 98969611 98987607 99006939 99056994 99167704 99259950 99266122 99345189 99401638 99416121 99425356 99462647 99505610 99584429 99639125 99639125 99807735 99807735 99884509 99884509 99954721 99954721 99976007 99998531 100085556 100225478 100354857 100367773 100568577 100605206 100616136 100668763 100811177 100886622 101038128 101038128 101232736 101279006

SC

M AN U TE D

AC C

EP

rs906120 rs6780855 rs832049 rs6764595 rs6764595 rs4857079 rs2316298 rs2316298 rs9853906 rs13100068 rs10935405 chr3_98250078_INDEL_T rs9827866 rs1675511 rs7103 rs828588 rs828618 chr3_98573580_C_T chr3_98635705_A_G chr3_98639447_C_T rs1880285 rs4928196 rs13074381 rs6800453 rs975276 rs6798863 chr3_99167704_A_G chr3_99259950_A_G rs10514745 chr3_99345189_A_G rs1717608 chr3_99416121_A_C chr3_99425356_A_G rs792829 rs793497 chr3_99584429_A_G chr3_99639125_C_T chr3_99639125_C_T chr3_99807735_A_G chr3_99807735_A_G rs9875878 rs9875878 rs6802765 rs6802765 rs10936147 rs62636640 rs277641 rs12639465 chr3_100354857_G_T chr3_100367773_C_T chr3_100568577_C_T rs1987384 rs2245473 rs2576389 chr3_100811177_C_T rs6771745 chr3_101038128_C_T chr3_101038128_C_T rs6772703 rs7641261

genotype difference Col_38_IF Col_33_IF Col_33_IF Col_38_CB Col_52_IF Col_12_TS Col_45_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_16_IF Col_33_IF Col_33_CB Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_34_IF Col_38_TS Col_33_IF Col_33_IF Col_16_IF Col_52_IF Col_33_IF Col_33_CB Col_33_IF Col_38_IF Col_12_CB Col_38_IF Col_12_IF Col_33_IF Col_52_IF Col_16_TS Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_45_TS Col_33_IF Col_38_CB

RI PT


Marker ID

104

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP BOT TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT BOT TOP BOT BOT BOT TOP BOT TOP PLUS BOT PLUS TOP

[T/C] [A/C] [A/C] [T/C] [A/G] [A/T] [A/G] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/C] [T/C] [A/C] [T/C] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [A/G] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/C] [T/C] [A/G] [A/G] [G/C] [G/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [I/D] [T/C] [D/I] [A/G]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

101304158 101507015 101723923 101743276 101810454 102068565 102120256 102219242 102228007 102228007 102585782 102598113 102598113 102599596 102651062 102734905 102734905 102840677 102987551 103079255 103203766 103212725 103212725 103212869 103362034 103468070 103735921 103799963 103801180 103801180 104017741 104019345 104103488 104135554 104289464 104290380 104364093 104364093 104394259 104396611 104396611 104422636 104493257 104616256 104623906 104638535 104642024 104642024 104652489 104722931 104748323 104779927 104973471 105010890 105025495 105082175 105288382 105439522 105549896 105673976

SC

M AN U

TE D

chr3_101304158_C_T rs11916199 rs2943306 chr3_101743276_C_T chr3_101810454_C_T chr3_102068565_A_T chr3_102120256_A_G chr3_102219242_C_T rs9861714 rs9861714 rs1546208 rs1241287 rs1241287 rs4856107 chr3_102651062_A_G chr3_102734905_A_G chr3_102734905_A_G rs3849514 rs16846093 rs6788478 rs1584440 rs73150952 rs73150952 corect_rs114697212 chr3_103362034_A_C rs1457830 chr3_103735921_A_C chr3_103799963_A_G rs1731649 rs1731649 rs17434624 rs2895281 rs17369659 rs9871458 rs6437523 rs9870668 chr3_104364093_C_T chr3_104364093_C_T rs811376 rs777929 rs777929 rs2633650 rs6809018 rs1436350 rs12630650 rs6786803 chr3_104642024_C_G chr3_104642024_C_G rs7432288 rs17452316 rs9288798 chr3_104779927_C_T rs2971376 rs9810233 rs12495293 rs73177458 chr3_105288383_A_INDEL rs9288817 chr3_105549896_INDEL_TTCCT rs12629811

genotype difference Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_12_IF Col_33_IF Col_34_CB Col_38_TS Col_52_IF Col_33_IF Col_16_IF Col_38_TS Col_52_IF Col_08_IF Col_33_CB Col_38_CB Col_16_IF Col_33_IF Col_33_IF Col_34_CB Col_38_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_CB Col_52_IF Col_12_IF Col_52_TS Col_12_CB Col_34_IF Col_33_IF Col_52_CB Col_16_TS Col_34_IF Col_08_CB Col_52_IF Col_33_IF Col_33_IF Col_34_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

105

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP BOT TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT TOP TOP

[T/C] [A/G] [T/C] [A/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [G/C] [G/C] [T/C] [T/A] [T/G] [T/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [A/G] [T/G] [A/G] [A/C] [T/C] [A/C] [A/G] [A/C] [T/C] [T/C] [A/C] [A/C] [A/G] [T/C] [T/C] [A/G] [A/G]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

105726028 105741844 105809730 105833613 106016673 106156027 106283820 106352340 106357337 106380604 106404147 106420030 106423903 106431149 106594233 106683507 106722004 106970136 107567515 107611941 108109031 108284236 108295189 108295189 108623388 108631424 108638602 108654067 108946466 109023515 109032900 109036817 109300041 109338852 109359465 109421199 109699566 109758198 109793785 109904601 110210285 110221814 110330282 110601937 110699266 110852718 111159403 111180433 111220516 111259277 111419486 111419515 111491026 111687229 111687229 111854197 111978848 112004516 112172149 112556393

SC

M AN U TE D

AC C

EP

chr3_105726028_C_T rs6437639 rs2035254 corect_rs145654873 rs4429664 rs7628506 rs13077519 rs10933863 chr3_106357337_C_T rs7613153 rs11928487 rs12488048 rs11713414 chr3_106431149_A_G rs1473964 rs6437715 rs11914364 chr3_106970136_A_G chr3_107567515_G_T rs709521 rs4855650 exm335940 exm335973 exm335973 rs10933971 rs4855677 rs7633206 rs2399260 rs1163368 exm336427 chr3_109032900_C_T rs11713133 rs1732187 rs1612794 rs12485442 rs1529186 chr3_109699566_C_T rs11919475 rs775546 rs6783875 rs16856946 corect_rs115200297 rs11919628 chr3_110601937_A_G rs2169564 exm336559 rs11706807 rs1553090 rs9868270 rs16858238 rs1553971 chr3_111419515_A_G rs7637178 rs13083736 rs13083736 rs1948404 rs10934156 rs10934163 rs72936292 rs16860145

genotype difference Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_52_CB Col_52_TS Col_52_IF Col_33_IF Col_33_CB Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_52_CB Col_33_IF Col_33_CB Col_52_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_59_TS Col_12_TS Col_33_CB Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_CB Col_08_TS Col_52_IF Col_33_IF Col_38_IF Col_16_TS Col_52_IF Col_33_IF

RI PT


Marker ID

106

IlmnStrand

SNP

Chr

MapInfo

BOT BOT PLUS TOP BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT PLUS BOT TOP TOP TOP MINUS BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT TOP BOT BOT TOP TOP TOP BOT

[T/C] [T/C] [D/I] [A/T] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/C] [A/C] [A/G] [C/G] [C/G] [T/G] [G/C] [A/G] [A/G] [A/C] [T/C] [T/C] [D/I] [T/A] [A/G] [A/G] [A/T] [D/I] [T/C] [C/G] [A/G] [T/G] [T/C] [T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/C] [A/G] [A/G] [A/C] [T/C] [T/C] [A/G] [T/G] [T/C] [A/G] [T/G] [T/C] [A/G] [A/C] [A/G] [T/C]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

112634821 112661354 112815439 112833538 112840885 112869208 112975521 112982044 112982044 113009366 113028150 113135345 113135543 113141389 113141389 113162095 113187675 113219189 113257664 113275624 113277105 113290314 113291841 113304513 113306167 113306326 113307185 113450011 113502325 113651442 113729839 113753949 113958599 114171390 114249467 114249467 114257298 114264286 114274333 114359473 114364462 114364462 114453255 114499741 114563438 114611829 114679536 114687153 115063672 115157029 115164877 115278983 115314309 115531551 115552241 115626780 115731643 115890404 115894386 115918296

SC

M AN U TE D

AC C

EP

chr3_112634821_C_T rs9871985 chr3_112815439_GTG_INDEL chr3_112833538_A_T rs2613922 chr3_112869208_A_G chr3_112975521_C_T chr3_112982044_C_T chr3_112982044_C_T chr3_113009366_A_G chr3_113028150_A_C chr3_113135345_A_C chr3_113135543_A_G chr3_113141389_C_G chr3_113141389_C_G chr3_113162095_G_T exm338459 chr3_113219189_C_T chr3_113257664_A_G chr3_113275624_A_C chr3_113277105_C_T chr3_113290314_C_T chr3_113291841_C_INDEL chr3_113304513_A_T chr3_113306167_A_G chr3_113306326_A_G chr3_113307185_A_T chr3_113450011_INDEL_TTC chr3_113502325_A_G chr3_113651442_C_G chr3_113729839_C_T chr3_113753949_A_C rs905569 rs9883949 chr3_114249467_C_T chr3_114249467_C_T rs2684290 chr3_114264286_C_T rs7615798 chr3_114359473_A_G kgp3190129 kgp3190129 rs1274224 rs9848625 chr3_114563438_G_T rs9817665 chr3_114679536_A_G chr3_114687153_A_C rs7645613 rs1463869 chr3_115164877_C_T rs9857602 chr3_115314309_C_T chr3_115531551_A_G rs2972486 rs6438284 rs1920388 chr3_115890404_A_C chr3_115894386_A_G chr3_115918296_A_G

genotype difference Col_33_IF Col_12_IF Col_52_CB Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_16_TS Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_52_CB Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_12_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_08_TS Col_12_CB Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_16_IF Col_33_IF Col_08_TS Col_12_CB Col_33_IF

RI PT


Marker ID

107

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT TOP TOP BOT TOP BOT TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP PLUS PLUS PLUS PLUS TOP BOT TOP PLUS BOT BOT TOP TOP

[T/C] [T/C] [T/C] [A/G] [A/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/T] [A/T] [T/G] [A/G] [T/C] [A/C] [A/G] [A/G] [T/C] [A/G] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [T/G] [A/G] [A/G] [G/C] [T/C] [T/C] [T/C] [A/G] [A/C] [D/I] [D/I] [D/I] [D/I] [A/G] [T/C] [A/G] [D/I] [G/C] [T/G] [A/G] [A/G]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

115965295 115965295 115965295 115972028 115984749 116047619 116165652 116167240 116344831 116350274 116366738 116371020 116574172 116613461 116613461 116671791 116758159 116844543 116894561 116918892 116918892 117015719 117015719 117040010 117051406 117071154 117094777 117242027 117307567 117427801 117589477 117642675 117762458 117762458 117822894 117891733 118418745 118594133 118618860 118618860 118750682 118760722 118817571 118878645 118962626 119068405 119485668 119506880 119580932 119580932 119580932 119580934 119594488 119606078 119772889 119796686 119804136 119844557 120756639 121141630

SC

M AN U

TE D

rs4831126 rs4831126 rs4831126 chr3_115972028_A_G rs12496133 rs6782605 chr3_116165652_C_T rs9881385 chr3_116344831_A_G rs72949307 rs16825260 rs9843317 chr3_116574172_A_G rs9866579 rs9866579 rs2868477 rs1851247 rs16826176 rs2137211 rs4855930 rs4855930 rs76084250 rs76084250 chr3_117040010_A_C chr3_117051406_C_T chr3_117071154_A_G rs7615693 chr3_117242027_A_G rs1875517 rs4345097 rs6788088 rs6795060 rs13066366 rs13066366 rs1032164 rs6438441 rs1392344 rs1402578 rs6438476 rs6438476 chr3_118750682_C_T rs12636639 rs6773865 chr3_118878645_C_T rs9869645 corect_rs114721355 kgp18205215 rs1403527 chr3_119580932_INDEL_TCT chr3_119580932_INDEL_TCT chr3_119580932_INDEL_TCT chr3_119580934_INDEL_TTCT rs3108749 rs16830594 chr3_119772889_A_G chr3_119796686_CTTCCTTTA_INDEL rs334555 rs13086387 chr3_120756639_C_T chr3_121141630_C_T

genotype difference Col_33_CB Col_38_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_12_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_16_TS Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_38_CB Col_12_IF Col_33_CB Col_33_IF Col_34_CB Col_33_IF Col_34_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_16_TS Col_38_CB Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_16_TS

RI PT


Marker ID

108

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT PLUS PLUS TOP BOT TOP BOT BOT BOT BOT BOT BOT MINUS TOP TOP BOT PLUS PLUS BOT BOT BOT TOP TOP BOT TOP TOP BOT TOP TOP BOT BOT TOP BOT BOT BOT TOP TOP TOP BOT TOP BOT TOP

[T/A] [T/C] [T/C] [T/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [I/D] [I/D] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [I/D] [A/G] [A/T] [T/C] [I/D] [I/D] [T/C] [T/C] [T/C] [A/G] [A/G] [T/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/G] [T/G] [T/C] [C/G] [C/G] [C/G] [T/G] [A/G] [T/C] [A/G]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

121208390 121514161 121574215 121591616 121613230 122270154 122590414 122935038 123923922 124190834 124190834 124192932 124197610 124271200 124433512 124443522 124443522 124515509 124544266 124662502 124662502 124687432 125238099 125363637 125379972 125839224 126623316 126961148 127036647 127674672 127724821 127791708 127830845 127905518 127955426 127955426 127984794 128002850 128007466 128023999 128065313 128067441 128244323 128245696 128248399 128248505 128248505 128460581 128541794 128915591 130178066 130216566 130449216 130650157 130650157 130650157 131354026 131374494 131460681 131682092

SC

M AN U TE D

AC C

EP

chr3_121208390_A_T rs4311252 rs7340674 kgp27018355 kgp17621424 rs76784981 chr3_122590414_C_T rs12493831 rs1444768 chr3_124190834_A_G chr3_124190834_A_G rs587979 rs3755674 rs4995326 rs3863064 rs3736388 rs3736388 rs2291088 rs7624392 chr3_124662503_INDEL_T chr3_124662503_INDEL_T chr3_124687432_A_G rs4630895 chr3_125363637_C_T rs13323469 rs11924478 rs9872353 rs13075436 chr3_127036647_A_G chr3_127674672_A_G chr3_127724829_A_INDEL chr3_127791708_C_T chr3_127830845_A_T chr3_127905518_C_T chr3_127955432_INDEL_T chr3_127955432_INDEL_T chr3_127984794_A_G chr3_128002850_C_T chr3_128007466_A_G chr3_128023999_C_T chr3_128065313_C_T chr3_128067441_G_T chr3_128244323_A_G rs9819395 rs7629705 chr3_128248505_A_G chr3_128248505_A_G chr3_128460581_A_G chr3_128541794_C_T rs6805004 rs819079 rs9883486 chr3_130449216_C_T chr3_130650157_C_G chr3_130650157_C_G chr3_130650157_C_G rs12634351 chr3_131374494_C_T rs9850812 rs13082797

genotype difference Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_52_IF Col_12_CB Col_12_CB Col_33_IF Col_08_IF Col_16_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_33_CB Col_33_IF Col_33_CB Col_33_IF Col_33_CB Col_38_TS Col_52_IF Col_33_CB Col_08_TS Col_33_IF Col_33_IF Col_33_CB Col_52_CB Col_33_IF Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_52_TS Col_52_CB Col_38_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_12_CB Col_12_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB

RI PT


Marker ID

109

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT TOP BOT BOT BOT TOP TOP BOT TOP TOP BOT TOP TOP TOP BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT BOT MINUS BOT TOP TOP BOT TOP TOP BOT PLUS TOP BOT BOT TOP MINUS BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT TOP

[A/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/C] [A/G] [A/G] [T/C] [T/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/A] [T/C] [T/C] [D/I] [T/C] [A/G] [A/C] [T/C] [A/G] [A/G] [T/C] [D/I] [A/G] [T/C] [T/C] [A/G] [I/D] [T/C] [T/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [C/G] [C/G] [C/G] [T/C] [A/T]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

131713566 131775158 131789864 132149551 132157820 132166309 132221139 132221139 132230952 132237953 132334716 132373159 132727903 134118851 134267991 134415518 134687294 135049624 135351730 135623469 135823772 136616641 137015487 137198193 137198193 137389062 137682938 137882949 137899898 138166201 138411636 138460203 138960969 139057465 139101461 139343839 139595530 139697473 139700967 139900975 140074782 140336271 140672017 140676192 140808510 140978194 140987325 140995381 140999642 140999642 141130835 141130835 141152017 141167261 141207575 141210749 141210749 141210749 141212518 141213581

SC

M AN U

TE D

rs1320900 rs3009507 rs9842509 rs6792616 chr3_132157820_A_G chr3_132166309_A_G rs55825559 rs55825559 chr3_132230952_A_G chr3_132237953_A_G chr3_132334716_C_T chr3_132373159_C_T rs7617456 rs4974504 chr3_134267991_A_C chr3_134415518_A_G rs6789372 rs1445221 rs3850168 rs6803679 chr3_135823772_C_T chr3_136616641_A_G rs6439699 rs13324482 rs13324482 rs1372733 chr3_137682938_A_T rs2724712 rs774813 chr3_138166201_AAC_INDEL chr3_138411636_C_T rs500687 chr3_138960969_G_T chr3_139057465_A_G rs6781318 rs7615890 rs9881047 chr3_139697473_GGATGGG_INDEL rs4683773 rs4361242 rs1542567 rs6808213 chr3_140672017_A_INDEL chr3_140676192_C_T chr3_140808510_A_C chr3_140978194_C_T chr3_140987325_A_G chr3_140995381_A_G chr3_140999642_A_G chr3_140999642_A_G chr3_141130835_C_T chr3_141130835_C_T chr3_141152017_C_T chr3_141167261_A_G chr3_141207575_A_G chr3_141210749_C_G chr3_141210749_C_G chr3_141210749_C_G chr3_141212518_A_G chr3_141213581_A_T

genotype difference Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_38_TS Col_16_TS Col_38_TS Col_33_IF Col_33_IF Col_52_CB Col_16_TS Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_38_TS Col_52_IF Col_12_CB Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_08_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_38_IF Col_38_TS Col_33_IF Col_16_TS Col_38_TS Col_38_CB Col_52_CB Col_33_CB Col_33_IF Col_33_IF Col_08_CB Col_52_CB Col_12_CB Col_12_IF Col_33_IF

RI PT


Marker ID

110

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT

[A/G] [A/G] [A/G] [A/T] [A/G] [A/G] [A/G] [C/G] [A/C] [A/G] [T/C] [A/T] [T/C] [T/C] [G/C] [A/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [C/G] [T/G] [T/C] [A/G] [C/G] [A/G] [A/C] [A/C] [A/G] [A/G] [A/C] [T/C] [T/C] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/C] [A/G] [A/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/A] [T/A] [A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [T/C]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

141224043 141261220 141287539 141314133 141347053 141367440 141368245 141430160 141440993 141597365 141812759 142153444 142174416 142213824 142214192 142239107 142283957 142283957 142287110 142411287 142423375 142555846 142649110 142657205 142730138 142765091 142842195 142872107 143099310 143197617 143209571 143246258 143274521 143282425 143282425 143422775 143446183 143482873 143504533 143535626 143725643 143725643 143796305 143833340 143952189 144146926 144303288 144305768 144311843 144311843 144342672 144370800 144370800 144405178 144405178 144516564 144539001 144556283 144658558 144689157

SC

M AN U TE D

AC C

EP

chr3_141224043_C_T chr3_141261220_A_G chr3_141287539_A_G chr3_141314133_A_T rs2640006 chr3_141367440_C_T rs1994846 chr3_141430160_C_G rs6782796 chr3_141597365_C_T rs9877817 chr3_142153444_A_T rs13099184 rs13092593 rs62276439 rs13066441 rs76871571 rs76871571 rs79083130 rs9823492 exm356266 rs11720678 rs9832727 rs2354167 chr3_142730138_A_G chr3_142765091_A_G rs4149496 rs2352734 chr3_143099310_G_T chr3_143197617_A_C rs838606 chr3_143246258_A_G rs17641385 chr3_143282425_A_G chr3_143282425_A_G rs11927652 chr3_143446183_A_G rs1349001 rs2166775 rs6794755 chr3_143725643_C_T chr3_143725643_C_T rs990320 chr3_143833340_G_T rs1503335 rs2569948 rs16855667 corect_rs186620647 rs1007564 rs1007564 rs800086 rs67873761 rs67873761 rs16855866 rs16855866 chr3_144516564_C_T rs6789186 rs10935515 rs4308318 corect_rs116574042

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_16_TS Col_33_IF Col_12_CB Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_34_TS Col_34_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_38_IF Col_12_CB Col_52_TS Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_16_TS Col_33_CB Col_52_CB Col_33_IF Col_16_TS Col_33_IF Col_12_CB Col_33_IF Col_45_IF Col_52_IF Col_59_TS Col_33_IF Col_12_CB Col_38_CB Col_12_IF Col_33_IF Col_08_TS Col_16_TS Col_33_IF Col_33_IF

RI PT


Marker ID

111

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP BOT BOT BOT TOP PLUS PLUS BOT TOP TOP BOT TOP BOT BOT TOP BOT TOP TOP TOP BOT TOP BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP TOP BOT TOP

[T/A] [T/A] [T/C] [A/G] [T/C] [T/G] [T/C] [A/G] [D/I] [D/I] [T/G] [A/G] [A/G] [T/C] [A/G] [T/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [T/G] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [A/C] [A/G] [T/C] [A/C] [A/G] [T/C] [A/G]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

144765709 144765709 144798660 144864268 144903863 144968864 144977599 144996357 145022099 145022099 145023840 145058303 145058303 145084731 145086742 145144666 145151554 145163800 145189041 145205717 145205717 145209160 145213880 145238933 145256736 145261721 145309969 145313719 145313719 145322930 145504317 145563316 145563316 145629083 145927601 145927601 145927601 145967173 146052946 146117024 146152479 146216915 146312941 146350346 146364116 146371033 146371578 146397951 146437590 146515577 146622901 146623253 146695770 146881054 146943112 146978761 147039856 147085744 147265389 147368880

SC

M AN U TE D

AC C

EP

chr3_144765709_A_T chr3_144765709_A_T rs7373412 rs11928035 chr3_144903863_C_T rs9834421 rs7640527 chr3_144996357_C_T chr3_145022099_CTT_INDEL chr3_145022099_CTT_INDEL rs1584153 chr3_145058303_A_G chr3_145058303_A_G chr3_145084731_A_G chr3_145086742_A_G chr3_145144666_G_T chr3_145151554_A_G chr3_145163800_A_G rs345020 chr3_145205717_C_T chr3_145205717_C_T chr3_145209160_A_G chr3_145213880_C_T rs4300969 chr3_145256736_C_T chr3_145261721_C_T chr3_145309969_A_C rs11922887 rs11922887 rs13070115 rs7652768 rs13071352 rs13071352 rs9289707 chr3_145927601_C_T chr3_145927601_C_T chr3_145927601_C_T rs9863647 rs7650651 chr3_146117024_A_G rs13068178 rs491900 rs6787813 rs342938 chr3_146364116_C_T rs4681329 rs11924592 rs16858754 rs12695826 rs66714223 rs6440468 chr3_146623253_A_G chr3_146695770_G_T rs11719030 rs9839538 chr3_146978761_A_G rs16846545 rs1503737 rs78939658 rs7648040

genotype difference Col_16_CB Col_38_CB Col_33_IF Col_33_IF Col_45_IF Col_16_TS Col_38_TS Col_33_IF Col_45_IF Col_52_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_16_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_52_CB Col_33_IF Col_52_IF Col_38_CB Col_12_IF Col_12_CB Col_16_IF Col_33_CB Col_52_IF Col_52_CB Col_38_TS Col_33_IF Col_45_TS Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

112

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT TOP TOP MINUS BOT BOT TOP TOP BOT BOT TOP TOP MINUS BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP

[T/C] [T/C] [A/C] [A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [T/C] [A/G] [T/A] [A/G] [A/G] [T/G] [T/C] [A/G] [T/C] [A/C] [T/A] [T/A] [T/A] [T/A] [T/A] [A/G] [A/G] [T/C] [T/C] [A/C] [A/G] [T/G] [A/G] [A/G] [I/D] [T/C] [T/C] [A/G] [A/G] [T/G] [T/G] [A/G] [A/G] [D/I] [G/C] [T/G] [T/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/G] [A/C] [A/G]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

147419735 147533843 147623914 147625933 147683845 147683845 147787204 148263249 148481248 148496554 148537533 148563568 148630929 148748380 148834931 148881673 148905283 148910161 148911178 148911399 148911399 148911399 148911399 148911399 148938873 148938873 149038713 149038973 149121095 149121931 149460285 149468141 149532826 149576820 149917021 149960797 150007220 150035606 150094926 150122121 150139253 150212698 150261740 150377674 150458543 150531601 150566422 150664390 151057642 151079436 151430857 151559645 151559645 151598526 151599393 151653472 151653472 151696507 151698181 151763504

SC

M AN U TE D

AC C

EP

rs9816333 rs6785065 rs4681390 rs6798441 chr3_147683845_A_G chr3_147683845_A_G rs6764882 rs13058910 rs6772419 rs11718189 chr3_148537533_A_G rs3765132 rs10804733 rs3182285 chr3_148834931_G_T rs3732557 chr3_148905283_C_T chr3_148910161_C_T chr3_148911178_G_T chr3_148911399_A_T chr3_148911399_A_T chr3_148911399_A_T chr3_148911399_A_T chr3_148911399_A_T chr3_148938873_C_T chr3_148938873_C_T chr3_149038713_C_T rs76335061 rs4317046 rs1304026 chr3_149460285_A_C chr3_149468141_A_G rs9875202 chr3_149576821_A_INDEL rs4681593 rs12632982 rs9864385 chr3_150035606_A_G rs10804747 rs10513373 chr3_150139253_A_G rs7634891 chr3_150261740_G_INDEL rs3765005 chr3_150458543_G_T rs12495611 rs13081927 rs13099797 rs2046934 rs10755105 rs3988161 chr3_151559645_C_T chr3_151559645_C_T chr3_151598526_C_T rs13079080 rs17283269 rs17283269 rs6770015 rs2046034 rs1678483

genotype difference Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_34_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_45_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_38_CB Col_52_IF Col_52_CB Col_08_CB Col_16_CB Col_45_CB Col_52_TS Col_12_TS Col_16_IF Col_52_IF Col_38_CB Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_45_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_52_TS Col_52_CB Col_33_IF Col_16_TS Col_33_IF Col_38_TS Col_52_IF Col_33_CB Col_52_IF Col_33_CB Col_34_IF Col_33_IF

RI PT


Marker ID

113

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP BOT TOP BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP PLUS PLUS PLUS BOT BOT BOT TOP BOT BOT BOT BOT BOT

[A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/G] [A/C] [A/C] [T/G] [A/C] [A/G] [A/G] [T/C] [A/G] [T/A] [T/C] [A/G] [T/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/C] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/C] [A/C] [A/G] [A/C] [A/G] [A/C] [A/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [I/D] [I/D] [I/D] [T/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/G]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

151887185 151911863 152035637 152053250 152127354 152127354 152137036 152159080 152159080 152231452 152234694 152321858 152375185 152382636 152385842 152522061 152526481 152585830 152622397 152930576 153022780 153022780 153040808 153100477 153120549 153125622 153259376 153300061 153328203 153356213 153375167 153423761 153449270 153496242 153496242 153504560 153504560 153610263 153694368 153872345 153949702 153949702 154115627 154115627 154133697 154149405 154158508 154158508 154324162 154324162 154324162 154454529 154587654 154587654 154825213 154829907 154882287 154986954 155042640 155075068

SC

M AN U TE D

AC C

EP

rs325772 rs323613 chr3_152035637_A_G rs4472028 rs7642123 rs7642123 rs6440804 chr3_152159080_A_C chr3_152159080_A_C chr3_152231452_A_C rs1278095 rs11923583 rs1878433 rs1517240 rs12233485 chr3_152522061_A_T chr3_152526481_A_G chr3_152585830_A_G rs7642943 rs1899695 rs9824588 rs9824588 rs9289901 rs9843491 rs2862071 rs77882371 rs6767565 rs11920558 rs1873354 rs6780167 rs1554560 rs9823065 chr3_153449270_C_T rs12486336 rs12486336 chr3_153504560_G_T chr3_153504560_G_T rs3112291 chr3_153694368_A_C chr3_153872345_A_G chr3_153949702_G_T chr3_153949702_G_T rs6762664 rs6762664 chr3_154133697_A_G rs1996256 rs78045644 rs78045644 chr3_154324163_A_INDEL chr3_154324163_A_INDEL chr3_154324163_A_INDEL rs7651148 chr3_154587654_C_T chr3_154587654_C_T rs9827313 rs9853221 rs3773876 rs9855353 rs13314317 rs7619671

genotype difference Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_38_TS Col_33_IF Col_52_IF Col_33_IF Col_52_CB Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_59_TS Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_52_IF Col_12_IF Col_33_IF Col_52_IF Col_38_TS Col_33_IF Col_12_CB Col_16_IF Col_45_IF Col_33_IF Col_33_IF Col_38_CB Col_52_IF Col_08_CB Col_33_CB Col_52_IF Col_33_IF Col_16_IF Col_33_CB Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_12_CB Col_33_IF

RI PT


Marker ID

114

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP TOP MINUS TOP TOP TOP TOP BOT TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT TOP BOT TOP TOP BOT TOP BOT BOT TOP TOP TOP BOT TOP BOT

[T/A] [T/C] [T/C] [T/G] [T/C] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/T] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [I/D] [C/G] [C/G] [C/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/C] [T/G] [T/C] [T/C] [T/A] [T/C] [T/C] [T/G] [T/C] [A/G] [A/G] [A/T] [A/T] [A/G] [T/C] [A/G] [T/A] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/C] [A/G] [A/G] [T/C] [A/G] [T/C]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

155148413 155412668 155542475 155548882 155932676 156165890 156260245 156271608 156365424 156369615 156380131 156397692 156467812 156475679 156479995 156483664 156491160 156491757 156494918 156508517 156513199 156514606 156515822 156515822 156516099 156539084 156548148 156557261 156560419 156561637 156564486 156565483 156570870 156574120 156574120 156591917 156597264 156608141 156608420 156612097 156647816 156647816 156660092 156660092 156691604 156697757 156700416 156730749 156739425 156764651 156767062 156772720 156826276 156966235 157078151 157188378 157359662 157570753 157735625 157850397

SC

M AN U TE D

AC C

EP

chr3_155148413_A_T rs393081 rs358702 rs1025341 c3_pos157415370 rs1996876 rs1510277 rs2292338 chr3_156365424_A_G chr3_156369615_A_G c3_pos157862825 chr3_156397692_C_T chr3_156467812_C_T chr3_156475679_A_T chr3_156479995_A_G c3_pos157966358 rs9867857 c3_pos157974451 c3_pos157977612 c3_pos157991211 chr3_156513200_A_INDEL chr3_156514606_C_G c3_pos157998516 c3_pos157998516 c3_pos157998793 c3_pos158021778 chr3_156548148_C_T chr3_156557261_C_T c3_pos158043113 chr3_156561637_C_T c3_pos158047180 chr3_156565483_A_C chr3_156570870_G_T chr3_156574120_A_G chr3_156574120_A_G c3_pos158074611 chr3_156597264_A_G c3_pos158090835 chr3_156608420_A_C c3_pos158094791 rs9855917 rs9855917 chr3_156660092_A_T chr3_156660092_A_T chr3_156691604_A_G c3_pos158180451 chr3_156700416_C_T chr3_156730749_A_T rs9839037 chr3_156764651_A_G chr3_156767062_C_T chr3_156772720_A_G chr3_156826276_A_G rs7642179 rs16827528 rs1011060 rs1015389 chr3_157570753_C_T kgp7955656 chr3_157850397_C_T

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_52_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_16_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_12_CB Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_16_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_38_IF

RI PT


Marker ID

115

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP TOP BOT TOP BOT TOP TOP TOP BOT TOP BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP TOP BOT TOP BOT BOT BOT TOP BOT BOT TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP BOT TOP BOT TOP TOP BOT TOP BOT BOT BOT TOP BOT

[A/G] [C/G] [C/G] [A/C] [A/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/C] [T/C] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/G] [A/C] [A/C] [A/G] [A/G] [T/C] [A/G] [T/C] [G/C] [T/G] [A/G] [T/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/C] [T/C] [A/G] [T/G] [T/C] [T/G] [A/G] [T/C]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

157928024 158022580 158022580 158092801 158092801 158236860 158255542 158379649 158731335 158731335 158840694 159168091 159359371 159461558 159630648 159663317 159834050 159993490 159993490 160089896 160120686 160126166 160226307 160398885 160654841 161043869 161151441 161170611 161195729 161237020 161281948 161349991 161474909 161498506 161540839 161568993 161641531 161641531 161708249 161747143 161783163 161845898 161850511 161850511 161850511 161893088 161922679 162055990 162287573 162389205 162675279 162901015 162997262 163139188 163159314 163444040 163735214 163895047 164016016 164094798

SC

M AN U TE D

AC C

EP

rs1729998 chr3_158022580_C_G chr3_158022580_C_G rs6774461 rs6774461 rs2117764 chr3_158255542_A_G rs9873667 chr3_158731335_C_T chr3_158731335_C_T rs17782680 rs6803496 rs9842465 rs11915303 chr3_159630648_A_G rs550662 rs11916869 rs4679880 rs4679880 rs12233589 chr3_160120686_C_T chr3_160126166_C_T rs17236529 rs2367209 chr3_160654841_G_T rs10936227 rs1450525 rs12633334 rs6441378 rs9821185 chr3_161281948_C_T chr3_161349991_C_G rs12489261 rs2404822 rs11926881 rs7433024 chr3_161641531_A_G chr3_161641531_A_G rs9855315 rs4856666 rs73172732 rs9829131 rs17749916 rs17749916 rs17749916 rs12496424 rs9843284 rs9833336 rs9816189 rs12491408 rs11918594 rs13062639 rs9809962 rs1380781 rs13060071 kgp9393051 rs9815702 rs12495540 rs6785566 chr3_164094798_A_G

genotype difference Col_33_CB Col_16_TS Col_38_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_16_IF Col_16_TS Col_38_TS Col_16_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_38_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_08_CB Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_38_TS Col_33_IF Col_34_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_52_IF Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_34_TS Col_33_IF Col_52_IF Col_33_IF Col_16_TS Col_33_IF

RI PT


Marker ID

116

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP BOT TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP

[T/C] [T/G] [A/C] [A/G] [T/C] [T/G] [A/G] [T/G] [T/G] [T/G] [T/C] [A/G] [A/C] [A/C] [T/G] [T/C] [A/G] [G/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [T/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/G] [T/C] [A/G] [A/G] [G/C] [T/C] [T/C] [T/C] [T/C] [T/G] [T/C] [T/C] [A/C] [T/G] [A/C]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

164109377 164384338 164420232 164435533 164558595 164588702 164725726 164767632 164767632 164793758 164811507 165118985 165148490 165168117 165311604 165445557 165594308 165646424 165683741 165846165 165952297 165992588 166148892 166298091 166304564 166319399 166679453 166787303 166787303 166787303 166872713 167062663 167189890 167201711 167269394 167287678 167287678 167303485 167323709 167526429 167585784 167783178 168064070 168083709 168136690 168228010 168244032 168271192 168271192 168385423 168686676 168686676 168715259 168746566 168853944 168855293 168889604 168913273 168963285 168968562

SC

M AN U TE D

AC C

EP

rs7616947 rs2722633 rs2036034 rs6548369 rs9847462 rs9810313 exm362469 exm362601 exm362601 rs9290264 rs7433147 rs1404782 rs4858785 rs4441678 rs6444909 rs17519507 chr3_165594308_A_G chr3_165646424_C_G rs9829437 chr3_165846165_A_G rs9855808 rs1542072 rs2863389 rs13095617 rs1403779 chr3_166319399_C_T rs9290306 kgp17771644 kgp17771644 kgp17771644 rs4541410 rs7647253 rs6444350 chr3_167201711_C_T rs7650514 rs4552347 rs4552347 rs4274741 rs9837095 rs13093535 rs73878799 rs1522380 rs11915706 rs3872622 rs7614661 chr3_168228010_A_C chr3_168244032_A_G rs77262674 rs77262674 rs77838749 rs16852912 rs16852912 rs16852972 rs10513653 chr3_168853944_G_T chr3_168855293_A_G rs12629466 rs7652391 rs1352340 rs2067695

genotype difference Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_52_IF Col_59_TS Col_16_IF Col_16_IF Col_33_IF Col_38_CB Col_52_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_33_CB Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_38_TS Col_52_IF Col_16_IF Col_12_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_16_CB Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_52_CB Col_33_IF Col_59_TS Col_38_TS Col_34_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_TS

RI PT


Marker ID

117

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP TOP BOT TOP PLUS MINUS BOT BOT BOT TOP PLUS TOP TOP TOP BOT BOT TOP TOP BOT BOT TOP BOT BOT PLUS BOT BOT PLUS BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT BOT BOT TOP TOP BOT BOT TOP PLUS

[T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [A/G] [D/I] [I/D] [T/C] [T/C] [T/G] [A/G] [D/I] [A/C] [A/C] [A/G] [T/C] [T/C] [A/G] [C/G] [T/C] [T/G] [A/G] [T/C] [T/C] [D/I] [T/G] [T/C] [I/D] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/A] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [G/C] [G/C] [A/G] [A/C] [T/G] [T/A] [A/G] [A/G] [G/C] [T/C] [T/C] [A/C] [A/C] [T/G] [T/C] [A/C] [D/I]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

168994693 168994693 169005782 169009521 169023831 169055697 169139890 169141140 169146779 169165329 169165329 169208509 169209276 169250967 169292173 169292173 169300219 169313608 169327436 169354405 169368615 169389753 169461571 169462823 169500487 169506141 169548033 169553070 169563001 169563603 169601250 169624528 169662276 169662276 169662276 169689793 169704331 169739484 169739484 169804730 169806170 169816510 169837519 169894343 169895018 169905944 169980161 170028600 170110529 170150076 170180811 170195459 170238127 170240173 170242121 170263733 170276341 170314732 170320591 170352027

SC

M AN U TE D

AC C

EP

rs9290362 rs9290362 chr3_169005782_C_T chr3_169009521_A_G rs6778349 rs78161277 rs1918969 rs75384833 rs71745076 rs4285032 rs4285032 chr3_169208509_A_C rs9867896 rs67796202 rs1362775 rs1362775 rs1344555 rs28464305 rs6762435 rs718370 chr3_169368615_C_G rs79127610 rs16854335 rs7610569 rs3772190 rs1920122 rs72049360 chr3_169553070_A_C rs12696310 chr3_169563604_A_INDEL chr3_169601250_A_G rs9283638 chr3_169662276_C_T chr3_169662276_C_T chr3_169662276_C_T rs79709647 chr3_169704331_A_T rs60274574 rs60274574 chr3_169804730_C_T chr3_169806170_A_G chr3_169816510_C_T chr3_169837519_C_T chr3_169894343_C_G rs6444902 chr3_169905944_A_G chr3_169980161_A_C rs4955720 chr3_170110529_A_T chr3_170150076_C_T rs16855088 chr3_170195459_C_G rs6789822 chr3_170240173_C_T chr3_170242121_G_T rs876560 chr3_170276341_A_C rs62294687 chr3_170320591_A_C chr3_170352029_C_INDEL

genotype difference Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_38_CB Col_52_IF Col_08_IF Col_33_CB Col_12_TS Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_38_IF Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_16_TS Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_38_IF Col_16_IF Col_52_IF Col_12_IF Col_33_IF Col_33_IF Col_38_TS Col_52_TS Col_52_CB Col_33_IF Col_12_IF Col_12_CB Col_33_TS Col_38_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_38_TS

RI PT


Marker ID

118

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP BOT BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT BOT TOP BOT TOP BOT BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT

[T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [A/G] [T/G] [T/G] [T/C] [C/G] [C/G] [C/G] [A/G] [T/C] [A/C] [T/C] [T/C] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [T/C] [A/G] [T/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [T/C]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

170417885 170430815 170430815 170432985 170432985 170432985 170491996 170563884 170563884 170566008 170575552 170586057 170586057 170586057 170630520 170724729 170765095 170765095 170916577 170920412 170920412 170920412 170983075 171071536 171127650 171227112 171309620 171386231 171683401 171707923 171736443 171794511 171808897 171863425 172130134 172217788 172223376 172226752 172227411 172273512 172313367 172650339 172664014 172786148 172795631 172859705 172881415 173004184 173010075 173094705 173179298 173179298 173185376 173364834 173364834 173382149 173382149 173382149 173386910 173451840

SC

M AN U TE D

AC C

EP

chr3_170417885_A_G chr3_170430815_A_G chr3_170430815_A_G chr3_170432985_C_T chr3_170432985_C_T chr3_170432985_C_T rs9836242 rs5029254 rs5029254 rs6797610 chr3_170575552_C_T rs3732927 rs3732927 rs3732927 chr3_170630520_G_T rs1499821 chr3_170765095_A_C chr3_170765095_A_C rs2422193 chr3_170920412_C_G chr3_170920412_C_G chr3_170920412_C_G chr3_170983075_A_G chr3_171071536_C_T chr3_171127650_A_C rs2075360 rs360402 rs1473377 rs3861381 chr3_171707923_A_G rs12497673 rs16856870 rs7620170 rs11714903 chr3_172130134_A_C corect_rs115984079 rs11720451 chr3_172226752_A_C chr3_172227411_C_T rs231997 rs234043 rs1499632 rs13320274 rs6766715 rs12630529 rs7652619 rs1512745 rs6772821 rs9840933 rs16825459 rs17318925 rs17318925 rs6771377 chr3_173364834_A_G chr3_173364834_A_G chr3_173382149_A_G chr3_173382149_A_G chr3_173382149_A_G rs1553121 chr3_173451840_C_T

genotype difference Col_12_CB Col_16_TS Col_33_IF Col_16_TS Col_38_TS Col_52_TS Col_33_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_08_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_08_TS Col_12_CB Col_33_IF Col_16_TS Col_38_IF Col_52_CB Col_33_IF Col_33_IF Col_08_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_38_IF Col_33_IF Col_34_TS Col_52_TS Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_52_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_38_IF Col_38_TS Col_33_IF Col_34_CB Col_38_TS Col_52_IF Col_59_TS Col_33_IF Col_16_CB

RI PT


Marker ID

119

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT

[A/G] [A/G] [A/G] [A/G] [T/C] [T/G] [T/G] [T/C] [T/G] [T/G] [A/G] [T/G] [T/G] [T/G] [T/C] [T/C] [T/G] [T/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [A/G] [T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/C] [A/C] [T/G] [T/C]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

173466849 173474569 173485371 173489454 173491396 173563692 173573365 173616875 173617626 173629003 173648218 173653935 173653935 173653935 173801290 173801290 173855560 173877136 173901722 173903820 174152030 174252463 174274181 174308012 174334538 174367708 174367708 174367708 174378851 174401785 174426336 174426336 174510828 174510828 174510828 174608936 174667446 174681247 174710700 174824539 174825971 174864481 174879055 174879055 174966522 174966522 174966522 175008948 175019533 175020834 175096546 175112637 175112637 175113445 175113445 175139842 175185060 175194867 175209406 175210094

SC

M AN U TE D

AC C

EP

chr3_173466849_C_T chr3_173474569_C_T rs976683 rs9879266 rs1948161 rs13067039 rs1545991 chr3_173616875_A_G chr3_173617626_G_T chr3_173629003_A_C chr3_173648218_C_T rs9831200 rs9831200 rs9831200 rs16833127 rs16833127 rs12491232 chr3_173877136_A_C rs4894645 rs1345537 rs9812312 chr3_174252463_A_G chr3_174274181_A_G rs685963 rs4597722 rs693471 rs693471 rs693471 rs4564989 rs475170 rs4410453 rs4410453 chr3_174510828_C_T chr3_174510828_C_T chr3_174510828_C_T rs7623634 rs6801807 rs10513729 rs6806492 rs4894477 chr3_174825971_A_C rs1381136 rs9858268 rs9858268 rs7619752 rs7619752 rs7619752 rs6799976 rs12630370 rs9844160 rs9290550 rs73186713 rs73186713 rs17283743 rs17283743 rs9815671 rs9839245 rs9290557 rs7619984 chr3_175210094_C_T

genotype difference Col_52_TS Col_52_IF Col_33_IF Col_38_CB Col_12_IF Col_52_IF Col_38_TS Col_33_IF Col_33_IF Col_16_IF Col_12_CB Col_16_IF Col_38_TS Col_12_IF Col_38_CB Col_52_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_CB Col_12_IF Col_12_IF Col_45_CB Col_08_TS Col_16_IF Col_52_IF Col_52_IF Col_52_TS Col_16_TS Col_52_IF Col_16_IF Col_38_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_34_TS Col_33_IF Col_16_TS Col_33_IF Col_38_TS Col_45_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_52_TS Col_12_IF Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_52_TS

RI PT


Marker ID

120

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT BOT BOT BOT TOP TOP BOT TOP TOP BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP PLUS TOP TOP BOT TOP TOP BOT PLUS TOP TOP BOT TOP BOT TOP TOP BOT TOP BOT BOT TOP BOT TOP TOP TOP TOP BOT

[T/C] [A/C] [T/A] [T/C] [T/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/G] [T/C] [A/G] [A/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [T/G] [T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [D/I] [A/C] [A/C] [T/C] [A/G] [A/G] [T/C] [I/D] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/G]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

175216853 175288979 175349526 175469314 175566986 175647165 175927451 175931891 175941866 175969241 176022917 176233955 176387145 176437906 176456307 176525654 176691296 176916342 177199626 177308158 177374604 177431683 177490268 177578627 177636693 177770817 177876600 177876600 178118676 178290081 178365792 178430105 178449906 178553730 178814913 178868003 178897674 178924704 178985197 179058502 179110393 179514870 179555986 179661318 179678135 179678461 179678562 179701679 179769375 179934309 179938996 180100320 180224691 180293019 180334332 180334458 180365441 180377470 180433381 180443075

SC

M AN U TE D

AC C

EP

rs4894489 rs9858834 rs9681697 chr3_175469314_A_G rs9917624 rs6772209 rs11923600 rs6443331 chr3_175941866_C_T rs17689750 rs5008411 rs1454149 rs7647703 chr3_176437906_A_C rs11712084 rs6762255 rs6803575 chr3_176916342_C_T rs9830263 rs6769488 rs16828425 rs4857725 rs1106387 chr3_177578627_C_T rs1421163 chr3_177770817_C_T rs7637967 rs7637967 rs11718301 rs11918114 rs10755134 rs12487889 rs6443571 chr3_178553730_A_G chr3_178814913_C_INDEL chr3_178868003_G_T rs6443624 rs72622565 rs10936997 rs6805876 rs9874433 chr3_179514870_AAG_INDEL chr3_179555986_C_T rs7630877 rs6782786 chr3_179678461_A_G rs4855129 rs12492673 rs79896173 rs10937022 rs4343625 rs1520616 kgp11649961 chr3_180293019_A_G chr3_180334332_C_T chr3_180334458_C_T chr3_180365441_A_G chr3_180377470_C_T rs7628371 chr3_180443075_A_C

genotype difference Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_59_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_34_TS Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_38_CB Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_16_CB Col_33_IF Col_34_CB Col_52_CB Col_33_IF Col_33_IF Col_16_IF Col_33_IF

RI PT


Marker ID

121

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT TOP BOT TOP BOT TOP TOP TOP TOP BOT TOP TOP BOT TOP BOT BOT TOP TOP TOP BOT TOP PLUS TOP TOP TOP BOT BOT BOT BOT TOP BOT BOT TOP TOP BOT BOT TOP BOT BOT TOP TOP TOP BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP

[A/G] [A/C] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/T] [A/G] [A/G] [T/C] [A/C] [A/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/C] [A/G] [T/C] [A/G] [D/I] [A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [T/G] [A/G] [T/C] [T/C] [A/C] [A/C] [T/C] [T/C] [A/G] [T/C] [G/C] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/G] [T/C] [A/G] [A/C] [A/C] [T/C] [A/G] [A/G] [C/G] [C/G] [C/G]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

180488885 180587964 180751808 181126962 181351275 181475226 181734542 181759879 181929775 181939048 182139178 182139178 182153406 182333358 182333358 182432644 182609511 182662324 182870436 183075106 183205937 183394462 183756808 183758785 183897442 184099206 184099206 184099206 184465325 184561133 184682214 184700356 184700426 184757181 184795895 184809896 184815241 184946880 185169918 185258933 185312983 185412100 185511687 185574131 185616564 185785996 185981731 186005585 186056363 186181526 186261076 186374671 186386713 186778828 186875232 187004183 187222959 187351077 187351077 187351077

SC

M AN U

TE D

rs4621329 chr3_180587964_A_C rs6783677 rs4855026 chr3_181351275_C_T rs6793883 rs4854932 kgp506894 chr3_181929775_A_G rs34022370 corect_rs116707192 corect_rs116707192 rs13074509 rs6784627 rs6784627 rs6795829 rs79817178 rs7623786 rs514636 rs7620788 rs16857664 rs6807489 rs6789882 chr3_183758785_C_T chr3_183897442_INDEL_TTTCT rs3749229 rs3749229 rs3749229 rs6766579 chr3_184561133_G_T rs6799328 rs4572747 rs11555405 chr3_184757181_A_G rs1949042 rs9857572 chr3_184815241_G_T chr3_184946880_A_G chr3_185169918_C_T rs4626118 chr3_185312983_C_T chr3_185412100_C_G chr3_185511687_G_T rs12639517 rs6770735 rs9831938 rs79492639 chr3_186005585_A_G chr3_186056363_A_G chr3_186181526_A_C rs6775719 rs1868154 chr3_186386713_G_T rs257101 rs9875174 rs13094773 chr3_187222959_C_T chr3_187351077_C_G chr3_187351077_C_G chr3_187351077_C_G

genotype difference Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_16_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_TS Col_38_TS Col_45_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_38_IF Col_52_CB Col_33_IF Col_59_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_38_CB Col_38_TS Col_08_CB Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_34_IF Col_38_IF Col_52_IF

RI PT


Marker ID

122

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP BOT TOP BOT BOT BOT TOP TOP BOT BOT BOT TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP TOP PLUS PLUS BOT BOT BOT BOT

[T/C] [A/G] [A/G] [A/G] [T/G] [T/G] [A/C] [A/C] [A/G] [A/G] [A/C] [T/C] [A/G] [A/C] [T/C] [T/C] [T/C] [T/G] [T/C] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/G] [C/G] [C/G] [T/C] [T/C] [T/C] [A/C] [A/G] [T/C] [T/C] [A/C] [T/G] [A/G] [A/G] [A/G] [A/C] [T/A] [T/A] [A/T] [A/G] [D/I] [D/I] [T/C] [T/G] [T/C] [T/C]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

187537451 188154279 188154279 188305594 188485240 188622951 188966967 188966967 189084917 189084917 189126494 189127707 189159352 189191382 189349591 189359233 189407444 189441730 189442017 189442448 189445267 189448749 189451554 189454719 189454719 189459586 189470535 189474041 189487771 189492140 189498568 189504939 189527177 189527177 189528852 189533665 189533665 189536660 189558086 189570112 189586030 189599674 189614414 189614414 189617276 189706124 189749583 189816756 189858976 189954280 190119754 190119754 190257733 190347523 190375936 190375936 190515906 190536777 190609800 190609800

SC

M AN U TE D

AC C

EP

rs9847862 chr3_188154279_A_G chr3_188154279_A_G chr3_188305594_C_T rs1040033 chr3_188622951_G_T chr3_188966967_G_T chr3_188966967_G_T rs13073419 rs13073419 chr3_189126494_G_T rs260580 rs6771859 rs3846210 rs77398377 rs12638554 rs16864725 rs75835165 rs77744581 rs10937409 rs75182346 rs75049173 rs77175656 rs62279902 rs62279902 rs77289163 rs77752898 rs4532112 rs76909553 chr10_87562915_A_G rs16864779 rs2138247 rs7624774 rs7624774 rs4687094 rs17447076 rs17447076 rs9881595 rs79535902 rs73199765 rs1399773 rs1543969 rs36064124 rs36064124 rs28688563 rs1040293 rs1719625 rs710586 rs501443 rs493186 chr3_190119754_A_T chr3_190119754_A_T chr3_190257733_A_T rs1024946 rs35425046 rs35425046 rs13062230 rs9863612 chr3_190609800_C_T chr3_190609800_C_T

genotype difference Col_12_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_38_CB Col_12_IF Col_33_IF Col_52_TS Col_33_IF Col_38_CB Col_33_IF Col_12_CB Col_33_IF Col_34_TS Col_33_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_52_TS Col_12_CB Col_12_IF Col_16_IF Col_38_CB Col_38_IF Col_38_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_16_TS Col_33_IF Col_52_TS Col_12_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_38_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_52_CB

RI PT


Marker ID

123

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP BOT BOT TOP BOT TOP BOT TOP TOP BOT BOT TOP BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP

[A/C] [A/C] [A/G] [A/G] [A/G] [A/C] [G/C] [G/C] [G/C] [G/C] [A/C] [A/G] [T/C] [A/G] [A/T] [A/G] [T/C] [A/C] [A/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/G] [T/C] [T/C] [A/G] [A/C] [T/C] [T/C] [A/G] [A/G] [T/G] [T/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/G] [A/G] [T/C] [A/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/C] [A/G] [T/C] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G]

3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

190700956 190700956 190801723 190844007 190851833 190861465 190872196 190872196 190872196 190872196 190876785 190877111 190891939 191033815 191084400 191154590 191171150 191305238 191305238 191408742 191640921 191657940 191659343 191667777 191719043 191821726 191833747 191839031 192050467 192202999 192202999 192229661 192350401 192689376 192772250 192982638 193036185 193036185 193036185 193070674 193149450 193286182 193330022 193337234 193414733 193875909 194148003 194172153 194264795 194581193 194667303 194752416 194796632 194994754 194997620 195022534 195105481 195925355 195925355 195959924

SC

M AN U TE D

AC C

EP

rs13314422 rs13314422 rs2063421 rs10937458 chr3_190851833_C_T rs936073 chr3_190872196_C_G chr3_190872196_C_G chr3_190872196_C_G chr3_190872196_C_G chr3_190876785_A_C rs16866197 rs13100749 rs12495302 chr3_191084400_A_T rs13100475 rs406821 rs7613979 rs7613979 rs6772065 rs4299432 rs9291002 rs13086796 rs7635839 chr3_191719043_G_T rs13090037 rs1907541 rs1380990 chr3_192050467_A_C rs6808947 rs6808947 rs4686610 chr3_192350401_A_G rs6444675 rs9816743 rs10937575 chr3_193036185_A_G chr3_193036185_A_G chr3_193036185_A_G rs6784067 rs971538 rs6444728 rs9828315 chr3_193337234_C_T rs1056392 rs4380361 rs9878918 rs953487 rs7610742 rs7632021 chr3_194667303_A_G rs2280222 chr3_194796632_C_T rs13072883 rs2000052 rs2275519 rs4677839 rs1106479 rs1106479 rs1476331

genotype difference Col_08_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_45_CB Col_52_CB Col_12_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_16_IF Col_12_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_IF Col_33_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_16_IF Col_33_CB Col_38_IF Col_12_CB Col_52_IF Col_33_IF Col_12_TS Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_38_TS Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_52_TS Col_52_CB

RI PT


Marker ID

124

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP BOT BOT BOT TOP TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT TOP TOP TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP BOT TOP TOP TOP BOT BOT TOP BOT

[T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [T/C] [A/C] [A/C] [A/G] [T/C] [A/G] [T/G] [T/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/C] [A/G] [A/G] [T/C] [A/C] [A/T] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/C] [A/C] [A/G] [T/C] [T/G] [A/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [A/C] [T/C]

3 3 3 3 3 3 3 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

196521030 196541252 196546374 196771513 196865242 196921780 197108353 266171 374079 374079 410015 442021 1192243 1728120 2233755 2812845 2896448 2896448 2896448 3528536 3796387 4533974 4702706 4991081 4991081 5029355 5128511 5159654 5202802 5838837 5988237 6427757 6427757 6628914 7058137 7058137 7062894 7068277 7181214 7304566 7797867 7797867 7992749 8718847 9097400 9381593 9381593 9634290 9829086 9896293 10085102 10145890 10902823 11002528 11002528 11049844 11110545 11156535 11162918 11235941

SC

M AN U TE D

AC C

EP

chr3_196521030_A_G rs13078303 rs10446496 rs34492126 rs1134986 rs9868546 rs4132331 chr4_266171_A_G rs11734441 rs11734441 rs6838825 rs11944122 rs1250125 chr4_1728120_A_C exm382405 rs438524 exm383183 exm383183 exm383183 chr4_3528536_C_T rs28610504 rs7684307 chr4_4702706_A_G rs11933917 rs11933917 chr4_5029355_C_T rs12651470 rs7683724 chr4_5202802_A_G rs7654446 rs10014397 rs4469149 rs4469149 chr4_6628914_A_C chr4_7058137_A_G chr4_7058137_A_G chr4_7062894_C_T chr4_7068277_A_C corect_rs149701484 rs4689687 rs75319281 rs75319281 rs13129405 rs7662356 chr4_9097400_A_G chr4_9381593_A_C chr4_9381593_A_C chr4_9634290_C_T rs6837273 rs10939605 chr4_10085102_G_T rs10024447 corect_rs115054253 rs2128863 rs2128863 rs1110365 chr4_11110545_C_T chr4_11156535_G_T rs1876265 rs10034384

genotype difference Col_12_CB Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_52_IF Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_34_CB Col_33_TS Col_33_CB Col_38_TS Col_52_TS Col_33_CB Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_34_CB Col_33_CB Col_33_CB Col_59_TS Col_34_IF Col_33_IF Col_33_IF Col_33_CB Col_38_TS Col_33_IF Col_33_CB Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_52_TS Col_12_TS Col_38_CB Col_52_IF Col_08_TS Col_16_TS Col_08_TS Col_33_IF Col_16_TS Col_12_CB Col_33_IF Col_52_IF Col_16_TS Col_33_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_08_IF

RI PT


Marker ID

125

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT BOT BOT TOP BOT BOT TOP MINUS BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT BOT

[A/C] [A/C] [A/C] [T/G] [T/C] [T/A] [A/G] [T/G] [T/C] [A/G] [I/D] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [C/G] [T/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/C] [A/C] [A/C] [T/C] [T/C] [T/G] [T/C] [A/G] [T/C] [C/G] [T/C] [T/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [A/C] [T/A] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

11246753 11321642 11507454 11546275 11609704 11665810 11825987 11827578 11873630 11922712 11955652 11956720 11956720 12216880 12230566 12543102 12543102 12782701 12790058 12921186 12955259 12972256 13066402 13147622 13478859 13625648 13625648 13855897 14029370 14117046 14204807 14225189 14225189 14276836 14355389 14373371 14400376 15045896 15051670 15113894 15295105 15324456 15420679 15522282 15522282 15677834 15677834 15677834 15881856 15987348 16018142 16018282 16076535 16164489 16214789 16354757 16390191 16414889 16511902 16851024

SC

M AN U TE D

AC C

EP

chr4_11246753_G_T rs10026701 rs4916640 rs956469 rs6816174 chr4_11665810_A_T rs1489473 rs55694705 rs6843251 rs2171726 chr4_11955653_A_INDEL rs16886480 rs16886480 rs10939415 chr4_12230566_A_G rs6847440 rs6847440 rs6857474 rs12507532 chr4_12921186_C_T rs7692161 chr4_12972256_A_C rs1515409 rs490325 rs10516268 rs4235372 rs4235372 rs4698178 rs572542 chr4_14117046_A_G rs890299 chr4_14225189_G_T chr4_14225189_G_T chr4_14276836_C_T rs2109678 rs17466384 rs12331778 rs2604578 rs17450086 rs9998549 rs35315148 chr4_15324456_G_T rs2192355 rs13131119 rs13131119 chr4_15677834_C_T chr4_15677834_C_T chr4_15677834_C_T chr4_15881856_G_T rs16892734 rs2531155 rs2677789 chr4_16076535_A_T rs7359 chr4_16214789_C_T rs4321631 rs17563866 rs6449244 chr4_16511902_A_G rs207713

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_45_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_CB Col_38_TS Col_52_CB Col_33_IF Col_16_IF Col_52_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_12_CB Col_52_IF Col_16_TS Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_52_IF Col_33_CB Col_52_IF Col_16_IF Col_33_CB Col_33_CB Col_08_CB Col_33_CB Col_16_TS Col_34_IF Col_52_IF Col_33_CB Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_12_IF Col_33_CB Col_34_CB Col_33_IF Col_33_IF

RI PT


Marker ID

126

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT TOP TOP BOT TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP PLUS BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP TOP BOT TOP BOT BOT BOT TOP TOP TOP BOT TOP BOT TOP

[A/G] [A/G] [A/G] [T/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [D/I] [T/G] [T/C] [T/A] [T/C] [A/G] [A/G] [A/G] [A/G] [A/C] [T/A] [T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/A] [T/A] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/A] [A/G]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

17045560 17112493 17112493 17115201 17118624 17197723 17201793 17546381 17608620 17790311 17838536 17842342 17842342 17853921 17853921 17853921 17853921 18116141 18181391 18218019 18395251 18401296 18403155 18502355 18961510 19056475 19058288 19073685 19096860 19133988 19188138 19194131 19271215 19357007 19821565 20040536 20053908 20126912 20246884 20246884 20251117 20283069 20283069 20325229 20347870 20347870 20362183 20362183 20362716 20380257 20383406 20383406 20444781 20489479 20515850 20536493 20545314 20599362 20602810 20709441

SC

M AN U

TE D

chr4_17045560_C_T rs12640561 rs12640561 rs10000500 chr4_17118624_A_G rs13143674 chr4_17201793_C_T rs6843189 rs4698628 chr4_17790311_A_C rs2302210 rs16895868 rs16895868 rs16895888 rs16895888 rs16895888 rs16895888 chr4_18116141_AAGGAA_INDEL rs16896557 rs1503888 chr4_18395251_A_T chr4_18401296_A_G chr4_18403155_A_G rs11936950 rs1452565 rs16898037 chr4_19058288_G_T chr4_19073685_A_T chr4_19096860_C_T rs9992304 chr4_19188138_A_C rs7657606 chr4_19271215_C_T rs1844731 rs7658418 chr4_20040536_C_T rs1032133 rs16869213 rs16869426 rs16869426 rs614158 rs17601458 rs17601458 chr4_20325229_C_T rs11935965 rs11935965 rs4368605 rs4368605 rs4406013 rs9884539 chr4_20383406_A_T chr4_20383406_A_T rs1473080 rs3756147 rs4696958 chr4_20536493_A_G chr4_20545314_A_G chr4_20599362_C_T chr4_20602810_A_T chr4_20709441_C_T

genotype difference Col_12_CB Col_52_IF Col_12_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_12_IF Col_33_IF Col_12_CB Col_16_TS Col_45_IF Col_52_IF Col_12_IF Col_52_CB Col_45_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_12_CB Col_33_IF Col_33_IF Col_38_CB Col_16_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_38_CB Col_52_IF Col_33_IF Col_34_IF Col_52_IF Col_52_TS Col_52_TS Col_59_CB Col_16_TS Col_38_CB Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_52_CB

RI PT


Marker ID

127

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT TOP BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP BOT

[T/C] [T/G] [A/G] [G/C] [G/C] [G/C] [T/C] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [A/G] [A/G] [A/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/G] [A/G] [T/G] [T/C] [T/C] [A/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [A/C] [A/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/C] [A/G] [A/G] [A/G] [T/C]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

20754460 20953219 21033409 21199278 21199278 21199278 21425057 21469137 21487844 21590684 21655717 21833931 21895517 22161298 22171028 22370669 22414023 22463486 22683706 22860785 22905450 23032220 23331705 23338785 23391351 23451900 23596594 23603378 23615048 23631863 23680862 23738906 23886131 24223553 24223553 24302785 24303147 24489441 24593495 24600040 24742042 25163672 25203905 25203905 25203905 25203905 25347205 25363919 25363919 25533554 26000595 26167227 26176399 26253847 26292555 26498513 26826309 26944314 26944314 26950265

SC

M AN U TE D

AC C

EP

rs1052268 chr4_20953219_A_C rs12233886 rs11946229 rs11946229 rs11946229 rs10022151 corect_rs142502444 rs358581 rs11722935 rs1026523 rs2137650 rs10000092 rs10033940 chr4_22171028_A_G rs955785 rs10002842 chr4_22463486_A_G rs12501294 rs358224 rs61792195 rs4697365 rs4235306 rs2940777 chr4_23391351_A_G rs215428 chr4_23596594_A_G chr4_23603378_A_G rs13121107 rs13118539 rs4697408 rs7656180 chr4_23886131_C_T rs4697052 rs4697052 rs1849098 chr4_24303147_A_G rs7656078 rs10939001 chr4_24600040_A_G rs10012911 rs11937742 rs12502384 rs12502384 rs12502384 rs12502384 chr4_25347205_A_G chr4_25363919_A_C chr4_25363919_A_C rs4697584 chr4_26000595_C_T rs9291482 chr4_26176399_A_G chr4_26253847_C_T rs2871198 rs869902 rs7676115 rs6844153 rs6844153 rs10030655

genotype difference Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_38_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_TS Col_38_TS Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_12_TS Col_16_TS Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_08_TS Col_16_CB Col_38_CB Col_52_IF Col_33_IF Col_38_TS Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_52_IF Col_38_CB Col_33_IF Col_33_IF Col_38_TS Col_52_TS Col_12_CB

RI PT


Marker ID

128

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP BOT TOP BOT BOT BOT TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP PLUS PLUS TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP MINUS MINUS TOP TOP

[A/G] [A/G] [T/C] [T/C] [T/C] [T/G] [T/G] [A/C] [A/G] [A/G] [A/C] [A/G] [T/C] [T/C] [T/G] [T/G] [A/C] [T/C] [A/G] [A/C] [T/G] [A/G] [T/C] [T/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [A/C] [A/G] [A/G] [A/G] [D/I] [D/I] [A/C] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [T/G] [A/G] [T/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/C] [A/G] [A/G] [A/G] [D/I] [D/I] [A/G] [A/G]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

27067027 27115685 27326253 27326253 27412694 27634979 27634979 27661645 27725689 27760141 27805588 27833544 27840590 27914446 27971596 28035302 28134269 28216699 28305543 28315343 28349367 28480415 28608116 28810361 28821006 28832388 28950110 28955155 29180767 29195105 29224491 29241709 29246721 29246721 29246721 29246721 29246721 29254462 29314598 29404976 29430546 29478879 29488265 29488265 29572251 29590146 29663459 29673009 29696261 29720757 29735485 29735485 29739635 29801069 29825693 29953808 29978542 29978542 30055645 30063389

SC

M AN U TE D

AC C

EP

rs4692020 rs16878852 rs11727052 rs11727052 rs210761 rs6838915 rs6838915 rs2034472 rs13126571 rs10014448 rs7686302 chr4_27833544_C_T chr4_27840590_A_G rs1292621 rs2058574 chr4_28035302_G_T chr4_28134269_A_C rs16880367 rs7654040 rs4267724 chr4_28349367_A_C rs7656054 rs17644064 chr4_28810361_A_C rs6844183 rs6850240 rs16881195 rs17705257 chr4_29180767_C_T rs1507439 rs2019100 chr4_29241709_G_T chr4_29246721_A_G chr4_29246721_A_G chr4_29246721_A_G chr4_29246721_GC_INDEL chr4_29246721_GC_INDEL chr4_29254462_G_T rs13114893 rs166333 rs16881823 rs1980023 chr4_29488265_C_T chr4_29488265_C_T chr4_29572251_G_T rs1441670 rs4692410 rs13103435 rs13104601 rs2310079 rs6853827 rs6853827 rs2310084 rs1995488 rs28655724 rs10028915 chr4_29978542_G_INDEL chr4_29978542_G_INDEL rs4692435 rs12499826

genotype difference Col_33_IF Col_08_TS Col_33_CB Col_52_IF Col_38_CB Col_16_TS Col_52_IF Col_33_IF Col_16_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_CB Col_12_TS Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_16_IF Col_16_TS Col_33_IF Col_12_CB Col_16_IF Col_38_CB Col_59_TS Col_38_CB Col_12_CB Col_33_IF Col_52_CB Col_16_IF Col_16_TS Col_08_CB Col_33_IF Col_52_CB Col_12_CB Col_52_TS Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_34_IF Col_33_CB Col_33_IF Col_16_CB Col_38_TS Col_52_CB Col_52_TS

RI PT


Marker ID

129

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT TOP PLUS TOP TOP BOT TOP TOP BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT BOT MINUS BOT BOT TOP TOP TOP TOP TOP TOP TOP

[T/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/G] [A/C] [T/C] [T/G] [T/G] [A/C] [I/D] [A/C] [A/C] [T/C] [A/G] [A/G] [T/G] [T/G] [T/C] [A/G] [A/C] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/G] [I/D] [T/G] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [A/G]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

30094046 30104790 30184038 30184038 30235629 30283576 30397570 30407029 30407029 30427517 30455876 30579183 30630382 30822597 30943209 30992250 30996285 31016990 31080447 31314778 31336078 31338802 31365792 31525698 31636008 31740261 31740261 31815556 31901631 31939001 31941059 31950589 32115320 32196630 32201551 32252484 32279840 32323374 32323615 32345095 32345095 32487183 32521580 32707959 32743963 32793497 32833527 32862457 32895525 32896917 32933536 33046633 33046633 33206192 33206192 33206192 33260997 33260997 33309890 33879862

SC

M AN U TE D

AC C

EP

chr4_30094046_G_T chr4_30104790_C_T rs2256587 rs2256587 chr4_30235629_C_T rs11943105 rs1435782 rs1435787 rs1435787 rs6818540 rs7700123 rs7687443 rs767478 rs16884127 rs4293757 rs10004523 rs6832127 rs7696101 rs3947332 chr4_31314778_G_T chr4_31336078_A_C chr4_31338802_INDEL_TC rs10017667 rs10805304 rs1510801 chr4_31740261_A_G chr4_31740261_A_G chr4_31815556_G_T rs10006001 chr4_31939001_C_T chr4_31941059_C_T rs1523171 chr4_32115320_A_G chr4_32196630_A_G rs12509554 chr4_32252484_C_T chr4_32279840_A_G rs1377892 rs6813232 chr4_32345095_A_G chr4_32345095_A_G chr4_32487183_C_T rs7657618 rs4862896 chr4_32743963_C_T rs11940854 chr4_32833527_A_G rs7439281 chr4_32895525_A_G chr4_32896917_A_C chr4_32933537_A_INDEL kgp10888382 kgp10888382 rs7680581 rs7680581 rs7680581 chr4_33260997_A_G chr4_33260997_A_G rs3098933 rs6531287

genotype difference Col_08_CB Col_38_IF Col_16_TS Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_CB Col_52_IF Col_12_TS Col_33_CB Col_12_CB Col_52_IF Col_33_IF Col_38_IF Col_52_IF Col_33_IF Col_12_CB Col_34_IF Col_52_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_08_CB Col_16_CB Col_33_IF Col_16_IF Col_12_CB Col_38_IF Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_52_CB Col_33_CB Col_33_IF Col_12_CB Col_16_IF Col_38_CB Col_59_TS Col_16_IF Col_59_TS Col_52_IF Col_33_IF

RI PT


Marker ID

130

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT TOP PLUS TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP

[A/G] [T/C] [T/G] [T/C] [A/C] [A/G] [A/G] [A/C] [A/C] [A/G] [C/G] [T/G] [A/G] [A/G] [T/G] [T/C] [A/C] [T/C] [T/G] [T/C] [T/G] [T/G] [T/C] [A/C] [A/G] [T/C] [T/C] [T/G] [T/C] [T/C] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [D/I] [A/C] [A/C] [A/C] [T/G] [T/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/G] [T/C] [A/T] [A/G] [A/C] [T/G] [A/G] [A/C] [A/G]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

33954259 34043420 34122079 34195504 34478767 34488990 34526212 34549367 34557595 34642826 34729439 34774605 34852124 34863594 34872926 34992661 35026277 35074784 35113694 35150193 35166628 35166628 35209201 35235185 35236015 35331719 35389579 35476300 35503973 35503973 35506681 35540791 35554589 35604709 35676909 35724618 35806331 35838532 36005501 36005501 36005501 36153209 36153209 36250842 36317970 36323014 36323014 36330976 36699959 36792676 36851751 36994638 36998478 37036096 37098598 37126314 37163951 37207259 37240580 37264831

SC

M AN U TE D

AC C

EP

kgp2776056 rs13106616 chr4_34122079_G_T rs10034465 rs10011680 rs10019000 chr4_34526212_A_G chr4_34549367_A_C rs6829919 rs1599110 chr4_34729439_C_G chr4_34774605_G_T chr4_34852124_C_T rs10021358 rs1912842 rs16990620 rs6839051 chr4_35074784_C_T rs1480976 rs11943194 rs1383561 rs1383561 chr4_35209201_A_G rs6816663 rs10016775 rs4859348 chr4_35389579_C_T rs1022261 rs9999621 rs9999621 rs6841237 chr4_35540791_C_T rs10517352 rs7667040 rs6531383 rs1596577 rs6854185 chr4_35838532_G_INDEL chr4_36005501_A_C chr4_36005501_A_C chr4_36005501_A_C chr4_36153209_G_T chr4_36153209_G_T rs13103714 rs9995922 rs13131463 rs13131463 rs7684936 rs10517382 rs1114364 rs16992742 rs11096855 rs2588548 chr4_37036096_A_T rs11733992 rs1972697 rs2376241 rs1418876 rs1023730 rs3910363

genotype difference Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_08_CB Col_33_IF Col_33_CB Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_12_CB Col_45_TS Col_59_TS Col_33_CB Col_38_TS Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_52_IF Col_33_IF Col_16_TS Col_38_IF Col_59_TS Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_12_TS Col_33_CB Col_33_IF Col_12_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF

RI PT


Marker ID

131

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP BOT BOT MINUS BOT TOP TOP PLUS BOT TOP BOT TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT PLUS BOT TOP BOT BOT TOP TOP BOT

[T/G] [T/C] [A/G] [A/G] [T/C] [G/C] [A/G] [A/C] [A/G] [A/G] [T/G] [T/G] [D/I] [T/C] [A/G] [A/G] [D/I] [T/G] [A/G] [T/C] [A/C] [A/G] [T/C] [T/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/C] [A/G] [A/G] [A/C] [T/A] [T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/C] [A/C] [A/C] [T/C] [D/I] [T/C] [A/C] [T/C] [T/C] [A/G] [A/G] [T/A]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

37513594 37768632 37785000 37785000 37854182 37898926 38433461 38484247 38588453 38654681 38760338 38760338 38907606 38988587 39452290 39452290 39553345 39641932 39921551 40047752 40071832 40075187 40363567 40383379 40410479 40582704 41175148 41186226 41186226 41220655 41225831 41411891 41592743 41746460 41786214 41786214 41872333 41894024 41894024 41962491 42066717 42105865 42107115 42127678 42253010 42331579 42379030 42708694 42847901 42883195 42883195 43056339 43072165 43147514 43245722 43254582 43254582 43432922 43432922 43455941

SC

M AN U TE D

AC C

EP

rs2973271 chr4_37768632_A_G rs4463081 rs4463081 rs4832960 rs17496783 chr4_38433461_A_G rs57494127 chr4_38588453_A_G chr4_38654681_C_T chr4_38760338_G_T chr4_38760338_G_T chr4_38907606_G_INDEL rs17583467 rs9995998 rs9995998 chr4_39553345_G_INDEL rs1484321 rs6839903 rs12503993 rs10017867 rs7658672 rs75253308 rs1826394 rs4861106 chr4_40582704_C_T rs7683197 rs10022718 rs10022718 rs62410041 rs13101324 rs10938151 rs6447096 rs6826373 rs1540499 rs1540499 chr4_41872333_G_T chr4_41894024_A_G chr4_41894024_A_G rs1043343 rs79424442 chr4_42105865_A_C chr4_42107115_A_G chr4_42127678_A_G rs17530845 rs748360 chr4_42379030_C_T rs2575527 rs12642552 rs7655156 rs7655156 chr4_43056339_A_G chr4_43072165_G_INDEL rs10213019 chr4_43245722_G_T rs10938268 rs10938268 rs2347044 rs2347044 chr4_43455941_A_T

genotype difference Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_08_TS Col_33_CB Col_33_IF Col_16_TS Col_33_IF Col_33_CB Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_16_TS Col_33_CB Col_45_TS Col_16_CB Col_52_IF Col_38_CB Col_33_TS Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_38_TS Col_12_IF Col_33_IF Col_33_IF Col_52_CB Col_38_TS Col_33_IF Col_52_TS Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_38_CB Col_12_IF Col_33_IF Col_12_TS Col_45_IF

RI PT


Marker ID

132

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP TOP BOT TOP TOP BOT TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT TOP BOT BOT BOT TOP BOT BOT TOP TOP BOT BOT

[T/A] [A/G] [T/C] [A/C] [A/G] [A/C] [A/G] [A/G] [A/T] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/C] [T/C] [A/G] [A/G] [T/G] [A/C] [A/C] [A/C] [A/G] [T/C] [T/C] [T/A] [A/G] [T/C] [T/C] [T/C] [A/G] [A/C] [A/G] [T/A] [T/C] [A/G] [A/G] [A/C] [A/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/G] [T/G] [A/C] [T/C] [T/C] [C/G] [A/C] [T/C] [T/C]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

43455941 43496030 43599872 43654867 43700753 43840138 43854629 44348032 44375929 44395949 44400111 44400111 44457946 44459883 44553869 44571921 44582487 44613120 44642995 44656408 44710346 44935266 44964929 45133240 45175804 45191856 45338654 45338654 45338654 45410556 45433182 45433182 45672347 45773565 45843880 45851084 45851084 46043344 46202634 46232284 46329723 46504523 46741197 46759314 46838259 46838259 47004037 47030696 47210886 47335069 47347289 47492113 47492113 47508540 47563448 47575854 47590365 47687743 47722145 47901259

SC

M AN U TE D

AC C

EP

chr4_43455941_A_T corect_rs114412439 rs9291237 rs16856334 chr4_43700753_A_G rs7675193 rs9790652 rs10517102 chr4_44375929_A_T chr4_44395949_A_G rs17599994 rs17599994 chr4_44457946_C_T chr4_44459883_A_G rs10517108 chr4_44571921_A_G rs10938353 chr4_44613120_C_T chr4_44642995_C_T rs17600990 rs1547525 rs1472395 rs1908807 rs7659184 rs16858082 rs1858410 rs71611931 rs71611931 rs71611931 chr4_45410556_A_G chr4_45433182_A_G chr4_45433182_A_G chr4_45672347_A_T chr4_45773565_C_T chr4_45843880_A_G rs1353014 rs1353014 chr4_46043344_A_G chr4_46202634_G_T corect_rs192018700 rs279845 rs4695161 chr4_46741197_A_G rs10938457 rs12503660 rs12503660 rs1512144 chr4_47030696_C_T chr4_47210886_C_T rs13116530 rs7665508 chr4_47492113_G_T chr4_47492113_G_T rs6829033 exm-rs10938494 chr4_47575854_A_G rs6858092 chr4_47687743_G_T rs2352143 rs4475122

genotype difference Col_52_IF Col_38_IF Col_33_IF Col_33_IF Col_33_CB Col_38_TS Col_33_IF Col_38_CB Col_33_IF Col_52_TS Col_33_IF Col_52_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_12_IF Col_52_CB Col_16_CB Col_33_IF Col_16_TS Col_33_IF Col_16_IF Col_33_TS Col_38_CB Col_38_IF Col_16_TS Col_52_IF Col_33_CB Col_33_IF Col_33_IF Col_38_TS Col_52_IF Col_52_CB Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_52_CB Col_34_CB Col_52_IF Col_33_IF Col_38_CB Col_52_TS Col_38_CB Col_12_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF

RI PT


Marker ID

133

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP TOP BOT BOT TOP TOP PLUS TOP BOT TOP TOP TOP BOT BOT BOT TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP BOT BOT TOP BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT BOT TOP MINUS BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT TOP TOP

[A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/C] [D/I] [A/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/C] [T/A] [T/C] [T/C] [T/C] [T/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [C/G] [A/G] [A/C] [T/G] [T/G] [T/C] [A/G] [D/I] [T/C] [T/C] [T/C] [G/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/C]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

47913127 48082095 48083021 48083021 48090824 48132891 48134118 48437360 48657496 48722559 48757343 48989358 49062892 52883526 52884239 53325022 53561060 53986846 53996008 53996008 54355824 54460824 54508525 54612302 54633159 54726408 54761404 54785021 54986912 55124460 55368702 55461215 55478047 55543834 55689495 55894238 55957723 56000580 56179883 56309992 56319350 56512574 56629771 56700160 56700160 56702299 56921302 56938308 57190242 57228185 57457918 57532345 57586154 57807843 58005459 58352237 58355015 58393319 58395415 58408330

SC

M AN U TE D

AC C

EP

rs4695306 chr4_48082095_C_T rs12647931 rs12647931 chr4_48090824_C_T rs885443 rs11931912 rs10805168 chr4_48657496_AAC_INDEL corect_rs116183051 chr4_48757343_C_T rs4695414 rs11725957 chr4_52883526_C_T rs225160 rs11732165 chr4_53561060_A_G rs4864723 chr4_53996008_C_T chr4_53996008_C_T rs6838260 rs1464028 chr4_54508525_A_T rs3866377 rs2412494 chr4_54726408_C_T rs2102012 chr4_54785021_C_T rs6850083 rs7677751 rs6838519 chr4_55461215_A_G rs2537883 chr4_55543834_C_T rs1472411 rs13105577 rs17709898 rs17773354 rs1399953 chr4_56309992_A_G chr4_56319350_C_G chr4_56512574_A_G rs4865034 rs12504347 rs12504347 rs2899039 rs77113086 chr4_56938308_AAAG_INDEL rs2292983 rs76402397 rs7670824 rs4074736 rs11725915 chr4_57807843_C_T rs4444899 rs1345040 rs4865234 rs6829715 chr4_58395415_C_T rs2028435

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_12_TS Col_12_CB Col_12_IF Col_33_IF Col_33_IF Col_38_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_08_TS Col_16_TS Col_38_TS Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_12_IF Col_12_CB Col_52_IF Col_33_IF Col_33_CB Col_33_IF Col_52_IF Col_33_IF Col_34_CB Col_12_CB Col_33_IF Col_33_IF Col_45_IF Col_08_TS Col_33_IF Col_33_IF Col_12_CB Col_45_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF

RI PT


Marker ID

134

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP BOT TOP BOT TOP BOT TOP MINUS MINUS BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP TOP BOT PLUS TOP BOT TOP

[T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/C] [A/G] [A/G] [T/G] [T/G] [T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [A/C] [T/C] [A/C] [T/G] [A/G] [T/C] [A/G] [I/D] [I/D] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [T/G] [T/C] [A/G] [T/G] [A/G] [A/G] [T/C] [D/I] [A/G] [T/C] [A/C]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

58560611 58560611 58655901 58684651 58741760 58804694 58810492 58827012 58905915 58913255 58913255 58913255 58974923 59003803 59221416 59436076 59502974 59562549 59627178 59673037 59821197 59835266 60096626 60179526 60179526 60228517 60239646 60751925 60892141 60910436 60910436 60934737 61002067 61031450 61064558 61143085 61204463 61208481 61228159 61233219 61271091 61315476 61315476 61321240 61359894 61360679 61506437 61507007 61528903 61529037 61592332 61626653 61674414 61799685 61803301 61984568 61990000 61992249 62007979 62015576

SC

M AN U TE D

AC C

EP

rs343503 rs343503 rs1509528 rs1509531 chr4_58741760_A_G chr4_58804694_A_C rs10001131 rs11721426 chr4_58905915_A_G chr4_58913255_G_T chr4_58913255_G_T chr4_58913255_G_T rs17089110 rs12506735 rs1522094 rs9996466 rs282706 chr4_59562549_C_T rs10517447 rs1992941 chr4_59821197_A_C rs6819968 rs12646524 rs10014071 rs10014071 rs1119950 rs10866134 rs13131266 rs11947191 chr4_60910436_C_T chr4_60910436_C_T chr4_60934737_A_G chr4_61002067_C_T chr4_61031450_G_T chr4_61064558_G_T rs2333895 chr4_61204463_A_C rs17090019 chr4_61228159_A_G rs1463351 chr4_61271091_A_G chr4_61315477_A_INDEL chr4_61315477_A_INDEL rs6551553 chr4_61359894_C_T rs11728006 corect_rs141428868 rs975734 rs1439317 rs10024649 rs10012618 rs12504712 rs12502086 rs6851977 rs2604632 rs2034448 chr4_61990000_G_INDEL rs1900957 rs1470645 rs12186207

genotype difference Col_33_IF Col_52_IF Col_16_CB Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_52_CB Col_33_CB Col_34_TS Col_38_IF Col_52_IF Col_33_IF Col_33_IF Col_45_IF Col_33_IF Col_38_TS Col_52_CB Col_12_CB Col_52_IF Col_33_IF Col_34_TS Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_52_IF Col_45_IF Col_52_TS Col_33_IF Col_33_IF Col_52_IF Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_08_CB Col_16_TS Col_38_CB Col_16_TS Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_38_TS Col_12_CB Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_CB Col_16_IF Col_16_IF

RI PT


Marker ID

135

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT TOP TOP BOT TOP BOT TOP BOT BOT BOT TOP BOT TOP BOT BOT BOT TOP BOT TOP BOT BOT TOP PLUS BOT BOT BOT

[A/C] [A/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/C] [A/C] [T/C] [T/C] [T/C] [T/G] [T/C] [A/G] [T/G] [T/C] [A/C] [A/G] [T/C] [T/G] [A/G] [T/C] [A/G] [A/G] [A/C] [T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [G/C] [A/G] [T/C] [A/C] [T/C] [T/C] [T/C] [A/C] [T/C] [A/C] [T/C] [T/G] [T/G] [A/G] [T/C] [A/C] [T/C] [T/C] [A/C] [I/D] [T/C] [T/C] [T/C]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

62015576 62015576 62044559 62132345 62834677 62851157 62868332 62889802 62889802 63042975 63067995 63067995 63097852 63239289 63309789 63448853 63509409 63548942 63553946 63614842 63730296 63735874 63842062 63986398 63986398 64040427 64099349 64119406 64122164 64164124 64309441 64309441 64315104 64332005 64359382 64392617 64494182 64582983 64769162 64872898 64948753 64976578 65041380 65041380 65141811 65164696 65170415 65275603 65285909 65285910 65343461 65400518 65403406 65408723 65437394 65574910 65710032 65784245 65894569 65996512

SC

M AN U TE D

AC C

EP

rs12186207 rs12186207 rs1449613 rs1505664 chr4_62834677_C_T rs17292128 chr4_62868332_A_G chr4_62889802_G_T chr4_62889802_G_T rs2193120 rs1563796 rs1563796 kgp1378312 rs7692732 rs778572 rs6854419 rs12500171 chr4_63548942_A_C chr4_63553946_A_G rs3922569 rs6551725 rs17658230 rs2660598 chr4_63986398_C_T chr4_63986398_C_T rs7679758 rs996473 chr4_64119406_C_T chr4_64122164_A_G chr4_64164124_A_G rs1514950 rs1514950 rs7689785 rs13133029 rs1399530 rs28394673 chr4_64494182_C_T chr4_64582983_C_G rs13116801 chr4_64872898_A_G rs17697056 rs10002861 chr4_65041380_C_T chr4_65041380_C_T chr4_65141811_A_C rs11930994 rs7656244 chr4_65275603_A_G chr4_65285909_G_T chr4_65285910_G_T rs11725219 chr4_65400518_A_G rs10032135 rs1035709 chr4_65437394_C_T rs6819000 chr4_65710033_A_INDEL rs6857709 rs17739717 rs10013406

genotype difference Col_38_CB Col_59_TS Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_59_TS Col_33_IF Col_08_IF Col_38_TS Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_52_IF Col_16_IF Col_12_CB Col_33_CB Col_33_CB Col_52_TS Col_33_CB Col_12_CB Col_16_IF Col_16_CB Col_16_IF Col_38_CB Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_59_TS Col_33_IF Col_33_IF Col_12_CB Col_38_CB Col_33_IF Col_16_TS Col_16_IF Col_38_CB Col_33_IF Col_33_IF Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_38_TS Col_33_IF Col_38_TS Col_33_IF Col_34_IF Col_33_IF Col_52_CB

RI PT


Marker ID

136

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT BOT BOT TOP BOT TOP BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP

[A/G] [A/G] [A/C] [A/G] [T/C] [A/G] [A/C] [T/C] [T/C] [A/G] [A/C] [A/G] [T/A] [T/A] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/C] [A/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/G] [T/C] [A/G] [T/C] [A/G] [T/C] [A/C] [A/C] [T/C] [T/C] [T/C] [C/G] [A/C] [A/C] [A/C] [A/G] [T/C] [G/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [C/G]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

66083947 66110165 66167253 66197804 66272411 66335158 66456092 66470077 66550952 66554209 67005499 67012685 67066352 67066352 67188696 67213314 67239293 67239293 67353780 67400846 67400846 67607007 67654478 67683503 67719607 67762959 67774097 67899235 67926946 67994618 68088235 68106106 68199483 68436696 68666190 68727562 68765277 68775707 68796300 69083563 69094575 69094575 69098006 69098006 69220383 69282968 69314847 69314847 69314847 69341579 69500664 69512691 69608887 69616575 69616575 69628948 69694941 69762953 70013537 70079744

SC

M AN U TE D

AC C

EP

rs2349420 rs10517923 rs1376409 rs7349683 rs13120093 chr4_66335158_A_G rs6855605 rs11947738 rs6843972 rs4498177 rs11942020 rs6551997 chr4_67066352_A_T chr4_67066352_A_T rs17087008 chr4_67213314_A_G rs7677846 rs7677846 chr4_67353780_A_G rs9312157 rs9312157 rs7655881 chr4_67654478_C_T chr4_67683503_C_T rs62315620 rs6818708 rs1585959 rs12506221 rs4860813 rs10866177 rs6819869 chr4_68106106_A_G chr4_68199483_A_G chr4_68436696_C_T rs2711136 rs11131729 rs12651048 rs1440740 chr4_68796300_C_T rs10008636 rs2319796 rs2319796 rs6552175 rs6552175 rs11932381 chr4_69282968_C_G chr4_69314847_G_T chr4_69314847_G_T chr4_69314847_G_T rs1454247 rs36069550 rs72551389 rs380168 rs389715 rs389715 rs1119049 rs294772 rs7678798 rs6600900 kgp29210695

genotype difference Col_33_IF Col_16_TS Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_12_TS Col_52_IF Col_12_CB Col_16_IF Col_33_IF Col_38_CB Col_38_IF Col_12_CB Col_52_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_08_TS Col_33_IF Col_33_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_IF Col_45_IF Col_16_TS Col_16_TS Col_33_CB Col_38_CB Col_12_IF Col_33_CB Col_33_IF Col_33_IF Col_16_IF Col_08_TS Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_33_IF

RI PT


Marker ID

137

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT PLUS PLUS BOT TOP BOT BOT BOT TOP

[A/G] [T/C] [A/G] [A/G] [A/C] [A/C] [T/C] [T/G] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/G] [T/C] [A/G] [T/G] [C/G] [A/G] [A/G] [A/C] [T/C] [T/C] [A/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/G] [T/G] [T/G] [T/G] [T/C] [T/C] [A/C] [T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [I/D] [I/D] [T/C] [A/G] [T/G] [T/G] [T/C] [A/G]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

70088601 70120699 70301999 70341550 70350444 70350444 70405837 70547253 70547253 70581441 70595637 70595637 70595637 70595637 70643473 70696922 70725821 70768646 70779891 70820800 70917031 70934328 71008375 71008375 71025548 71035084 71045118 71106017 71108661 71110191 71175451 71175451 71175451 71264191 71339723 71447093 71540886 71550980 71675769 71776935 71892135 71958094 72069713 72069713 72105088 72138970 72412029 72469183 72469183 72515260 72623075 73010866 73048438 73048438 73058546 73322498 73364994 73364994 73388617 73404916

SC

M AN U TE D

AC C

EP

rs6817250 rs6830865 chr4_70301999_C_T rs1569342 rs1121124 rs1121124 rs6825148 chr4_70547253_G_T chr4_70547253_G_T chr4_70581441_A_G chr4_70595637_C_T chr4_70595637_C_T rs3775781 rs3775781 rs6823029 chr4_70696922_A_G kgp3228923 rs10518069 chr4_70779891_C_G rs1491429 rs6853611 rs11249476 chr4_71008375_C_T chr4_71008375_C_T rs11735430 chr4_71035084_C_T rs13151337 rs2249813 chr4_71108661_C_T chr4_71110191_C_T rs7697254 rs7697254 rs7697254 rs11938536 newrs2306949 rs17733915 rs16845359 rs10030711 chr4_71675769_C_T rs12512502 Chr4:71892135:T:C rs6816128 rs2579302 rs2579302 rs2579362 rs1542307 rs3733362 rs1597978 rs1597978 rs2219070 chr4_72623075_C_T chr4_73010866_C_T rs34270308 rs34270308 chr4_73058546_C_T chr4_73322498_A_G rs788927 rs788927 chr4_73388617_C_T rs6446834

genotype difference Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_38_CB Col_12_CB Col_33_IF Col_08_TS Col_52_IF Col_38_IF Col_33_CB Col_38_CB Col_38_CB Col_12_CB Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_CB Col_52_IF Col_12_IF Col_33_IF Col_16_TS Col_16_IF Col_33_IF Col_33_IF Col_16_IF Col_38_CB Col_52_IF Col_12_IF Col_33_IF Col_52_CB Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_45_IF Col_52_CB Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_45_IF Col_33_IF Col_38_TS Col_12_CB Col_59_TS Col_12_IF Col_33_IF Col_45_IF Col_08_CB Col_33_IF Col_16_TS Col_33_CB

RI PT


Marker ID

138

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT PLUS PLUS TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT TOP BOT TOP BOT TOP BOT BOT TOP BOT TOP BOT TOP TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT TOP BOT TOP BOT

[T/C] [A/C] [T/C] [D/I] [D/I] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/G] [A/T] [A/G] [T/G] [G/C] [G/C] [T/G] [T/G] [A/G] [A/G] [T/C] [T/G] [T/G] [A/G] [T/C] [A/C] [T/C] [A/T] [T/C] [T/C] [A/G] [T/C] [C/G] [T/C] [A/C] [A/G] [A/G] [T/G] [T/C] [T/C] [A/C] [T/C] [T/G] [T/C] [T/C] [A/G] [A/G] [A/C] [A/C] [T/C] [A/G] [A/C] [A/C] [A/G] [T/C] [A/G] [T/C] [A/G] [T/G]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

73431464 73518559 73520113 73604445 73604448 73674696 73676614 73684402 73684402 73684402 73767852 73770690 73806636 73862814 73862865 73863809 73863809 73990073 74031095 74058042 74058042 74120910 74173219 74173219 74268658 74269645 74286873 74355248 74362504 74366415 74547407 74748325 74762278 74854169 75082208 75202277 75243119 75526108 76031652 76049479 76082809 76299595 76323522 76519096 76566975 77198986 77278857 77324694 77386372 77386372 77398015 77470300 77662361 77662361 77804009 77865429 77866648 78455567 78533252 78558585

SC

M AN U TE D

AC C

EP

rs12645174 chr4_73518559_A_C chr4_73520113_C_T chr4_73604445_C_INDEL chr4_73604448_GT_INDEL chr4_73674696_C_T chr4_73676614_C_T chr4_73684402_A_G chr4_73684402_A_G chr4_73684402_A_G chr4_73767852_A_G chr4_73770690_G_T chr4_73806636_A_T chr4_73862814_C_T chr4_73862865_G_T chr4_73863809_C_G chr4_73863809_C_G chr4_73990073_A_C kgp4777524 chr4_74058042_A_G chr4_74058042_A_G chr4_74120910_C_T chr4_74173219_G_T chr4_74173219_G_T rs7688274 chr4_74269645_C_T kgp11305995 chr4_74355248_A_G chr4_74362504_A_T chr4_74366415_C_T chr4_74547407_C_T rs6816849 rs509958 chr4_74854169_C_G chr4_75082208_C_T rs17282228 rs10518126 rs7435213 rs6534608 rs11942566 chr4_76082809_A_G rs7674576 rs7683530 rs4859966 rs2037012 rs6812193 chr4_77278857_C_T chr4_77324694_C_T rs4859678 rs4859678 rs10032549 rs10005964 chr4_77662361_A_C chr4_77662361_A_C rs6532686 rs17327923 rs4859727 chr4_78455567_C_T rs10022693 rs2866442

genotype difference Col_12_CB Col_33_CB Col_45_TS Col_33_CB Col_33_CB Col_08_TS Col_33_IF Col_33_CB Col_34_IF Col_12_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_34_CB Col_52_CB Col_33_IF Col_38_TS Col_52_IF Col_16_IF Col_16_IF Col_12_IF Col_33_IF Col_08_CB Col_38_CB Col_34_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_16_TS Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_38_TS Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

139

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP TOP TOP TOP

[A/C] [T/C] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [A/C] [A/G] [A/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/G] [A/C] [A/C] [T/G] [T/C] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/G] [T/A] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [T/C] [T/C] [T/G] [T/C] [A/C] [A/G] [T/C] [A/C] [A/G] [A/C] [A/G] [A/G] [A/G]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

78841872 78936885 78955535 78955535 78974867 78989939 78989939 79126005 79405485 79473056 79694823 79793707 79833827 79833827 79877065 79877065 79904876 79925104 79947170 80308805 80378630 80390999 80457457 80461045 80602865 80602865 80660974 80727235 80727235 80793114 80812960 80821919 80978467 81149169 81254403 81254403 81259984 81543568 81653826 81837449 81996925 82012206 82025809 82069449 82094069 82452878 82452933 82484170 82487845 82515776 82544103 82752721 82896862 83019396 83116329 83486981 83554880 83586671 83659974 83697854

SC

M AN U TE D

AC C

EP

rs7439347 chr4_78936885_C_T rs11930846 rs11930846 rs7677984 rs873455 rs873455 rs10518188 chr4_79405485_C_T chr4_79473056_A_C chr4_79694823_A_G chr4_79793707_A_C chr4_79833827_A_G chr4_79833827_A_G chr4_79877065_C_T chr4_79877065_C_T rs4975154 chr4_79925104_A_G rs286479 chr4_80308805_A_C chr4_80378630_A_C rs7687998 chr4_80457457_A_C rs12507692 rs17447715 rs17447715 rs9993154 rs4314227 rs4314227 rs11735728 rs6847975 chr4_80821919_A_C rs4308327 rs6824301 rs17534376 rs17534376 chr4_81259984_C_T rs1486025 rs11936472 rs6815401 rs2685462 rs2868132 rs1443545 rs7688672 rs1972127 rs1348601 rs10019003 rs10022264 chr4_82487845_A_G chr4_82515776_A_C chr4_82544103_C_T rs685815 rs11099514 rs4693421 rs4693432 chr4_83486981_C_T rs7672297 rs2135507 rs4626189 rs11099549

genotype difference Col_33_IF Col_33_IF Col_33_CB Col_12_IF Col_33_IF Col_33_IF Col_34_CB Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_38_IF Col_52_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_52_TS Col_38_CB Col_08_IF Col_52_IF Col_34_IF Col_33_IF Col_33_CB Col_38_TS Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_52_IF Col_52_TS Col_33_IF Col_16_TS Col_38_TS Col_33_IF Col_33_IF Col_33_CB Col_52_CB Col_38_CB Col_52_IF Col_33_IF Col_52_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_38_TS

RI PT


Marker ID

140

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT TOP BOT TOP TOP BOT TOP BOT TOP TOP TOP BOT MINUS BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT TOP TOP BOT TOP BOT PLUS PLUS BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT TOP BOT BOT TOP BOT TOP BOT TOP BOT TOP TOP BOT TOP

[A/C] [T/C] [T/C] [T/C] [A/G] [T/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/C] [T/C] [D/I] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/C] [T/C] [A/G] [T/C] [D/I] [D/I] [T/G] [T/C] [A/G] [A/G] [A/G] [A/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/A] [A/G] [T/G] [T/G] [A/G] [T/G] [A/G] [T/C] [A/C] [T/G] [A/G] [A/C] [T/G] [A/C]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

83791959 84015122 84015122 84035431 84177179 84226693 84347423 84362474 84364604 84383735 84509367 84517090 84759300 84825877 84902522 85073311 85206535 85215142 85572374 85572374 86036723 86064719 86101484 86219864 86300888 86390334 86390334 86565198 86691595 86810287 86847640 86961936 87087320 87170430 87226433 87250997 87282216 87369063 88509940 88698345 88773849 88852643 88893358 88906458 89011660 89011660 89028478 89066075 89201007 89281683 89306506 89358083 89790593 90036099 90170015 90180437 90186759 90241029 90441824 90522480

SC

M AN U TE D

AC C

EP

rs3762901 chr4_84015122_C_T chr4_84015122_C_T rs6820661 rs10002954 chr4_84226693_G_T rs1565908 chr4_84362474_C_T chr4_84364604_C_T chr4_84383735_C_T exm410530 chr4_84517090_C_T rs7689018 rs4106571 rs3913795 chr4_85073311_AATC_INDEL rs11932874 rs1495145 rs1120 rs1120 rs17009476 rs2869268 rs12510879 chr4_86219864_A_G chr4_86300888_C_T chr4_86390334_A_G chr4_86390334_A_G rs1384135 rs11945319 rs6817562 rs346521 corect_rs147442482 rs7678480 chr4_87170430_C_INDEL chr4_87226433_C_INDEL chr4_87250997_A_C rs10008238 chr4_87369063_A_G rs4693847 rs2100889 rs6532023 rs10005067 chr4_88893358_C_T rs7685225 kgp20836098 kgp20836098 rs2231148 rs6857600 rs7661312 rs9968290 chr4_89306506_A_G chr4_89358083_A_C rs10049947 rs12645173 exm413620 rs6532149 chr4_90186759_A_G rs13104039 rs11097225 rs6852411

genotype difference Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_38_CB Col_33_CB Col_38_CB Col_33_IF Col_08_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_TS Col_38_IF Col_33_IF Col_52_TS Col_12_IF Col_52_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_38_IF Col_38_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_34_CB Col_33_IF Col_52_CB Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_52_CB Col_33_IF Col_12_IF Col_52_CB Col_33_CB

RI PT


Marker ID

141

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP

[T/C] [T/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [G/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [T/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [G/C] [T/C] [A/G] [A/G] [T/C] [T/G] [A/G] [A/G] [A/C] [A/G] [A/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

90641016 90739539 90785341 90785341 90833372 90880403 90942824 90976413 91121751 91121751 91121751 91287204 91567112 91664577 91664577 91700548 91772546 91782570 91843130 91866171 91941868 92042065 92289427 92445336 92454931 92472139 92672743 92737802 92770567 92867432 92889426 92955364 93033010 93100453 93264193 93384244 93398759 93504230 93507599 93553252 93589671 93638479 93640603 94037375 94052135 94117350 94172473 94233967 94402365 94417245 94458391 94458391 94543233 94543882 94566830 94634302 94770476 94775118 94835756 94936015

SC

M AN U TE D

AC C

EP

chr4_90641016_C_T rs1812923 chr4_90785341_A_G chr4_90785341_A_G rs9307077 rs12233759 rs6812321 rs13114320 chr4_91121751_C_T chr4_91121751_C_T chr4_91121751_C_T rs17016910 rs950127 rs1399419 rs1399419 rs11727861 rs17195440 chr4_91782570_C_G rs1454333 rs10433957 rs6830306 rs11936964 chr4_92289427_A_G chr4_92445336_A_G rs17283537 rs12152593 rs17221444 chr4_92737802_C_T chr4_92770567_A_G rs1844346 rs6532349 rs28826883 chr4_93033010_A_G chr4_93100453_C_T rs10009241 corect_rs114425160 rs12643954 rs9685970 chr4_93507599_A_G rs921355 chr4_93589671_A_C rs17019814 chr4_93640603_C_T rs6849575 rs17264265 chr4_94117350_A_C chr4_94172473_C_T rs6854968 rs11097368 rs1905719 rs1435473 rs1435473 rs12503522 rs11728147 rs6856229 rs6850113 chr4_94770476_A_G chr4_94775118_A_G rs2578158 rs11934535

genotype difference Col_33_IF Col_33_IF Col_16_IF Col_52_IF Col_08_CB Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_34_CB Col_33_IF Col_33_CB Col_52_IF Col_12_IF Col_33_IF Col_52_CB Col_38_IF Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_52_IF Col_38_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_IF Col_52_CB Col_33_IF Col_33_IF Col_59_TS Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_52_IF Col_33_IF Col_33_IF Col_33_CB Col_12_IF Col_33_IF Col_33_IF Col_08_TS Col_12_CB

RI PT


Marker ID

142

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT TOP TOP BOT TOP TOP TOP TOP MINUS MINUS TOP BOT BOT TOP BOT BOT TOP TOP BOT TOP BOT BOT BOT TOP BOT BOT BOT PLUS BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP BOT TOP BOT BOT BOT BOT TOP TOP PLUS PLUS TOP TOP MINUS

[A/G] [A/G] [A/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [I/D] [I/D] [A/G] [T/C] [T/C] [A/G] [T/G] [T/C] [A/G] [A/G] [T/A] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/A] [I/D] [T/C] [A/C] [A/C] [T/G] [T/C] [A/G] [T/G] [T/G] [T/G] [T/C] [T/C] [T/C] [T/G] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/G] [T/G] [A/G] [A/G] [D/I] [D/I] [A/G] [A/C] [D/I]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

95027423 95027423 95049123 95081378 95093449 95157156 95175870 95187999 95187999 95187999 95198930 95209413 95209413 95222553 95239462 95255805 95256649 95268272 95274522 95292089 95302915 95312121 95328250 95339036 95341632 95351758 95370584 95370805 95409802 95410555 95413041 95419519 95451193 95451193 95452900 95458029 95472630 95476719 95476719 95476719 95476789 95476789 95476789 95483629 95489082 95500223 95503192 95503902 95510638 95551967 95563814 95577397 95578217 95579800 95585038 95586717 95586727 95587587 95620225 95863699

SC

M AN U TE D

AC C

EP

chr4_95027423_C_T chr4_95027423_C_T chr4_95049123_G_T rs4693373 chr4_95093449_C_T chr4_95157156_A_G chr4_95175870_A_G chr4_95187999_A_G chr4_95187999_A_G chr4_95187999_A_G chr4_95198930_A_G chr4_95209413_INDEL_T chr4_95209413_INDEL_T c4_pos95441576 rs10033662 c4_pos95474828 chr4_95256649_A_G rs1991316 chr4_95274522_A_G chr4_95292089_C_T chr4_95302915_C_T chr4_95312121_A_T chr4_95328250_C_T chr4_95339036_C_T chr4_95341632_C_T chr4_95351758_A_G chr4_95370584_A_G rs2433320 chr4_95409802_C_T chr4_95410555_A_T chr4_95413041_INDEL_T chr4_95419519_A_G chr4_95451193_A_C chr4_95451193_A_C chr4_95452900_A_C chr4_95458029_C_T rs1493112 chr4_95476719_A_C chr4_95476719_A_C chr4_95476719_A_C chr4_95476789_C_T chr4_95476789_C_T chr4_95476789_C_T chr4_95483629_G_T chr4_95489082_A_G chr4_95500223_A_G chr4_95503192_C_T chr4_95503902_A_G chr4_95510638_C_T chr4_95551967_A_G chr4_95563814_A_G chr4_95577397_G_T chr4_95578217_G_T chr4_95579800_A_G chr4_95585038_A_G chr4_95586717_C_INDEL chr4_95586727_G_INDEL chr4_95587587_C_T chr4_95620225_G_T chr4_95863699_AG_INDEL

genotype difference Col_52_TS Col_12_IF Col_33_IF Col_33_CB Col_33_IF Col_38_CB Col_52_IF Col_34_CB Col_38_CB Col_52_CB Col_33_IF Col_08_IF Col_52_IF Col_33_IF Col_34_TS Col_33_IF Col_38_CB Col_38_TS Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_52_TS Col_16_IF Col_34_IF Col_33_IF Col_16_TS Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_52_IF Col_33_IF Col_16_TS Col_33_IF Col_38_CB Col_52_CB Col_12_CB Col_33_IF Col_34_CB Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_38_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

143

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP PLUS PLUS TOP BOT PLUS TOP BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT BOT TOP TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP BOT BOT

[T/C] [T/C] [A/C] [D/I] [D/I] [A/C] [T/C] [I/D] [A/G] [T/G] [T/G] [T/C] [A/G] [A/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [A/G] [A/G] [T/G] [T/C] [A/G] [A/G] [A/G] [A/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [C/G] [A/G] [T/G] [A/C] [A/G] [A/G] [A/G] [A/C] [A/G] [T/C] [T/C] [T/C] [A/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/G]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

95864795 95867338 95886840 95893438 95893438 95914424 95933337 95946810 95998140 96046487 96046487 96260842 96294936 96298026 96370235 96381120 96383256 96389809 96434992 96730586 96814281 96816411 96880695 96897523 96918295 97037704 97356378 97503973 97776070 98028475 98045861 98200637 98210045 98219875 98219875 98250173 98423768 98423768 98441586 98627218 98710962 98819843 99126372 99208535 99208535 99265074 99322767 99525467 99555740 99607509 99608363 99788605 99959932 99988713 99989259 99992365 99992365 100185664 100240002 100247570

SC

M AN U TE D

AC C

EP

chr4_95864795_C_T rs3796413 chr4_95886840_G_T chr4_95893438_INDEL_TTGT chr4_95893438_INDEL_TTGT rs1545326 rs12500473 chr4_95946810_AGA_INDEL chr4_95998140_C_T chr4_96046487_A_C chr4_96046487_A_C rs1552225 rs2621458 rs17371089 chr4_96370235_A_G chr4_96381120_C_T rs3846452 chr4_96389809_C_T rs1905850 rs17024592 rs13131407 rs6848902 rs17024939 rs6823094 rs6855600 chr4_97037704_A_C rs10516995 rs17514862 rs6532654 chr4_98028475_A_G rs2865763 rs1462758 rs17026605 rs10213670 rs10213670 chr4_98250173_A_G chr4_98423768_A_G chr4_98423768_A_G rs6814444 chr4_98627218_C_G chr4_98710962_A_G rs722024 kgp3417587 rs10028275 rs10028275 rs6532732 rs2063745 chr4_99525467_A_G rs12509052 chr4_99607509_A_G rs7680513 rs7669736 chr4_99959932_C_T rs17595186 rs1230155 rs28730652 rs28730652 rs17583753 rs1229983 rs1789888

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_34_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_CB Col_33_IF Col_52_TS Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_45_IF Col_12_CB Col_52_IF Col_33_IF Col_38_IF Col_16_TS Col_16_IF Col_33_CB Col_34_IF Col_33_IF Col_52_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_08_CB Col_08_CB Col_52_CB Col_52_CB Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_08_TS Col_33_IF Col_12_CB Col_33_CB Col_38_CB Col_38_TS Col_12_CB Col_33_IF

RI PT


Marker ID

144

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP BOT PLUS TOP BOT TOP TOP TOP PLUS TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT TOP BOT BOT TOP BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT TOP BOT TOP BOT

[A/G] [A/G] [G/C] [T/A] [A/T] [T/C] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/C] [T/C] [A/G] [T/C] [D/I] [A/C] [T/C] [A/G] [A/G] [C/G] [D/I] [A/G] [A/G] [A/G] [C/G] [T/C] [A/G] [A/G] [A/G] [A/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/C] [A/G] [T/G] [A/C] [T/C] [T/C] [T/C] [T/G] [A/G] [T/C] [A/C] [T/G]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

100251460 100310603 100333846 100333977 100355490 100377466 100407388 100441886 100639912 100753527 101133129 101250504 101307674 101386657 101432849 101544176 101627867 101710132 101983552 102016486 102037719 102095497 102115186 102126179 102240513 102343571 102613885 102616166 102651964 102726073 102737250 102776083 102883425 102948730 102995263 103041012 103041012 103041012 103121300 103121300 103121884 103203500 103373286 103374154 103502325 103734219 103734219 104414511 104447091 104483419 104834423 104840940 104849785 104849785 104855609 104857133 104903879 105059801 105084811 105183577

SC

M AN U TE D

AC C

EP

rs1229864 rs2083686 401070 kgp3087994 rs17529530 rs7665470 rs1354367 rs1354368 chr4_100639912_A_G rs1465518 chr4_101133129_C_T chr4_101250504_A_G rs10516462 exm415746 rs1501096 chr4_101544176_C_T rs7667413 chr4_101710132_C_T chr4_101983552_G_INDEL rs17030746 rs2659546 rs2659504 rs1395475 chr4_102126179_C_G chr4_102240513_C_INDEL rs4699215 rs12644085 rs11723683 chr4_102651964_C_G rs6833249 rs10028805 rs6849308 chr4_102883425_C_T rs2631268 rs6842661 chr4_103041012_A_G chr4_103041012_A_G chr4_103041012_A_G chr4_103121300_A_G chr4_103121300_A_G chr4_103121884_C_T rs2165265 rs13116385 rs10000030 corect_rs149759093 rs10005010 rs10005010 rs420934 rs445761 rs434269 rs6845362 chr4_104840940_A_C chr4_104849785_A_G chr4_104849785_A_G chr4_104855609_C_T chr4_104857133_A_C rs2866673 rs882920 rs795135 corect_rs148218291

genotype difference Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_33_IF Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_CB Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_38_TS Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_08_CB Col_16_TS Col_16_IF Col_12_CB Col_52_IF Col_12_CB Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_38_CB Col_12_CB Col_38_CB Col_12_IF Col_52_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_34_CB Col_33_IF Col_33_IF Col_08_TS Col_38_IF Col_16_TS Col_38_TS Col_33_IF Col_34_IF Col_33_IF Col_12_IF Col_33_IF Col_38_TS

RI PT


Marker ID

145

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP TOP TOP PLUS BOT MINUS TOP BOT TOP MINUS TOP BOT BOT MINUS TOP TOP TOP BOT TOP BOT TOP TOP TOP TOP BOT TOP MINUS TOP BOT BOT TOP TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP MINUS TOP TOP BOT TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP PLUS TOP

[A/G] [A/C] [A/C] [A/C] [A/C] [C/G] [D/I] [T/C] [D/I] [A/G] [T/C] [A/C] [I/D] [A/G] [T/C] [T/G] [I/D] [A/G] [A/G] [A/G] [T/C] [A/C] [T/C] [A/G] [A/G] [A/C] [A/G] [T/A] [A/G] [D/I] [A/G] [T/C] [T/G] [A/T] [A/G] [A/G] [T/C] [T/C] [A/G] [T/G] [A/G] [A/C] [A/C] [A/G] [D/I] [A/C] [A/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/C] [T/C] [T/C] [A/G] [A/T] [A/G] [D/I] [A/G]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

105454960 105511810 105511810 105511810 105511810 105604840 105621013 105626771 105652125 105658793 105683952 105684113 105692145 105752509 105756797 105766828 105792411 105794260 105797476 105797476 105811657 105821431 105831587 105861894 105867705 105890017 105890515 105966228 106032945 106044103 106048563 106049147 106066293 106071597 106084643 106084778 106092540 106095243 106105751 106115450 106134316 106140501 106152877 106167744 106168534 106173199 106173199 106174382 106183474 106190226 106213874 106216205 106217358 106242286 106242286 106260427 106265348 106288827 106309008 106316427

SC

M AN U

TE D

rs17034592 rs17034684 rs17034684 rs17034684 rs17034684 rs72662402 rs5860779 rs7656215 chr4_105652125_AAAC_INDEL rs72664124 chr4_105683952_C_T rs71599018 chr4_105692145_CTT_INDEL chr4_105752509_A_G chr4_105756797_A_G rs72963241 chr4_105792411_INDEL_TA rs6533163 rs4579119 rs4579119 rs62329749 rs10516511 rs17239230 rs75664769 rs72664174 rs1490586 rs2291507 chr4_105966228_A_T rs2214409 chr4_106044103_INDEL_TTGC rs11097881 rs4698932 rs17035311 rs763480 rs6825684 rs9790517 chr4_106092540_C_T rs35515350 chr4_106105751_C_T rs1015521 rs6855629 rs7655890 rs7658539 rs62330911 chr4_106168534_AAAG_INDEL rs2726518 rs2726518 chr4_106174382_A_G rs2726458 rs2647250 rs6533185 rs12639764 rs2726513 chr4_106242286_A_G chr4_106242286_A_G rs17321108 rs2466918 rs2726496 rs79816697 rs2726528

genotype difference Col_52_TS Col_33_IF Col_52_IF Col_59_TS Col_12_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_IF Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_38_TS Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_12_IF Col_12_CB Col_16_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_CB Col_33_CB Col_33_IF

RI PT


Marker ID

146

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP MINUS TOP PLUS BOT TOP PLUS TOP BOT BOT MINUS BOT TOP BOT MINUS MINUS BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT TOP PLUS TOP TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP BOT TOP TOP BOT BOT TOP

[T/C] [A/G] [T/A] [T/G] [A/G] [A/G] [T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [A/T] [D/I] [A/G] [I/D] [T/G] [A/G] [I/D] [A/G] [T/G] [T/G] [I/D] [T/C] [A/G] [T/G] [I/D] [I/D] [T/G] [T/C] [T/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [D/I] [A/C] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/G] [A/G] [A/C] [T/C] [T/G] [A/G]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

106342555 106344358 106353433 106425877 106439427 106439427 106441882 106441882 106448900 106468720 106472259 106472259 106472259 106478249 106479814 106482757 106506327 106518198 106520742 106556399 106562537 106606569 106606569 106618586 106717797 106767226 106768598 106788161 106788161 106888263 107128360 107246136 107282566 107329974 107358795 107394976 107514495 107514495 107514495 107625430 107670197 107870850 108175571 108175571 108205886 108205886 108205886 108206062 108413235 108413235 108462490 108611941 109158769 109176161 109182392 109306398 109536616 109613948 109714131 109714155

SC

M AN U

TE D

rs78819387 chr4_106344358_C_T rs4698939 rs72957980 rs1388041 rs1388041 rs13130966 rs13130966 rs4082504 rs17430924 rs3756258 rs3756258 rs3756258 rs3796917 rs34705742 rs1116764 rs67691240 rs78583682 rs17035917 rs35258865 rs11946652 rs73837096 rs73837096 chr4_106618587_A_INDEL rs2544426 kgp2944612 kgp9376952 rs35410880 rs35410880 rs4597836 rs13101612 rs3737498 rs3018059 rs3018056 chr4_107358795_C_T rs10516535 rs1522212 rs1522212 rs1522212 rs9784417 rs17482054 chr4_107870850_AGTC_INDEL rs78389285 rs78389285 rs72669703 rs72669703 rs72669703 rs11946611 corect_rs115647190 corect_rs115647190 rs2672469 rs2522422 chr4_109158769_A_G rs1003169 rs11934029 chr4_109306398_C_T rs7691236 rs6852328 rs17039317 rs7692671

genotype difference Col_38_CB Col_33_CB Col_52_TS Col_33_IF Col_16_IF Col_12_IF Col_33_CB Col_38_CB Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_52_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_16_IF Col_38_IF Col_52_IF Col_33_IF Col_16_TS Col_52_TS Col_33_IF Col_34_CB Col_16_IF Col_33_CB Col_52_IF Col_16_TS Col_38_IF Col_12_CB Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_52_IF Col_08_TS Col_33_IF Col_33_IF

RI PT


Marker ID

147

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT MINUS BOT TOP TOP TOP TOP TOP TOP TOP TOP MINUS TOP TOP BOT BOT TOP BOT BOT TOP BOT BOT BOT TOP BOT TOP BOT TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT

[T/C] [A/G] [T/G] [I/D] [T/C] [A/C] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [D/I] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/G] [T/G] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/A] [T/A] [T/A] [A/G] [A/G] [T/G] [T/C] [T/G] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

109774351 109834239 110000675 110014185 110035050 110048604 110077899 110077899 110101280 110155157 110178174 110388034 110388034 110411123 110446454 110454306 110510080 110681527 110734498 110745938 110763413 110803807 110864533 110864533 110976758 111032489 111052049 111173378 111319763 111431444 111437986 111570223 111570223 111649869 111735539 111739156 111780482 111870043 111889470 112198777 112207136 112233572 112345629 112357791 112466269 112503872 112526682 112526682 112526682 112538240 112724717 112793563 113061554 113155817 113155817 113243456 113244313 113260465 113293314 113352628

SC

M AN U TE D

AC C

EP

rs2198329 rs1526131 rs1991219 chr4_110014186_INDEL_T chr4_110035050_C_T rs11947505 rs17039993 rs17039993 rs78524918 rs12640304 rs7675657 rs9985632 rs9985632 chr4_110411123_G_INDEL rs6812906 rs10003981 rs7694402 Chr4:110681527:C:T rs11930711 rs4353905 rs7438763 rs17040963 exm418735 exm418735 chr4_110976758_C_T rs1005594 chr4_111052049_A_G rs1482470 rs1027045 newrs33966350 rs7356191 rs1448818 rs1448818 rs10019689 rs880309 rs13130446 rs10213323 chr4_111870043_C_T rs17042558 rs17043035 chr4_112207136_C_T rs9307366 rs1910455 rs3109360 rs17043348 chr4_112503872_A_G chr4_112526682_A_T chr4_112526682_A_T chr4_112526682_A_T rs980387 chr4_112724717_C_T rs13435138 chr4_113061554_C_T rs7691254 rs7691254 rs12648308 rs1544382 rs2351454 rs7694057 rs13148353

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_45_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_34_TS Col_38_IF Col_52_CB Col_33_IF Col_16_TS Col_33_IF Col_38_CB Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_12_CB

RI PT


Marker ID

148

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP MINUS BOT TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP BOT TOP TOP BOT TOP TOP BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP

[T/C] [A/G] [A/G] [D/I] [T/C] [A/C] [T/G] [A/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/T] [T/G] [T/C] [T/C] [A/C] [A/C] [A/C] [A/C] [A/G] [A/C] [T/C] [T/C] [A/G] [A/G] [T/G] [A/C] [A/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/C] [A/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [T/G] [T/G] [T/C] [T/C] [G/C] [T/G] [A/G]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

113409270 113578266 113617694 113718196 113762103 113779891 113858241 113955681 114005606 114013286 114020087 114080240 114109593 114117472 114122971 114197064 114197064 114201136 114209732 114224954 114225831 114478653 114543214 114551579 114551579 114551579 114551579 114666302 114684727 114698696 114732529 114914110 115146328 115167948 115227215 115253765 115300387 115598095 115605064 115751064 115777133 115813013 115829919 115858331 115939416 115952955 116074054 116377844 116432420 116556770 116566427 116566427 116587862 116606591 116606591 116786795 116934079 117060024 117204467 117300599

SC

M AN U TE D

AC C

EP

rs11936846 rs6533631 rs6533636 chr4_113718196_INDEL_TTC rs10516590 rs1448221 rs4404544 chr4_113955681_A_C chr4_114005606_A_G rs592670 rs6851877 rs17590572 rs11933707 rs2285710 rs6533674 rs29394 rs29394 chr4_114201136_A_G rs29356 chr4_114224954_A_T chr4_114225831_G_T rs11728021 rs6826859 rs17630730 rs17630730 rs17630730 rs17630730 chr4_114666302_A_G chr4_114684727_G_T rs1476569 rs1081010 rs17581675 rs1497595 rs2725520 rs4597902 rs4444907 chr4_115300387_A_G kgp3047504 rs4834428 rs12648047 rs7673354 rs11938588 rs7675371 rs1020219 rs6856543 rs979513 rs7681396 rs13131555 rs7438394 chr4_116556770_A_G chr4_116566427_C_T chr4_116566427_C_T chr4_116587862_A_C corect_rs189082295 corect_rs189082295 rs9999955 chr4_116934079_C_T chr4_117060024_C_G chr4_117204467_A_C rs7675851

genotype difference Col_52_CB Col_33_IF Col_38_CB Col_33_IF Col_12_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_34_CB Col_52_CB Col_33_IF Col_33_IF Col_38_CB Col_52_IF Col_12_CB Col_33_IF Col_08_TS Col_16_TS Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_52_IF Col_12_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_TS Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_08_IF Col_52_IF Col_33_IF Col_52_IF Col_52_IF Col_33_IF Col_33_IF

RI PT


Marker ID

149

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT BOT TOP BOT TOP BOT TOP TOP TOP TOP BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP BOT

[A/G] [A/G] [T/A] [T/C] [T/G] [T/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/G] [A/G] [A/G] [T/C] [T/C] [G/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/G] [T/G] [T/C] [T/G] [T/G] [T/G] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/A]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

117379825 117379825 117534971 117546403 117552737 117552737 117555114 117557340 117558365 117568631 117569522 117569522 117597044 117743263 117763136 117780360 117888361 117941847 117950600 118037583 118218045 118321673 118325168 118353315 118488780 118510812 118638662 118985104 119025764 119279098 119311524 119632094 119648399 119770915 119785381 119865067 119865067 119877359 119960937 120165626 120180790 120187611 120217866 120233564 120419776 120453790 120453790 120461032 120494840 120494840 120503663 120574585 120736449 121058095 121081610 121358803 121371794 121417757 121417757 121480871

SC

M AN U TE D

AC C

EP

rs970943 rs970943 chr4_117534971_A_T rs13119404 rs10005909 rs10005909 rs9998023 chr4_117557340_A_G rs10007743 rs13124273 rs4640736 rs4640736 rs12507901 rs4834589 rs6856485 rs1875303 rs1440304 chr4_117941847_C_T rs11098370 chr4_118037583_A_G rs6853512 chr4_118321673_A_G rs17861866 rs6812138 rs11562847 rs6850876 rs6834486 rs2389508 chr4_119025764_C_T rs1514657 rs12498329 chr4_119632094_C_T rs298988 rs10019751 rs2114461 rs4834729 rs4834729 rs28463345 chr4_119960937_C_T chr4_120165626_C_G rs6823331 rs11098499 chr4_120217866_C_T chr4_120233564_C_T chr4_120419776_C_T chr4_120453790_A_C chr4_120453790_A_C chr4_120461032_A_G chr4_120494840_G_T chr4_120494840_G_T chr4_120503663_A_C chr4_120574585_C_T rs10004197 rs6842087 chr4_121081610_A_G rs10518361 rs1685593 rs17050662 rs17050662 rs66824650

genotype difference Col_33_CB Col_52_IF Col_33_IF Col_52_IF Col_08_CB Col_12_CB Col_38_TS Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_38_TS Col_33_IF Col_16_IF Col_52_IF Col_12_IF Col_33_IF Col_33_IF Col_16_IF Col_52_TS Col_12_CB Col_16_CB Col_33_IF Col_33_CB Col_33_IF Col_16_IF Col_08_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_16_IF Col_52_IF Col_12_IF Col_33_IF Col_34_TS Col_52_IF Col_33_IF Col_33_CB Col_08_TS Col_33_CB Col_16_IF Col_38_CB Col_52_CB Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_38_TS Col_34_CB

RI PT


Marker ID

150

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT TOP MINUS TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT TOP BOT BOT TOP TOP PLUS TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP

[T/C] [A/G] [T/C] [T/C] [A/G] [I/D] [C/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/G] [T/C] [A/G] [T/G] [T/C] [A/T] [T/C] [T/C] [A/T] [A/G] [D/I] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [A/G] [A/G] [T/C] [A/C] [T/C] [G/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

121611827 121642180 121873063 122100257 122222233 122270382 122370037 122429378 122502810 122568322 122580875 122680075 122680075 122750079 122903090 123013545 123229132 123341159 123348979 123664919 123670687 123715055 123885815 124039323 124173635 124175724 124291468 124291468 124291468 124297264 124343951 124391665 124439866 124599279 124599279 124767640 124977672 125188048 125265324 125265324 125320611 125320611 125320611 125399775 125513521 125515296 125519380 125552537 125659601 125811847 125876427 125904528 125973565 125998213 126045547 126169900 126275373 126275373 126275373 126275373

SC

M AN U

TE D

chr4_121611827_A_G rs6838858 rs1450471 rs9784553 rs4642269 chr4_122270383_INDEL_T chr4_122370037_C_G rs4833736 rs7690087 rs725882 rs17384008 rs11937861 rs11937861 rs13145213 rs11098653 chr4_123013545_A_C rs7688384 rs7684187 chr4_123348979_A_C rs13102440 chr4_123670687_A_T rs10005301 rs7673580 chr4_124039323_A_T rs991183 chr4_124175724_AGAG_INDEL chr4_124291468_A_G chr4_124291468_A_G chr4_124291468_A_G rs11098708 rs6534397 rs1389990 rs6534410 chr4_124599279_C_T chr4_124599279_C_T rs1036253 chr4_124977672_A_C rs725001 rs17008065 rs17008065 rs17008117 rs17008117 rs17008117 rs13119813 rs4833990 rs12649449 rs4833993 chr4_125552537_A_G rs10008933 rs1506543 rs13133741 chr4_125904528_C_G rs1391397 rs2390775 chr4_126045547_A_G rs7676378 rs2710562 rs2710562 rs2710562 rs2710562

genotype difference Col_12_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_52_IF Col_33_IF Col_38_IF Col_52_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_CB Col_33_CB Col_52_CB Col_45_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_CB Col_52_IF Col_33_IF Col_33_IF Col_16_TS Col_33_CB Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_38_CB Col_52_IF Col_33_IF Col_34_CB Col_12_IF Col_33_IF Col_52_IF Col_12_IF Col_16_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_08_TS Col_16_TS Col_33_IF Col_52_IF

RI PT


Marker ID

151

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP BOT PLUS BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT TOP TOP

[A/G] [A/G] [T/C] [A/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/C] [A/C] [A/C] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [A/G] [A/T] [A/T] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [I/D] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [A/G] [A/C]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

126295058 126384595 126414605 126688743 126747317 126752842 126780071 126880304 126975201 126975201 126996250 126996250 127017210 127094126 127094126 127094126 127182435 127227818 127247924 127249062 127307134 127343002 127382084 127436398 127436398 127518225 127622803 127644271 127644271 127700428 127727154 127774985 127978786 128046856 128328168 128478408 128478408 128647518 128647518 128716083 129047870 129217267 129315804 129526565 129560718 129611736 129852337 129918665 130003237 130074947 130130312 130133372 130134824 130178102 130196647 130230383 130243662 130294622 130421169 130469784

SC

M AN U TE D

AC C

EP

chr4_126295058_A_G rs4146009 rs10031677 rs4446326 rs6854255 rs12506206 rs10857108 rs7691677 rs7656535 rs7656535 chr4_126996250_C_T chr4_126996250_C_T rs71610156 chr4_127094126_G_T chr4_127094126_G_T chr4_127094126_G_T chr4_127182435_C_T chr4_127227818_C_T rs17836083 rs6534545 chr4_127307134_A_C rs2391054 rs12647338 rs1396524 rs1396524 rs313106 rs17011442 rs2654715 rs2654715 rs7688921 rs12642632 rs17272221 rs6834065 rs13107241 rs6833784 rs10005550 rs10005550 chr4_128647518_C_T chr4_128647518_C_T chr4_128716083_A_G rs4417984 rs6845290 rs11098961 rs10518534 chr4_129560718_A_G rs6856260 chr4_129852338_INDEL_T chr4_129918665_A_C rs1699388 rs13123966 rs488685 rs477926 chr4_130134824_C_T rs6829641 rs4604070 rs4355401 rs58037776 rs11732146 rs600121 rs17372420

genotype difference Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_08_TS Col_33_IF Col_33_IF Col_34_TS Col_16_TS Col_08_CB Col_33_IF Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_16_TS Col_33_IF Col_16_TS Col_34_TS Col_33_IF Col_45_IF Col_38_TS Col_52_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_52_IF Col_12_IF Col_16_TS Col_38_CB Col_16_TS Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_52_IF Col_12_CB Col_34_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_33_IF

RI PT


Marker ID

152

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP

[T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/G] [T/G] [A/G] [A/G] [A/G] [T/C] [T/A] [A/G] [T/C] [T/C] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/C] [T/G] [T/C] [A/G] [T/C] [T/C] [G/C] [T/C] [A/G] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

130476563 130476563 130857829 130928325 131102260 131107527 131131416 131207582 131244421 131339375 131342779 131392651 131431602 131431602 131557538 131589008 131596752 131647872 131668963 131809519 131817577 131824376 131880992 131975827 131983567 132218117 132242896 132790414 132794301 132842896 132842896 132842896 132842896 132868372 132980813 132988240 133050257 133061980 133071142 133110539 133110539 133118600 133196593 133231183 133562149 133577811 133714445 133833738 133964444 134139650 134201076 134274037 134423390 134423390 134450535 134478128 134482324 134540393 134543881 134543881

SC

M AN U TE D

AC C

EP

rs1517066 rs1517066 rs2968955 rs1567192 chr4_131102260_C_T rs1979689 rs11099040 rs10024383 rs17410318 chr4_131339375_C_T rs1355187 rs10001417 rs2871891 rs2871891 chr4_131557538_A_G rs1387452 rs10006622 rs13104564 chr4_131668963_A_T rs12711163 rs17051105 rs1382177 rs12508862 rs1466742 rs2220898 rs10008591 rs4133013 kgp2468967 kgp1082691 corect_rs183188052 corect_rs183188052 corect_rs183188052 corect_rs183188052 kgp10629795 rs1431686 rs11726701 chr4_133050257_G_T rs74501600 rs10028352 chr4_133110539_A_G chr4_133110539_A_G rs10021585 rs904516 rs6835951 rs1435313 rs1583451 rs9996230 rs978335 rs72716694 rs7676691 rs10213462 rs13101921 corect_rs141866699 corect_rs141866699 chr4_134450535_A_G rs1565733 rs903094 rs2713289 chr4_134543881_C_T chr4_134543881_C_T

genotype difference Col_38_CB Col_45_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_34_TS Col_52_IF Col_52_TS Col_16_IF Col_33_IF Col_12_CB Col_16_IF Col_52_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_38_IF Col_52_IF Col_12_CB Col_33_CB Col_38_IF Col_16_IF Col_08_TS Col_33_IF Col_16_TS Col_52_IF Col_12_CB Col_52_IF Col_38_CB Col_33_CB Col_34_TS Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_CB Col_38_CB Col_52_IF Col_08_CB Col_33_IF Col_12_IF Col_12_CB Col_33_IF Col_34_CB

RI PT


Marker ID

153

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP PLUS BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP PLUS BOT BOT TOP TOP BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT

[A/G] [T/G] [T/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [A/G] [I/D] [T/C] [A/G] [A/C] [A/G] [A/G] [T/C] [T/G] [A/C] [A/C] [A/G] [A/C] [T/C] [A/C] [A/G] [A/G] [T/C] [T/C] [A/C] [A/G] [A/G] [A/G] [A/G] [I/D] [T/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/G] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/G]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

134543881 134572146 134572146 134576263 134603887 134670981 134670981 134784379 134815036 134815036 135019690 135121183 135211409 135532390 135678185 135678228 135735630 135769442 135778261 135779831 135793327 135798890 135886041 136020662 136195173 136308581 136316187 136355926 136430842 136503631 136533244 136651244 136723526 136727025 136727025 136833334 136910271 136917065 136917065 136917065 136920756 136940740 137233717 137267384 137267384 137324597 137332146 137358857 137474142 137673414 137746765 137761486 138054384 138063920 138211766 138213225 138296254 138333658 138333658 138348864

SC

M AN U TE D

AC C

EP

chr4_134543881_C_T rs1948964 rs1948964 chr4_134576263_C_T rs1395763 chr4_134670981_A_G chr4_134670981_A_G rs6811342 rs4415013 rs4415013 rs1494989 chr4_135121183_C_T rs11935714 rs13114233 chr4_135678185_C_T rs11938483 rs10155476 chr4_135769442_INDEL_TAA rs12505192 rs7684927 rs6853230 rs6856596 rs7692242 rs11099317 chr4_136195173_G_T rs78318602 chr4_136316187_G_T rs67071054 chr4_136430842_G_T rs4146972 chr4_136533244_A_C rs6811227 chr4_136723526_C_T rs7657021 rs7657021 chr4_136833334_G_T rs4318703 chr4_136917065_A_G chr4_136917065_A_G chr4_136917065_A_G chr4_136920757_INDEL_T rs4580703 rs2110186 rs11099384 rs11099384 chr4_137324597_C_T rs10489022 rs2016184 rs9685146 rs17673757 rs9884859 rs2612165 rs11944907 chr4_138063920_C_T chr4_138211766_A_G rs7670687 chr4_138296254_A_G rs5020420 rs5020420 chr4_138348864_A_C

genotype difference Col_52_TS Col_38_CB Col_12_IF Col_33_IF Col_38_TS Col_33_TS Col_38_IF Col_12_CB Col_38_CB Col_59_TS Col_38_CB Col_33_CB Col_59_TS Col_34_TS Col_33_IF Col_33_IF Col_52_TS Col_34_CB Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_38_IF Col_52_IF Col_16_TS Col_34_TS Col_33_IF Col_34_CB Col_12_CB Col_33_IF Col_33_CB Col_52_CB Col_16_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_16_IF Col_33_CB Col_12_IF Col_33_IF

RI PT


Marker ID

154

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP BOT TOP BOT BOT TOP TOP TOP BOT BOT TOP BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP PLUS TOP BOT TOP TOP BOT TOP BOT

[A/C] [A/T] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/G] [T/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [A/T] [A/T] [T/G] [T/C] [A/G] [T/C] [A/G] [T/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/T] [A/T] [A/G] [A/G] [I/D] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/G]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

138395782 138461878 138479431 138479431 138520936 138576003 138616339 138625647 138764286 138797567 138977173 139153535 139193151 139193151 139258276 139274999 139285764 139361172 139367276 139485229 139495763 139519532 139537855 139537855 139626820 139735886 139856728 140102610 140102610 140519467 140631137 140853533 140939342 141128025 141253396 141404389 141672929 141672929 141757360 141856360 141963286 142187853 142432407 142515516 142723797 142749786 142751662 142751662 142770872 142770872 142795736 142876075 142940198 142999932 143005932 143115192 143132237 143202790 143309895 143325035

SC

M AN U TE D

AC C

EP

rs12643295 chr4_138461878_A_T chr4_138479431_A_G chr4_138479431_A_G rs4391086 rs17049735 rs11946875 chr4_138625647_A_G rs6823023 rs11935362 rs1439502 chr4_139153535_A_G rs1513765 rs1513765 rs7682572 rs448469 rs426029 rs2912470 rs2976490 rs1376082 rs13142307 rs1450453 rs2198030 rs2198030 rs9790693 chr4_139735886_C_T rs6839690 chr4_140102610_A_T chr4_140102610_A_T rs795377 chr4_140631137_C_T chr4_140853533_A_G chr4_140939342_C_T chr4_141128025_A_G rs2874445 rs2874478 chr4_141672929_A_G chr4_141672929_A_G rs76544298 chr4_141856360_A_G rs7687232 rs1304390 rs12644130 rs7671019 rs4956412 chr4_142749786_C_T rs60026740 rs60026740 rs2067811 rs2067811 chr4_142795736_C_T chr4_142876075_C_T chr4_142940199_INDEL_T chr4_142999932_C_T rs336327 rs2130687 rs10452237 chr4_143202790_A_G rs1391097 chr4_143325035_A_C

genotype difference Col_12_IF Col_33_IF Col_38_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_45_CB Col_52_IF Col_33_IF Col_33_CB Col_12_IF Col_33_IF Col_33_IF Col_12_CB Col_12_TS Col_33_IF Col_38_TS Col_59_TS Col_52_IF Col_33_IF Col_33_IF Col_38_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_12_TS Col_33_IF Col_33_IF Col_33_CB Col_38_CB Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_08_TS Col_12_CB Col_08_CB Col_34_TS Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

155

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP BOT TOP BOT TOP BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP PLUS TOP BOT TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT BOT TOP

[T/G] [T/G] [A/G] [T/C] [C/G] [T/C] [A/C] [T/C] [T/C] [T/C] [A/C] [A/G] [T/C] [T/C] [A/C] [A/C] [A/G] [I/D] [A/C] [T/G] [A/G] [A/G] [A/G] [A/G] [A/C] [A/C] [T/C] [A/C] [A/G] [A/G] [T/C] [T/C] [A/C] [A/C] [T/G] [T/C] [T/C] [T/C] [T/C] [G/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/G] [T/C] [C/G]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

143325035 143325035 143367213 143450575 143468231 143827182 144086419 144114423 144114423 144143020 144193117 144206948 144316247 144355388 144575873 144680954 144825754 145102096 145135525 145161554 145293039 145544935 145544935 145562457 145822014 145984839 146309232 146705907 146708343 146890261 146974543 147180527 147216213 147216213 147469133 147495449 147495449 147648358 147734508 147904170 147983095 148229316 148385094 148385094 148393664 148614032 148687610 148916437 149158205 149164905 149293975 149300315 149525713 149562053 149570069 149617217 149755604 149894321 149954364 150156335

SC

M AN U TE D

AC C

EP

chr4_143325035_A_C chr4_143325035_A_C chr4_143367213_A_G rs975136 chr4_143468231_C_G rs11933657 chr4_144086419_G_T chr4_144114423_C_T chr4_144114423_C_T kgp9729209 rs763918 rs12643013 rs13123498 chr4_144355388_C_T rs1349325 rs7687915 rs9997931 chr4_145102106_A_INDEL rs4303930 chr4_145161554_G_T rs970022 rs2575574 rs2575574 rs1398244 rs11100870 rs17781702 rs17728991 chr4_146705907_A_C chr4_146708343_A_G rs9968429 rs13142208 rs2356940 rs9784489 rs9784489 rs1504355 rs1504359 rs1504359 rs4476620 rs12504096 chr4_147904170_C_G rs4835367 rs2714886 rs6537478 rs6537478 rs1878406 chr4_148614032_A_G chr4_148687610_A_G rs10519933 corect_rs116497221 rs17484063 rs76260235 chr4_149300315_A_C rs12644824 chr4_149562053_A_G rs10452224 corect_rs189315756 chr4_149755604_C_T rs13129108 rs11946353 chr4_150156335_C_G

genotype difference Col_34_CB Col_12_CB Col_52_CB Col_45_IF Col_33_IF Col_33_CB Col_33_IF Col_34_IF Col_38_CB Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_52_CB Col_33_IF Col_33_CB Col_33_IF Col_45_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_12_CB Col_33_IF Col_16_TS Col_45_IF Col_33_CB Col_16_IF Col_12_CB Col_33_CB Col_34_IF Col_33_IF Col_52_TS Col_34_CB Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_33_CB Col_33_IF Col_33_IF

RI PT


Marker ID

156

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT TOP BOT TOP TOP TOP BOT TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT PLUS TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP

[T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [A/C] [A/G] [T/C] [T/C] [A/C] [A/G] [T/C] [T/G] [T/G] [A/G] [T/C] [A/G] [A/C] [T/C] [T/A] [A/G] [A/G] [A/G] [T/G] [T/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/G] [A/C] [A/G] [A/G] [A/G] [T/C] [I/D] [A/C] [A/C] [A/G] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [T/G] [A/G]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

150175423 150253761 150288111 150288111 150684793 150712561 150805096 150878634 150909607 150951692 151148045 151231371 151357910 151454015 151519232 151979814 152752413 152841392 153125364 153184316 153337262 153537671 153537835 153553555 153926882 153926882 154006090 154006090 154135692 154191710 154339482 154376222 154708071 154793011 155130661 155166327 155166327 155193398 155197465 155197465 155379883 155424231 155551195 155817202 155865709 155865709 156149811 156200509 156242457 156443877 156511459 156515995 156515995 156633186 156692818 156906461 157008429 157068585 157146395 157231402

SC

M AN U TE D

AC C

EP

chr4_150175423_A_G rs2359333 rs7653957 rs7653957 rs1394843 rs1566801 rs10032726 rs4493520 rs6823811 rs6833562 chr4_151148045_A_G rs1813134 exm428049 rs952225 rs4435730 rs79541792 rs1397684 rs361110 corect_rs143667962 rs2406623 kgp11169529 rs10032212 rs1006842 chr4_153553555_C_T chr4_153926882_A_G chr4_153926882_A_G chr4_154006090_G_T chr4_154006090_G_T rs72727861 rs1470104 rs10030294 rs11732163 chr4_154708071_A_G chr4_154793011_C_T chr4_155130661_A_G chr4_155166327_C_T chr4_155166327_C_T rs4312742 rs2404892 rs2404892 rs11731813 rs4323084 rs6816165 chr4_155817202_A_C chr4_155865709_A_G chr4_155865709_A_G rs2342654 rs35125259 chr4_156242457_INDEL_T rs1400623 rs1842896 chr4_156515995_A_G chr4_156515995_A_G rs10019835 rs1563806 rs1355874 rs13117709 rs10016298 rs4691312 chr4_157231402_A_G

genotype difference Col_33_IF Col_33_IF Col_38_CB Col_52_IF Col_52_CB Col_08_IF Col_16_IF Col_16_TS Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_16_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_CB Col_16_TS Col_33_CB Col_33_CB Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_38_TS Col_45_TS Col_34_TS Col_16_CB Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_16_TS Col_52_CB Col_33_CB Col_16_IF Col_59_TS Col_33_IF Col_52_CB Col_38_IF Col_33_IF Col_33_IF Col_16_TS Col_38_TS Col_33_IF Col_52_IF Col_16_IF Col_33_IF Col_12_CB Col_38_CB Col_33_CB

RI PT


Marker ID

157

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT TOP TOP BOT TOP TOP BOT TOP TOP BOT TOP BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT

[T/C] [T/C] [A/G] [A/C] [A/C] [T/C] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/T] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/C] [T/C] [A/G] [T/C] [T/C] [A/G] [G/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/G] [T/G] [T/C] [T/C]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

157352057 157371613 157380782 157449015 157484641 157492586 157517071 157532464 157533508 157605036 157605036 157605036 157711526 157728165 157776293 157797342 157914261 157960666 158191201 158409780 158434577 158444071 158502750 158502750 158598229 158602153 158779509 158799996 158901664 159045966 159046197 159151917 159168260 159168948 159884401 159912840 159950990 160161057 160173942 160269720 160381253 160393304 160496356 160684402 160684402 160736225 160763750 160974552 161000801 161017379 161041088 161065866 161116677 161127798 161214912 161241653 161323274 161323274 161397166 161479466

SC

M AN U TE D

AC C

EP

rs6536176 rs11938052 rs1352701 rs1402787 rs6536193 rs1608012 rs4569797 chr4_157532464_C_T rs1521719 chr4_157605036_C_T chr4_157605036_C_T chr4_157605036_C_T rs6834932 rs10019565 rs7682857 rs342308 rs1015540 chr4_157960666_A_G corect_rs192167277 chr4_158409780_A_G chr4_158434577_C_T rs1550017 rs6830776 rs6830776 chr4_158598229_A_G rs10024159 chr4_158779509_A_G kgp2392943 chr4_158901664_A_G rs8370 chr4_159046197_C_T chr4_159151917_C_T chr4_159168260_C_T chr4_159168948_A_G chr4_159884401_A_G rs109119 rs6849580 chr4_160161057_C_T rs4690933 chr4_160269720_A_G rs2699006 chr4_160393304_A_G chr4_160496356_A_G chr4_160684402_A_G chr4_160684402_A_G rs35272456 chr4_160763750_C_G rs2711273 rs10031516 corect_rs114786122 rs2464855 chr4_161065866_C_T rs1279186 chr4_161127798_A_G rs953014 chr4_161241653_A_G rs17039540 rs17039540 chr4_161397166_A_G rs17277682

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_52_IF Col_34_IF Col_52_CB Col_33_CB Col_52_IF Col_12_CB Col_34_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_45_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_38_CB Col_12_IF Col_52_IF Col_38_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_CB Col_33_IF Col_34_TS Col_33_IF Col_08_CB Col_08_CB Col_16_TS Col_12_CB Col_33_IF

RI PT


Marker ID

158

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT TOP PLUS BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP PLUS PLUS TOP BOT TOP TOP TOP BOT TOP BOT BOT TOP TOP TOP BOT BOT

[T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/G] [T/C] [A/C] [T/C] [T/C] [A/G] [D/I] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [T/G] [T/G] [T/G] [G/C] [G/C] [A/G] [D/I] [D/I] [A/G] [T/C] [A/G] [A/G] [A/G] [T/A] [A/G] [T/C] [T/C] [A/C] [A/G] [A/G] [T/C] [T/C]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

161632032 161783422 161856343 161861640 161864128 161968079 161982414 161982414 162028591 162076088 162098821 162143173 162248546 162261170 162290714 162301366 162301366 162430978 162563836 162595918 162646894 162714672 162714672 162764014 162908618 162973873 163005050 163039228 163046421 163094997 163094997 163111888 163143346 163195242 163260413 163284350 163284350 163293398 163313959 163322386 163322386 163330891 163330891 163335445 163338256 163338256 163340629 163352294 163354782 163356033 163361420 163364716 163376243 163382034 163403791 163417093 163417343 163446869 163454653 163454653

SC

M AN U

TE D

rs1370171 rs6840597 rs9993952 rs7436001 rs6858095 rs2028307 rs17040579 rs17040579 rs10014253 rs10517736 chr4_162098821_A_C rs12510599 rs12331118 rs4327441 chr4_162290714_INDEL_TCACTA rs17040974 rs17040974 rs11731838 chr4_162563836_C_T rs9308035 rs1982121 rs1560926 rs1560926 rs1440588 chr4_162908618_A_G rs12649057 rs6814301 rs17599262 rs6833160 rs12646105 rs12646105 rs7688606 chr4_163143346_C_T rs4429685 chr4_163260413_C_T 182 182 264 423 467 467 rs12650100 rs12650100 591 chr4_163338255_C_INDEL chr4_163338255_C_INDEL 642 723 732 rs1597472 774 793 rs10029930 922 rs10021001 rs10003033 1165 1303 1377 1377

genotype difference Col_33_IF Col_08_TS Col_33_IF Col_08_CB Col_38_TS Col_33_IF Col_16_IF Col_52_IF Col_52_CB Col_33_IF Col_33_IF Col_38_CB Col_12_IF Col_33_IF Col_33_CB Col_38_CB Col_52_IF Col_16_TS Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_33_CB Col_33_IF Col_08_CB Col_38_TS Col_12_CB Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_08_IF Col_33_IF Col_52_CB Col_12_TS Col_16_IF Col_38_CB Col_38_IF Col_52_IF Col_38_CB Col_38_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_33_IF Col_12_IF Col_38_CB Col_12_IF

RI PT


Marker ID

159

IlmnStrand

SNP

Chr

MapInfo

PLUS TOP BOT BOT BOT TOP BOT BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT BOT TOP TOP BOT TOP BOT BOT BOT TOP TOP TOP

[D/I] [A/G] [T/G] [T/G] [G/C] [C/G] [T/C] [T/C] [T/C] [A/G] [T/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [G/C] [A/C] [A/G] [T/C] [A/C] [A/G] [A/G] [A/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/C] [A/C] [A/C] [A/C] [T/C] [A/G] [A/G] [A/C] [A/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/T] [A/G] [A/G]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

163476976 163514370 163527435 163531165 163532993 163537156 163565725 163587478 163652385 163669176 163714881 163736954 163755717 163755717 163841565 163854178 163884425 163967596 163972939 164020763 164036306 164049916 164058099 164065207 164077386 164126538 164126538 164155332 164158859 164174283 164174283 164174283 164184117 164187033 164231879 164242092 164243214 164243214 164243214 164261444 164261444 164261444 164261444 164452043 164500909 164769258 164865947 165035159 165060898 165060898 165076871 165076871 165256381 165262655 165270471 165317260 165317260 165450983 165559842 165559842

SC

M AN U TE D

AC C

EP

rs71598767 1846 rs195894 1974 1987 2030 2261 chr4_163587478_C_T 2812 2906 3171 3327 3394 3394 chr4_163841565_A_G rs6852825 4079 4435 4467 4733 4806 rs1061075 4883 4907 4965 5108 5108 5202 rs11732470 5270 5270 5270 5295 5302 5518 5565 5572 5572 5572 5649 5649 5649 5649 chr4_164452043_A_G rs6821802 chr4_164769258_A_G rs10857365 rs17675820 rs982257 rs982257 rs1430986 rs1430986 chr4_165256381_C_T rs7662252 chr4_165270471_A_G rs12510747 rs12510747 chr4_165450983_A_T chr4_165559842_C_T chr4_165559842_C_T

genotype difference Col_12_IF Col_12_CB Col_34_TS Col_33_CB Col_16_TS Col_38_IF Col_33_IF Col_12_IF Col_33_IF Col_16_IF Col_33_IF Col_38_TS Col_16_TS Col_33_IF Col_16_TS Col_12_IF Col_52_TS Col_16_IF Col_33_CB Col_33_CB Col_38_IF Col_33_IF Col_16_IF Col_45_TS Col_16_TS Col_16_TS Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_52_IF Col_12_IF Col_33_IF Col_08_TS Col_33_CB Col_33_IF Col_38_TS Col_52_CB Col_12_IF Col_33_CB Col_38_CB Col_45_IF Col_52_IF Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_34_CB Col_08_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_38_CB Col_52_IF Col_33_IF Col_52_IF Col_12_CB

RI PT


Marker ID

160

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT MINUS MINUS BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT BOT TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT

[T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [I/D] [I/D] [T/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/G] [T/C] [T/C] [A/C] [T/C] [T/G] [A/C] [A/G] [T/C] [A/C] [A/C] [A/G] [A/G] [A/G] [A/C] [A/C] [A/C] [T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

165614362 165619147 165623852 165634499 165683917 165725642 165730002 165798986 165798986 165814775 165816811 165903050 165908927 165915018 165924442 165924657 165930786 165930786 165931481 165991448 166023258 166051266 166093898 166099190 166123245 166254973 166259161 166307302 166318397 166319702 166342375 166367871 166369281 166371512 166376087 166390220 166398831 166499765 166535178 166815429 166922146 166960363 167016664 167016664 167024715 167125430 167125430 167204445 167204445 167204445 167284116 167347496 167372860 167455493 167502172 167502172 167594972 167698248 167852917 167852917

SC

M AN U TE D

AC C

EP

rs11935111 rs1121959 chr4_165623852_A_G chr4_165634499_A_G rs17045455 chr4_165725642_A_C rs12501978 rs12500546 rs12500546 rs13152225 chr4_165816811_C_T chr4_165903050_A_G rs12512283 chr4_165915018_A_G chr4_165924442_C_T rs4583719 rs35300809 rs35300809 rs939083 chr4_165991448_A_G chr4_166023258_A_G chr4_166051266_A_G chr4_166093898_C_T rs11731244 rs10010241 rs2118496 chr4_166259161_C_T chr4_166307302_A_G chr4_166318397_C_T rs1543915 rs13125242 chr4_166367871_C_T rs6836074 chr4_166371512_A_C chr4_166376087_A_G rs1370686 chr4_166398831_G_T chr4_166499765_C_T rs9992328 rs1460060 rs79731989 rs17590344 rs4690833 rs4690833 rs1497949 rs353867 rs353867 rs1380497 rs1380497 rs1380497 rs7653953 rs2131247 rs13116203 rs11941399 chr4_167502172_C_T chr4_167502172_C_T rs10032330 chr4_167698248_C_T chr4_167852917_A_G chr4_167852917_A_G

genotype difference Col_38_CB Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_34_IF Col_45_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_16_IF Col_38_TS Col_12_CB Col_33_IF Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_59_TS Col_08_IF Col_33_IF Col_33_CB Col_33_IF Col_52_TS Col_52_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_52_TS Col_12_CB Col_52_CB Col_12_IF Col_38_CB Col_52_CB Col_12_IF Col_16_IF Col_33_IF Col_38_IF Col_45_IF Col_16_IF Col_52_IF Col_52_CB Col_52_IF Col_16_TS Col_33_IF

RI PT


Marker ID

161

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT BOT TOP BOT TOP BOT TOP TOP BOT TOP TOP TOP TOP TOP BOT BOT TOP TOP BOT TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT MINUS MINUS TOP TOP BOT TOP

[T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/G] [A/G] [T/G] [A/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/C] [A/G] [T/C] [T/C] [A/G] [A/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/G] [T/G] [A/C] [T/C] [T/C] [A/C] [A/C] [A/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [D/I] [D/I] [A/G] [A/G] [T/G] [A/T]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

167852917 167857369 167925272 167982046 167982046 168055473 168120380 168204564 168252561 168308058 168362952 168388824 168470029 168520452 168520452 168545610 168583227 168608035 168608035 168726851 168737612 168855668 168972967 168977085 168977085 169060675 169086441 169086441 169086441 169329321 169532319 169532319 169951395 170059252 170233946 170340744 170340744 170340744 170345893 170558032 170558032 170558032 171451718 171499216 171722438 171873603 171931274 171931274 171931274 171931274 171931274 171982488 172189116 172228547 172238918 172238918 172263090 172263090 172352348 172408937

SC

M AN U TE D

AC C

EP

chr4_167852917_A_G rs6851188 rs17646122 rs13137632 rs13137632 chr4_168055473_C_T rs73861948 rs35520897 rs2319140 rs17601548 rs2706822 rs12644036 rs1478241 rs17053380 rs17053380 rs1356511 rs17524463 rs6858226 rs6858226 rs3885749 rs1971169 chr4_168855668_C_T rs11132000 rs9999798 rs9999798 exm433045 rs4405979 rs4405979 rs4405979 rs1387330 rs12650216 rs12650216 chr4_169951395_A_C rs6553420 rs6815837 rs71622340 rs71622340 rs71622340 rs7655924 rs10023330 rs10023330 rs10023330 chr4_171451718_A_G rs446973 rs10012933 chr4_171873603_C_T chr4_171931274_C_T chr4_171931274_C_T chr4_171931274_C_T chr4_171931274_C_T chr4_171931274_C_T rs78426030 chr4_172189116_A_G chr4_172228547_G_T chr4_172238918_G_INDEL chr4_172238918_G_INDEL rs77053727 rs77053727 rs13120580 chr4_172408937_A_T

genotype difference Col_45_IF Col_52_IF Col_33_IF Col_33_IF Col_52_IF Col_38_IF Col_33_IF Col_12_CB Col_52_IF Col_52_IF Col_33_CB Col_33_IF Col_12_CB Col_52_IF Col_12_IF Col_33_IF Col_33_IF Col_08_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_38_TS Col_52_TS Col_08_TS Col_33_IF Col_38_TS Col_45_IF Col_34_IF Col_16_TS Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_38_TS Col_33_IF Col_16_CB Col_45_IF Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_08_TS Col_16_TS Col_38_CB Col_52_IF Col_12_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_52_CB Col_16_TS Col_33_CB Col_16_TS Col_33_IF

RI PT


Marker ID

162

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT TOP BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT TOP BOT TOP TOP TOP BOT BOT MINUS TOP TOP TOP BOT TOP BOT TOP TOP TOP BOT

[T/G] [T/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [G/C] [G/C] [T/G] [A/G] [T/G] [A/C] [A/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/C] [T/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/A] [T/A] [T/A] [T/C] [A/G] [T/C] [A/G] [T/C] [A/C] [A/G] [A/C] [T/C] [T/C] [I/D] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

172764187 172766201 172842039 172849554 172953080 173013636 173147466 173147466 173169222 173358881 173391836 173391836 173478710 173598033 173614161 173614161 173869550 173893356 174053361 174062459 174062459 174075363 174101050 174101050 174133887 174181380 174497836 174679198 174772568 174822636 174826942 174879877 174894345 174920657 174965215 175022379 175022549 175022549 175022549 175033463 175077652 175103590 175121144 175130097 175158212 175238508 175282806 175412477 175422931 175426512 175442491 175460403 175486220 175523040 175523073 175543263 175602273 175632405 175644689 175650116

SC

M AN U TE D

AC C

EP

rs11132917 chr4_172766201_A_C rs75662450 rs11931247 rs12646854 rs1354631 chr4_173147466_C_T chr4_173147466_C_T chr4_173169222_C_T rs17058476 rs871713 rs871713 rs2332519 rs10520242 chr4_173614161_C_G chr4_173614161_C_G chr4_173869550_G_T chr4_173893356_C_T rs4356895 chr4_174062459_A_C chr4_174062459_A_C rs11734882 rs11942280 rs11942280 chr4_174133887_C_T chr4_174181380_C_T rs4490433 rs13108803 rs6813541 chr4_174822636_A_C chr4_174826942_C_T rs4547776 rs6845317 rs4495020 rs13128730 chr4_175022379_C_T chr4_175022549_A_T chr4_175022549_A_T chr4_175022549_A_T rs6841986 rs11734349 rs6828239 chr4_175121144_A_G chr4_175130097_A_G chr4_175158212_G_T chr4_175238508_C_T rs4467538 rs8752 chr4_175422931_C_T chr4_175426513_A_INDEL chr4_175442491_A_G rs7657391 rs1365621 rs2555675 rs4695935 rs6846164 rs13142152 rs1485945 rs12650824 rs9312559

genotype difference Col_33_IF Col_16_TS Col_12_CB Col_52_CB Col_16_TS Col_38_TS Col_34_IF Col_38_CB Col_16_IF Col_33_IF Col_45_IF Col_12_IF Col_33_IF Col_33_CB Col_33_IF Col_52_CB Col_33_IF Col_12_TS Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_52_CB Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_16_TS Col_33_CB Col_38_TS Col_34_TS Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_12_IF Col_38_TS Col_33_IF Col_33_IF Col_16_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF

RI PT


Marker ID

163

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP BOT PLUS BOT BOT MINUS PLUS BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT BOT TOP TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP BOT BOT TOP BOT TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP

[A/G] [T/C] [I/D] [T/C] [T/C] [I/D] [D/I] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [T/C] [A/G] [A/G] [T/C] [G/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/C] [A/G] [A/G] [T/G] [T/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/G] [T/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [T/C] [T/G] [A/G]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

175675480 175692458 175694619 175705668 175753571 175800892 175803496 175830862 175839725 175839725 175839725 175839725 175842979 175847436 175852900 175854498 175967160 175973814 175997211 176020809 176020809 176051124 176127019 176192357 176226337 176241825 176281423 176287219 176393194 176393194 176555585 176555585 176560577 176591669 176591669 176655160 176660420 176749737 176818871 176825221 177114889 177164064 177237317 177237631 177340623 177340623 177394679 177430980 177490659 177531472 177531472 177611211 177632236 177871520 177895429 177895429 177907949 177993233 178091680 178123945

SC

M AN U

TE D

rs2029570 chr4_175692458_A_G chr4_175694619_AAAC_INDEL chr4_175705668_A_G rs13116721 rs34466319 rs33946163 chr4_175830862_A_G chr4_175839725_C_T chr4_175839725_C_T chr4_175839725_C_T chr4_175839725_C_T chr4_175842979_A_G chr4_175847436_A_C chr4_175852900_C_T chr4_175854498_C_T rs1471480 chr4_175973814_C_T chr4_175997211_C_G chr4_176020809_C_T chr4_176020809_C_T rs72698657 chr4_176127019_A_G chr4_176192357_A_G rs1711988 chr4_176241825_A_G chr4_176281423_C_T chr4_176287219_G_T rs7699269 rs7699269 rs3733398 rs3733398 corect_rs112966832 rs35424424 rs35424424 rs17061928 rs13152426 chr4_176749737_G_T chr4_176818871_C_T rs10033742 rs6820936 rs9790840 rs4305467 rs17062749 rs4146092 rs4146092 rs309732 rs17063208 rs17688977 rs6553973 rs6553973 chr4_177611211_C_T rs1531956 chr4_177871520_C_T rs13104005 rs13104005 rs13434489 rs2583194 chr4_178091680_A_C rs4690374

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_38_CB Col_08_CB Col_16_TS Col_33_IF Col_38_TS Col_38_IF Col_52_TS Col_33_IF Col_33_IF Col_52_IF Col_52_CB Col_52_TS Col_33_CB Col_12_IF Col_16_TS Col_33_IF Col_33_CB Col_52_TS Col_33_IF Col_52_IF Col_33_CB Col_16_TS Col_52_TS Col_33_TS Col_38_CB Col_33_IF Col_16_TS Col_33_IF Col_16_IF Col_16_TS Col_16_TS Col_16_IF Col_16_TS Col_52_TS Col_52_IF Col_33_CB Col_52_CB Col_33_IF Col_52_CB Col_45_TS Col_52_IF Col_33_IF Col_33_IF Col_45_TS Col_59_TS Col_52_IF Col_33_IF Col_08_CB Col_34_CB Col_33_CB Col_33_IF Col_33_IF Col_52_CB

RI PT


Marker ID

164

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT PLUS TOP TOP TOP PLUS BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT

[A/G] [A/G] [T/C] [T/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [D/I] [A/C] [A/G] [A/G] [D/I] [T/C] [A/G] [G/C] [G/C] [A/C] [A/G] [A/G] [A/C] [A/C] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/G] [T/G] [A/G] [T/C] [T/C] [T/C] [T/G] [T/C] [A/G] [A/G] [A/C] [A/G] [T/C]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

178134371 178134371 178209089 178235334 178313450 178346941 178455524 178477452 178510236 178516328 178616830 178745616 178754587 178825682 178825682 178845855 179017973 179023206 179127014 179200396 179200396 179249391 179266260 179299441 179410339 179410339 179418705 179423869 179447164 179447164 179455678 179539753 179662868 179724502 179724502 179828333 179833516 179917392 179976435 179976435 179976435 180039967 180053797 180055500 180068417 180106072 180193914 180255881 180255881 180334106 180341720 180341720 180344099 180418475 180446118 180522174 180564205 180591326 180608655 180658620

SC

M AN U TE D

AC C

EP

chr4_178134371_A_G chr4_178134371_A_G rs1844483 rs6817959 chr4_178313450_C_T rs4690517 rs6812233 rs1920975 chr4_178510236_C_T rs13114753 chr4_178616830_C_T rs17090615 rs10049757 chr4_178825682_A_G chr4_178825682_A_G rs75559388 chr4_179017973_G_T rs533025 chr4_179127014_A_G chr4_179200396_C_T chr4_179200396_C_T chr4_179249391_A_G rs2666044 chr4_179299441_C_T chr4_179410339_C_T chr4_179410339_C_T chr4_179418705_C_INDEL rs2702432 rs998257 rs998257 chr4_179455678_C_INDEL rs5012200 rs346116 chr4_179724502_C_G chr4_179724502_C_G corect_rs112394993 rs12502810 rs930972 rs6816529 rs6816529 rs6816529 rs2028492 rs13145669 rs17067153 rs1036767 rs7671333 rs6828433 rs6818713 rs6818713 rs13122924 chr4_180341720_C_T chr4_180341720_C_T rs1455661 rs2254490 rs4861784 rs2584437 rs6854193 rs2703825 rs982088 chr4_180658620_C_T

genotype difference Col_16_TS Col_52_TS Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_08_IF Col_33_IF Col_33_CB Col_38_CB Col_34_CB Col_08_CB Col_52_IF Col_59_TS Col_52_CB Col_34_CB Col_33_IF Col_52_CB Col_52_CB Col_12_CB Col_16_TS Col_33_IF Col_33_IF Col_38_CB Col_52_IF Col_38_CB Col_33_IF Col_33_CB Col_45_TS Col_16_IF Col_33_IF Col_33_IF Col_38_CB Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_45_TS Col_52_IF Col_12_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_45_TS Col_12_IF Col_33_IF Col_38_IF Col_12_IF Col_12_CB Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB

RI PT


Marker ID

165

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP PLUS BOT BOT TOP TOP TOP TOP TOP PLUS TOP TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT TOP BOT TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT TOP TOP

[A/G] [A/G] [A/G] [I/D] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [I/D] [A/C] [A/C] [A/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [T/A] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/C] [T/G] [A/G] [T/G] [T/G] [T/C] [T/C] [T/C] [A/C] [T/A] [A/G] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G] [A/G]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

180696728 180696728 180696728 180727563 180747463 180786273 180903852 180903852 180903852 180920056 180955602 180957054 181008609 181051943 181051943 181084084 181088534 181098462 181118975 181126498 181193110 181233751 181312837 181312837 181312837 181315369 181321218 181321218 181321218 181335239 181360543 181375630 181571062 181571542 181571618 181574201 181648742 181801052 181868940 181868940 181868940 181868940 182007048 182025198 182157647 182322805 182322805 182434469 182447323 182453413 182537718 182744812 182784916 182786746 182791365 182840601 183013983 183061232 183081780 183100611

SC

M AN U TE D

AC C

EP

rs7678609 rs7678609 rs7678609 chr4_180727564_A_INDEL rs1458669 chr4_180786273_A_C rs4861824 rs4861824 rs4861824 rs6858037 rs17771724 chr4_180957055_INDEL_T chr4_181008609_G_T rs10520442 rs10520442 rs13121605 rs17068788 rs7677721 chr4_181118975_A_G rs10007350 rs7667016 rs17069189 rs6811892 rs6811892 rs6811892 rs4473690 rs55659607 rs55659607 rs55659607 chr4_181335239_A_T chr4_181360543_A_G rs7674341 rs4861441 rs1422513 rs17069934 rs1422511 rs2545288 rs7692001 rs6820051 rs6820051 rs6820051 rs6820051 rs12645608 rs4861902 rs72629617 rs11132055 rs11132055 rs1435497 rs974578 rs4861981 rs9799857 chr4_182744812_A_T rs6823165 chr4_182786746_A_G chr4_182791365_A_C chr4_182840601_A_G rs13140052 rs1125145 rs12640278 chr4_183100611_A_G

genotype difference Col_16_IF Col_33_CB Col_52_IF Col_52_CB Col_33_CB Col_33_IF Col_16_IF Col_38_CB Col_59_TS Col_52_IF Col_12_CB Col_33_IF Col_16_CB Col_16_IF Col_52_IF Col_33_IF Col_38_TS Col_38_TS Col_33_IF Col_45_IF Col_16_IF Col_33_IF Col_16_IF Col_38_CB Col_52_IF Col_33_IF Col_16_IF Col_33_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_34_TS Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_38_CB Col_45_CB Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_12_CB Col_45_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

166

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT TOP BOT TOP TOP TOP BOT TOP TOP BOT TOP TOP BOT TOP MINUS MINUS BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP BOT TOP TOP TOP

[T/C] [T/C] [A/G] [C/G] [C/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/C] [A/G] [A/G] [T/C] [A/G] [T/C] [C/G] [C/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [D/I] [D/I] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/T] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/C] [A/G] [A/G] [A/G] [A/C] [A/G] [T/C] [A/G] [T/G] [A/G] [A/G] [A/G]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4

183132796 183151152 183161677 183321713 183321713 183386971 183431482 183501781 183536086 183576221 183576221 183590236 183618777 183813084 184179699 184249490 184292928 184346461 184346461 184501675 184517243 184588121 184609457 184815885 184843264 184843264 184902148 184902533 184944795 184944795 185196778 185442541 185581754 185957817 186078324 186134204 186357255 186380216 186546136 186547842 186547842 186568945 186568945 186575898 186575898 186979699 186980866 187202794 187365460 187454701 187454701 187454701 187797022 187836373 188009643 188125082 188186955 188311821 188381449 188440149

SC

M AN U TE D

AC C

EP

chr4_183132796_A_G chr4_183151152_A_G rs7669129 rs6838294 rs6838294 chr4_183386971_A_G chr4_183431482_C_T rs6552578 rs12499296 rs11937177 rs11937177 rs2309774 rs4241748 rs4546291 rs7695317 rs2048472 rs6847638 rs60746629 rs60746629 rs7662749 rs7656979 rs4282227 rs10019182 rs62340447 rs11735741 rs11735741 chr4_184902148_C_T rs2309949 chr4_184944795_GC_INDEL chr4_184944795_GC_INDEL rs7670891 chr4_185442541_C_T rs10011005 rs752632 rs13145878 rs2310159 exm437251 chr4_186380216_A_T chr4_186546136_C_T chr4_186547842_A_G chr4_186547842_A_G chr4_186568945_C_T chr4_186568945_C_T chr4_186575898_A_G chr4_186575898_A_G rs7678294 chr4_186980866_C_T chr4_187202794_A_G rs969372 chr4_187454701_C_T chr4_187454701_C_T chr4_187454701_C_T rs172818 rs322429 rs6818214 rs6811993 rs10461324 rs10018680 rs6553069 rs74828773

genotype difference Col_33_IF Col_33_IF Col_12_CB Col_16_IF Col_38_IF Col_08_CB Col_33_IF Col_33_IF Col_38_IF Col_45_CB Col_12_IF Col_59_TS Col_33_CB Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_33_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_38_TS Col_08_IF Col_52_IF Col_34_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_TS Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_33_CB Col_38_TS Col_33_IF Col_33_CB Col_33_IF Col_16_IF Col_33_CB Col_33_IF Col_33_IF Col_16_TS

RI PT


Marker ID

167

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP BOT TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT BOT MINUS BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP TOP

[A/G] [T/C] [T/C] [A/C] [T/C] [G/C] [G/C] [G/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [G/C] [A/G] [A/G] [T/C] [A/C] [A/C] [A/C] [A/G] [T/C] [T/C] [T/C] [A/G] [C/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [I/D] [T/G] [T/G] [T/C] [T/C] [T/G] [T/C] [A/G] [T/C] [T/C] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [C/G] [A/C] [A/G] [T/C] [A/G] [A/G]

4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 4 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

188440149 188615607 188615607 188837917 188842209 188893722 188893722 188900666 188955613 188963851 188963851 189213140 189303437 189522110 189544073 189544073 189554217 189669475 189687397 189759697 189892333 189942126 189967275 190044666 190070914 190088167 190097328 190097328 190126254 190436099 190471899 190685118 190739418 311562 311562 336952 428172 438102 457261 539829 885770 917594 981019 1055367 1065514 1093260 1174450 1203189 1232445 1236791 1236791 1263016 1281506 1287194 1288730 1317251 1317820 1318187 1318491 1322087

SC

M AN U TE D

AC C

EP

rs74828773 rs9992966 rs9992966 chr4_188837917_G_T rs6813823 chr4_188893722_C_G chr4_188893722_C_G rs11935312 chr4_188955613_C_T rs4440286 rs4440286 chr4_189213140_A_G rs7669530 rs4863354 chr4_189544073_C_T chr4_189544073_C_T rs464270 rs7665861 rs4863387 rs6553238 chr4_189892333_A_G rs11132597 rs1982946 rs7695418 rs4241915 rs7699928 rs62340381 rs62340381 chr4_190126254_A_G chr4_190436099_C_G chr4_190471899_A_G chr4_190685118_C_T chr4_190739418_A_G chr5_311562_A_G chr5_311562_A_G rs4957023 chr5_428172_A_INDEL rs10078 chr5_457261_A_C rs772656 rs62330202 chr5_917594_G_T rs10065177 chr5_1055367_C_T exm441479 rs6554595 rs28450197 rs72709403 rs10055742 chr5_1236791_C_T chr5_1236791_C_T rs34714150 Chr5:1281506:C:T rs2853677 Chr5:1288730:G:C Chr5:1317251:C:A rs3816659 Chr5:1318187:C:T rs33955038 rs401681

genotype difference Col_12_TS Col_34_TS Col_52_IF Col_12_CB Col_52_IF Col_16_CB Col_34_TS Col_38_IF Col_33_CB Col_33_IF Col_34_TS Col_33_TS Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_CB Col_12_IF Col_38_CB Col_38_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_08_IF Col_33_IF Col_12_CB Col_45_TS Col_52_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_52_CB Col_52_TS Col_33_IF Col_52_CB Col_33_CB Col_52_IF Col_52_CB Col_52_CB Col_38_IF Col_08_TS Col_33_CB Col_52_TS Col_33_IF Col_33_IF Col_52_CB Col_33_CB Col_33_CB Col_52_CB Col_33_CB Col_33_CB Col_12_CB

RI PT


Marker ID

168

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT TOP BOT TOP TOP BOT BOT BOT BOT MINUS BOT BOT TOP TOP MINUS BOT BOT BOT PLUS TOP BOT BOT TOP BOT BOT BOT TOP BOT TOP TOP BOT TOP BOT TOP BOT BOT BOT PLUS PLUS BOT BOT BOT BOT TOP PLUS TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT TOP PLUS BOT

[T/C] [C/G] [T/C] [C/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [D/I] [T/C] [T/C] [A/G] [A/G] [D/I] [T/C] [T/C] [T/C] [I/D] [A/G] [T/C] [T/C] [A/G] [T/G] [T/C] [T/C] [A/T] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [T/G] [T/C] [T/G] [D/I] [D/I] [T/G] [T/C] [T/C] [T/C] [A/C] [I/D] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [I/D] [T/C]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

1324510 1334017 1344458 1346303 1351538 1353077 1356450 1360893 1360893 1360893 1379227 1392674 1394522 1404726 1408897 1422482 1429333 1431281 1433401 1461886 1463125 1465948 1481992 1489248 1498290 1500489 1507708 1519079 1528082 1532746 1584894 1674759 1692330 1695872 1701068 1706384 1709668 1718537 1723360 1740594 1740594 1758429 1769475 1794061 1805554 1811479 1841916 1855247 1855247 1864856 1873546 1873546 1875037 1880891 1880891 1891134 1896978 1897338 1900137 1905418

SC

M AN U TE D

AC C

EP

rs76659287 Chr5:1334017:C:G rs31490 rs27070 rs37008 chr5_1353077_C_T rs37005 rs72713487 rs72713487 rs72713487 rs11133755 Chr5:1392677:-:G rs27072 rs11564766 rs28363109 rs378607 Chr5:1429333:G:Chr5:1431281:G:A rs4975646 Chr5:1461886:C:T Chr5:1463125:AA:chr5_1465948_C_T chr5_1481992_C_T rs75049635 Chr5:1498290:C:T chr5_1500489_G_T rs73033826 rs4406174 rs77121288 chr5_1532746_C_T chr5_1584894_C_T chr5_1674759_C_T rs2354126 rs72721220 rs17598651 chr5_1706384_C_T rs13155240 chr5_1718537_A_G rs16883827 chr5_1740594_CTA_INDEL chr5_1740594_CTA_INDEL chr5_1758429_G_T rs12518533 chr5_1794061_C_T rs4975731 rs904760 chr5_1841916_AG_INDEL chr5_1855247_A_G rs91316 chr5_1864856_C_T chr5_1873546_A_G chr5_1873546_A_G rs1632597 chr5_1880891_A_G rs2232376 rs73028193 rs10060496 rs35010507 chr5_1900137_A_INDEL chr5_1905418_A_G

genotype difference Col_52_IF Col_33_CB Col_52_CB Col_52_CB Col_52_CB Col_52_CB Col_08_TS Col_33_CB Col_38_TS Col_52_TS Col_08_TS Col_33_CB Col_33_CB Col_33_IF Col_38_IF Col_33_CB Col_33_CB Col_52_TS Col_52_CB Col_33_IF Col_16_IF Col_38_TS Col_08_TS Col_12_IF Col_33_IF Col_38_TS Col_38_TS Col_52_CB Col_33_IF Col_33_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_08_TS Col_52_CB Col_33_IF Col_52_CB Col_52_IF Col_12_CB Col_33_IF Col_08_TS Col_52_CB Col_33_IF Col_12_IF Col_38_TS Col_52_CB Col_52_CB Col_52_CB Col_34_TS Col_38_IF Col_52_CB Col_33_IF Col_52_CB Col_52_CB Col_33_IF Col_52_IF Col_52_CB Col_33_IF

RI PT


Marker ID

169

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP BOT BOT MINUS BOT TOP BOT TOP BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT BOT TOP BOT MINUS BOT BOT TOP BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT BOT TOP MINUS MINUS TOP TOP BOT TOP BOT TOP TOP TOP BOT TOP TOP TOP BOT

[A/G] [T/C] [A/G] [T/C] [T/G] [D/I] [T/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [G/C] [G/C] [G/C] [A/G] [C/G] [C/G] [C/G] [G/C] [A/G] [A/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [I/D] [T/C] [T/C] [A/T] [G/C] [G/C] [G/C] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [D/I] [D/I] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/G] [A/G] [A/G] [A/G] [T/C]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

1918180 1929185 1944308 1953393 1962802 1979755 2012788 2023417 2048159 2051244 2057522 2060834 2089221 2091502 2091502 2091502 2098748 2102755 2102755 2102755 2109111 2118933 2129997 2130959 2149669 2149919 2198664 2202833 2202971 2206752 2211561 2216296 2229187 2230721 2253823 2253823 2254490 2269563 2269569 2275109 2289488 2295483 2307523 2325018 2333303 2350090 2350636 2352931 2367236 2374305 2374762 2379471 2417619 2575392 2605988 2676993 2775566 2818295 2829191 2833151

SC

M AN U TE D

AC C

EP

chr5_1918180_C_T chr5_1929185_C_T chr5_1944308_A_G rs76062618 chr5_1962802_G_T rs79469325 chr5_2012788_G_T chr5_2023417_C_T rs4604224 rs13154748 chr5_2057522_C_T rs35751770 rs7702195 rs10062706 rs10062706 rs10062706 rs62329474 rs72710623 rs72710623 rs72710623 chr5_2109111_C_G chr5_2118933_A_G chr5_2129997_G_T rs7443810 rs72710660 rs7731278 chr5_2198664_A_G chr5_2202833_C_T rs1542430 chr5_2206752_A_INDEL chr5_2211561_C_T rs4263504 rs76107848 chr5_2230721_C_G rs13165559 rs13165559 chr5_2254490_A_C chr5_2269563_A_G chr5_2269569_A_G rs7732508 rs13169891 chr5_2295483_C_T rs7700773 rs161082 rs467939 chr5_2350090_G_INDEL chr5_2350636_G_INDEL chr5_2352931_C_T rs462484 chr5_2374305_C_T chr5_2374762_A_G chr5_2379471_A_G rs315915 rs380259 rs2962561 rs7721778 rs12522364 rs7714315 rs10038356 chr5_2833151_C_T

genotype difference Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_52_IF Col_08_IF Col_33_IF Col_34_IF Col_33_CB Col_16_TS Col_33_CB Col_52_IF Col_12_CB Col_33_IF Col_52_CB Col_52_CB Col_52_CB Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_59_TS Col_12_CB Col_16_TS Col_38_TS Col_38_CB Col_12_CB Col_52_CB Col_52_CB Col_52_CB Col_52_TS Col_12_CB Col_12_CB Col_52_TS Col_12_CB Col_33_IF Col_52_CB Col_52_CB Col_52_CB Col_33_CB Col_12_CB Col_38_IF Col_12_TS Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF

RI PT


Marker ID

170

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT MINUS TOP TOP TOP TOP BOT TOP BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT TOP TOP BOT TOP BOT TOP BOT PLUS TOP BOT BOT TOP TOP

[T/C] [T/C] [T/C] [I/D] [A/G] [A/G] [A/G] [C/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [T/G] [T/G] [T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [T/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/G] [A/C] [T/C] [D/I] [A/G] [T/C] [T/C] [A/G] [A/G]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

2845973 2878297 2908851 2916551 2976927 2976927 2978981 3017872 3119603 3134719 3209477 3215231 3228264 3238813 3360109 3436677 3687018 3868958 3888310 3967342 4006265 4006265 4071067 4204909 4234495 4244462 4321335 4325848 4397765 4405918 4654629 4660369 4928520 4946412 5038356 5052953 5145406 5146395 5165415 5180476 5226211 5254592 5598181 5829193 5848736 5851873 5855519 5911149 5916337 6247401 6265979 6432740 6635882 6666922 6696344 6760518 6804983 6820161 6820833 6864573

SC

M AN U TE D

AC C

EP

chr5_2845973_C_T rs756220 rs17673214 chr5_2916552_A_INDEL chr5_2976927_A_G chr5_2976927_A_G chr5_2978981_A_G chr5_3017872_C_G rs6872141 rs7726783 rs1215666 rs1691086 rs6876947 chr5_3238813_C_T rs10073886 rs7732434 rs7728616 chr5_3868958_C_T rs623918 rs10046096 chr5_4006265_A_C chr5_4006265_A_C rs1187460 chr5_4204909_A_C chr5_4234495_A_G rs265180 chr5_4321335_C_T rs572122 chr5_4397765_C_T rs7718259 rs17692869 chr5_4660369_C_T rs502854 rs30445 rs2561738 rs16874638 rs1863970 rs1863968 rs270178 rs72724110 rs2913615 chr5_5254592_G_T rs11739751 rs7722388 rs2560461 rs2617549 rs2652483 chr5_5911149_A_G rs2455385 rs1870082 chr5_6265979_C_T rs7714347 rs477930 chr5_6666922_A_G rs71606071 rs75287622 rs11949128 rs13174522 rs10044678 rs275499

genotype difference Col_33_IF Col_33_IF Col_52_CB Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_52_CB Col_52_CB Col_52_CB Col_52_CB Col_08_TS Col_52_CB Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_52_TS Col_52_CB Col_52_CB Col_38_CB Col_52_CB Col_33_IF Col_33_IF Col_08_IF Col_33_IF Col_52_CB Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_52_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_33_CB Col_08_TS Col_33_IF Col_52_CB Col_12_CB Col_52_CB Col_33_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

171

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP BOT TOP BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT PLUS BOT TOP BOT BOT TOP BOT BOT BOT TOP TOP

[A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/C] [T/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/C] [A/G] [A/G] [T/G] [A/G] [A/G] [C/G] [T/C] [T/A] [A/G] [T/A] [T/C] [T/G] [T/G] [T/C] [D/I] [T/G] [A/C] [T/C] [T/C] [A/G] [T/C] [T/G] [T/C] [A/G] [A/T]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

6873137 6922386 6943022 6944267 6952197 7006254 7071229 7108672 7118462 7149777 7149777 7149777 7164967 7179551 7202086 7250769 7250769 7364187 7506433 7517418 7527521 7587939 7618592 7717396 7822918 7826058 7992135 8013445 8013445 8049644 8062748 8077509 8077509 8105591 8140979 8172103 8240153 8278166 8349231 8349231 8368862 8389404 8393757 8460548 8509259 8522181 8527994 8527994 8586300 8866408 8908886 9092642 9156101 9158742 9331477 9414199 9438566 9471319 9550770 9697397

SC

M AN U TE D

AC C

EP

chr5_6873137_C_T rs2397719 rs11134195 rs6862164 rs1845852 rs4312853 rs7736268 rs17194818 rs13161773 rs13168690 rs13168690 rs13168690 chr5_7164967_A_G rs13166960 rs10058673 rs9313184 rs9313184 rs11134224 rs7721013 rs10038196 chr5_7527521_G_T rs6555477 rs17828481 rs6878196 rs989634 rs326171 rs1503317 rs2123637 rs2123637 rs6896973 rs6860289 rs2924466 rs2924466 rs7725153 rs1506127 rs163115 rs1857863 rs4640759 rs2964129 rs2964129 chr5_8368862_C_G chr5_8389404_A_G chr5_8393757_A_T chr5_8460548_C_T chr5_8509259_A_T rs11948129 chr5_8527994_G_T chr5_8527994_G_T chr5_8586300_C_T rs66506929 rs2963342 rs253635 rs886508 rs2526121 rs9313273 chr5_9414199_C_T chr5_9438566_A_C rs16882862 rs16883128 chr5_9697397_A_T

genotype difference Col_33_IF Col_33_IF Col_52_CB Col_52_CB Col_52_CB Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_16_TS Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_52_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_52_CB Col_33_IF Col_16_TS Col_12_IF Col_33_IF Col_33_CB Col_16_TS Col_52_IF Col_33_IF Col_33_IF Col_34_IF Col_52_CB Col_52_CB Col_34_IF Col_52_IF Col_12_CB Col_12_IF Col_33_IF Col_33_CB Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_52_CB Col_52_CB Col_33_IF Col_33_IF

RI PT


Marker ID

172

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT BOT TOP BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT

[T/G] [A/C] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [G/C] [G/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [T/C]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

9698490 9717016 9797908 9826608 9826608 9826608 9832022 9941459 9977436 10081435 10202891 10291867 10308240 10372618 10635947 10776404 10785424 10802749 10987114 11041017 11041017 11198928 11250918 11250918 11321184 11336674 11339984 11372743 11404465 11410718 11410718 11427344 11439615 11469640 11518704 11548147 11553664 11553664 11556824 11556824 11564995 11588701 11593348 11593348 11658814 11720017 12006119 12017548 12174518 12174985 12218258 12251916 12577738 12591311 12692686 12710981 12772609 12778499 13019834 13082913

SC

M AN U TE D

AC C

EP

rs960567 chr5_9717016_A_C chr5_9797908_A_C rs9313280 rs9313280 rs9313280 rs1015587 rs1366620 rs38083 rs10052095 rs1508850 rs10060937 rs10072686 rs2607292 rs7703985 chr5_10776404_C_T rs11740309 chr5_10802749_A_C rs10434651 rs11750004 rs11750004 chr5_11198928_A_G rs55730639 rs55730639 chr5_11321184_C_T rs32136 rs32135 rs1859082 rs10053991 rs1469099 rs1469099 rs10474923 chr5_11439615_A_G chr5_11469640_A_G chr5_11518704_C_T rs2561596 chr5_11553664_C_T chr5_11553664_C_T rs2530908 rs2530908 rs7719578 rs12153083 rs7713093 rs7713093 rs10474928 rs6861373 chr5_12006119_A_G rs4541658 kgp7407673 chr5_12174985_A_G chr5_12218258_A_G rs16902110 rs4566790 rs7446632 rs7726441 rs7728700 rs13164269 rs9312811 rs17253174 kgp6923312

genotype difference Col_33_IF Col_52_CB Col_12_CB Col_16_TS Col_33_IF Col_52_IF Col_38_IF Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_52_CB Col_33_IF Col_52_CB Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_38_IF Col_52_CB Col_33_IF Col_38_IF Col_12_CB Col_12_CB Col_52_IF Col_33_IF Col_52_CB Col_33_IF Col_16_IF Col_38_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_38_TS Col_12_IF Col_52_CB Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_52_IF Col_52_IF Col_33_IF Col_12_CB Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_52_CB Col_16_TS

RI PT


Marker ID

173

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP BOT TOP BOT BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP TOP BOT TOP TOP BOT TOP TOP BOT BOT TOP BOT BOT TOP TOP TOP TOP BOT TOP BOT TOP TOP TOP BOT TOP BOT TOP BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT

[T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/T] [A/G] [T/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/C] [T/C] [T/C] [A/C] [A/C] [A/C] [A/G] [T/C] [A/G] [T/C] [A/C] [A/C] [A/G] [T/C] [A/G] [T/G] [A/G] [T/G] [T/C] [T/C] [A/C] [T/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

13162136 13162136 13293074 13348985 13397992 13701525 13701525 13829042 13834445 13834445 13909656 13916506 13931340 14035765 14090114 14151799 14474112 14759246 14838578 14876811 14877474 14944434 15080152 15102438 15278843 15424400 15690455 15747866 15843597 15992699 16103046 16186489 16191417 16191417 16191417 16286973 16381553 16383215 16503147 16514269 16642272 16722969 16727534 16913578 16991693 17112986 17193708 17267995 17333950 17421158 17734581 17791030 17877417 18035736 18078815 18078815 18143541 18281760 18294160 18334938

SC

M AN U TE D

AC C

EP

chr5_13162136_A_G chr5_13162136_A_G rs2028845 rs978845 rs7731918 rs3734111 rs3734111 rs1445815 rs4547927 rs4547927 rs6859484 chr5_13916506_A_C rs1530496 corect_rs114733836 rs9312863 rs6554843 exm445730 rs4702049 chr5_14838578_A_G rs76596678 rs835153 rs835107 chr5_15080152_C_T chr5_15102438_C_T rs7707492 kgp10966797 rs17704215 rs924455 rs257768 rs250498 rs10475072 chr5_16186489_A_G chr5_16191417_G_T chr5_16191417_G_T chr5_16191417_G_T chr5_16286973_A_G rs186758 rs11133844 rs4702147 rs4702150 rs386845 rs153185 chr5_16727534_C_T rs29454 rs6877901 chr5_17112986_A_G rs586087 chr5_17267995_A_G rs298552 rs2941677 rs6894996 rs11958964 rs12659663 rs1390630 chr5_18078815_A_G chr5_18078815_A_G rs17547230 rs1032714 rs986680 chr5_18334938_A_G

genotype difference Col_08_IF Col_33_IF Col_52_TS Col_52_CB Col_52_CB Col_52_CB Col_12_CB Col_12_CB Col_33_IF Col_12_IF Col_52_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_52_CB Col_59_TS Col_33_IF Col_52_IF Col_52_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_52_CB Col_52_CB Col_33_IF Col_34_CB Col_12_CB Col_52_CB Col_33_IF Col_52_CB Col_52_CB Col_16_TS Col_52_CB Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF

RI PT


Marker ID

174

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP BOT TOP TOP BOT BOT TOP BOT BOT BOT TOP TOP BOT BOT TOP BOT TOP BOT TOP TOP BOT TOP TOP BOT TOP BOT TOP TOP BOT BOT MINUS TOP BOT BOT TOP TOP TOP TOP

[A/C] [T/C] [T/C] [A/C] [A/C] [T/C] [T/G] [T/G] [T/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/G] [T/C] [T/C] [T/C] [A/C] [A/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/C] [T/C] [T/C] [A/C] [T/C] [T/G] [T/G] [A/C] [A/C] [T/C] [T/C] [A/G] [T/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/C] [T/G] [A/G] [T/C] [A/C] [A/C] [T/C] [T/G] [D/I] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

18495883 18529071 18588175 18590855 18590855 18618078 18678904 18678904 18684003 18684530 18727016 18791387 18803801 18885119 18913137 18944261 18999510 18999510 19027541 19027541 19028438 19028438 19066292 19067546 19068967 19077737 19093749 19093749 19122024 19199387 19328003 19328003 19376830 19376830 19442672 19447522 19451589 19467722 19547577 19668948 19772620 19865904 19953488 20107527 20261150 20325196 20464464 20539266 20688825 20688825 20997412 21175064 21208080 21585420 21600623 21674640 21696581 21747442 21805266 21925080

SC

M AN U TE D

AC C

EP

rs1405708 rs6876174 chr5_18588175_C_T chr5_18590855_A_C chr5_18590855_A_C chr5_18618078_C_T rs7710886 rs7710886 chr5_18684003_A_C rs961606 rs2102146 chr5_18791387_A_G rs13172937 rs10055996 rs12652071 rs3935803 rs4866134 rs4866134 rs4515302 rs4515302 rs13178830 rs13178830 rs7723526 rs13163797 rs13181998 rs4421107 rs4327600 rs4327600 chr5_19122024_A_C rs10061411 rs2967017 rs2967017 rs925511 rs925511 chr5_19442672_A_G rs9765824 rs346784 rs347703 rs347740 rs1521023 rs7705221 rs1911861 chr5_19953488_A_G rs13170493 rs10473372 rs10056461 rs10067934 rs1651443 rs10063279 rs10063279 chr5_20997412_C_T chr5_21175064_G_T chr5_21208080_AC_INDEL rs2123096 rs4701222 rs516235 corect_rs114102101 rs12108917 rs4485890 rs6452035

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_08_IF Col_16_TS Col_33_IF Col_08_TS Col_52_IF Col_16_IF Col_33_IF Col_38_IF Col_52_CB Col_33_IF Col_52_IF Col_16_IF Col_52_CB Col_33_IF Col_52_CB Col_16_IF Col_52_IF Col_16_IF Col_38_CB Col_52_CB Col_33_IF Col_12_CB Col_52_CB Col_08_CB Col_52_CB Col_33_IF Col_52_CB Col_38_IF Col_52_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_16_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_59_TS Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_CB Col_16_TS

RI PT


Marker ID

175

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP PLUS BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP BOT TOP BOT TOP

[A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/C] [A/C] [A/G] [A/G] [T/G] [T/C] [A/C] [T/G] [T/C] [T/G] [T/A] [T/G] [T/C] [T/C] [A/G] [T/C] [T/G] [T/C] [T/A] [A/G] [I/D] [T/C] [T/C] [T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [A/C] [A/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/A] [A/G] [T/C] [A/G] [T/G] [A/C]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

21925080 22156155 22193967 22206456 22243986 22297726 22398914 22458871 22458871 22652137 22709981 22730468 22761272 22770519 22817855 22863332 22866518 23003634 23139208 23251869 23271146 23289270 23304881 23327406 23337424 23409868 23428613 23548462 23567679 23571543 23884440 24005118 24111077 24211218 24211218 24211218 24229197 24261955 24312312 24322935 24330468 24380195 24472315 24568318 24582110 24582110 24639574 24703201 24789752 24789752 24789752 24826061 24826061 24826061 24862134 24907439 24948391 25027051 25086440 25130699

SC

M AN U TE D

AC C

EP

rs6452035 rs7717005 rs6883351 chr5_22206456_C_T rs4593232 rs961678 rs959266 rs2010548 rs2010548 rs16897695 rs269024 rs9293036 chr5_22761272_C_T rs11953049 rs1442471 chr5_22863332_C_T rs4235521 chr5_23003634_A_T rs1435247 rs12522270 corect_rs149214874 corect_rs139252557 rs16899394 chr5_23327406_G_T rs4701369 rs73743442 rs10941984 chr5_23548463_INDEL_T chr5_23567679_C_T rs16892558 rs1490758 rs6861036 rs13184473 rs10054081 rs10054081 rs10054081 rs10063082 rs12518573 rs61226295 rs1469832 rs6876054 chr5_24380195_C_T rs9283777 rs976968 chr5_24582110_G_T chr5_24582110_G_T rs1505890 rs1896890 chr5_24789752_A_G chr5_24789752_A_G chr5_24789752_A_G chr5_24826061_A_G chr5_24826061_A_G chr5_24826061_A_G chr5_24862134_A_T rs1500198 chr5_24948391_C_T rs6866107 rs6872919 rs12518815

genotype difference Col_52_IF Col_52_CB Col_33_IF Col_33_CB Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_12_CB Col_16_TS Col_33_IF Col_33_IF Col_45_CB Col_12_TS Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_33_IF Col_38_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_16_IF Col_34_TS Col_59_TS Col_52_CB Col_52_TS Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_38_IF Col_52_IF Col_52_IF Col_33_IF Col_08_CB Col_33_IF Col_52_IF Col_16_TS Col_33_CB Col_52_IF Col_12_CB Col_34_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF

RI PT


Marker ID

176

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP TOP BOT BOT TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT TOP BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP BOT TOP BOT BOT BOT BOT PLUS BOT TOP TOP TOP TOP TOP TOP BOT

[T/C] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/T] [T/C] [T/C] [A/G] [A/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/C] [A/G] [T/A] [T/A] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/C] [T/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [I/D] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

25248251 25334013 25386522 25386522 25396006 25515935 25532432 25541381 25561508 25568777 25568777 25582198 25644220 25658882 25698030 25700355 25703839 25712977 25773733 25899020 25991167 26003284 26003284 26088877 26114496 26238194 26292369 26292369 26299629 26384007 26420858 26420858 26456504 26534253 26576539 26576539 26576539 26599566 26599566 26652610 26723783 26755279 26777491 26777491 26785851 26787013 26811257 26825919 26872598 27012531 27058850 27141431 27260269 27277045 27277045 27277045 27277045 27277045 27612534 27743375

SC

M AN U TE D

AC C

EP

rs6860994 rs1032987 rs10462265 rs10462265 rs7711948 rs7705483 rs10052032 chr5_25541381_A_G rs13161787 chr5_25568777_A_G chr5_25568777_A_G chr5_25582198_A_T rs7734006 rs10076963 rs1678761 rs10520920 chr5_25703839_C_T chr5_25712977_C_T rs76821397 rs1896731 rs4537025 rs7700465 rs7700465 rs7714043 rs7721783 rs9293229 corect_rs115160853 corect_rs115160853 rs10434626 chr5_26384007_A_G rs9293237 rs9293237 rs1494709 rs1428718 chr5_26576539_A_G chr5_26576539_A_G chr5_26576539_A_G rs2173689 rs2173689 chr5_26652610_C_T chr5_26723783_A_C rs13356265 chr5_26777491_C_T chr5_26777491_C_T rs16896091 chr5_26787013_A_G rs12521749 rs6884457 rs13170179 rs1549641 rs6897759 chr5_27141432_A_INDEL rs2329548 rs7708855 rs7708855 rs7708855 rs7708855 rs7708855 rs11743297 rs7702896

genotype difference Col_52_CB Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_16_TS Col_33_IF Col_08_CB Col_52_CB Col_38_CB Col_52_IF Col_08_IF Col_33_IF Col_33_IF Col_52_IF Col_38_CB Col_33_IF Col_33_IF Col_52_IF Col_52_CB Col_33_IF Col_38_CB Col_52_IF Col_52_CB Col_33_IF Col_52_IF Col_38_CB Col_52_IF Col_16_TS Col_33_IF Col_33_CB Col_45_IF Col_52_IF Col_33_IF Col_34_CB Col_52_IF Col_12_CB Col_34_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_IF Col_52_CB Col_08_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_08_TS Col_16_TS Col_45_IF Col_52_IF Col_12_IF Col_52_IF Col_52_CB

RI PT


Marker ID

177

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP BOT TOP TOP BOT BOT TOP TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT TOP BOT BOT BOT TOP TOP

[A/G] [A/G] [A/C] [A/G] [T/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/A] [T/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/G] [T/G] [T/G] [A/C] [T/C] [T/C] [A/G] [A/C] [A/C] [T/C] [T/C] [A/T] [A/G] [T/G] [T/C] [A/G] [T/G] [T/C] [T/G] [A/G] [A/G]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

27769954 27793344 27929347 27949271 27973753 27975439 27988819 28017229 28195854 28259043 28494602 28513267 28637589 28664932 28664932 28685156 28720094 29020147 29020147 29020147 29020147 29086561 29086909 29129212 29211937 29377102 29397044 29475887 29485841 29562380 29567773 29588682 29596410 29625796 29689730 29697380 29810841 29810841 29978285 30016022 30048332 30048332 30081252 30089045 30136917 30137447 30164476 30164476 30260291 30317487 30333443 30566069 30796594 30906981 30972458 31031638 31033816 31058319 31082855 31098480

SC

M AN U TE D

AC C

EP

chr5_27769954_C_T rs6868258 chr5_27929347_A_C rs11739378 rs919329 chr5_27975439_C_T rs373087 rs1494617 rs62359387 chr5_28259043_C_T rs7712228 rs10472638 chr5_28637589_A_G rs13166838 rs13166838 rs2042321 chr5_28720094_G_T rs16898550 rs16898550 rs16898550 rs16898550 rs6863342 rs6867873 rs160320 rs4398647 rs35104187 rs2877056 chr5_29475887_C_T rs669916 chr5_29562380_A_G rs10069250 chr5_29588682_A_G rs7719200 rs4354058 rs7728669 rs1456631 rs12521126 rs12521126 chr5_29978285_A_G chr5_30016022_G_T rs17510261 rs17510261 rs6865875 rs4147400 chr5_30136917_C_T chr5_30137447_A_G rs10520958 rs10520958 rs4867032 rs4262122 corect_rs180673773 chr5_30566069_C_T rs1547530 rs1392426 rs1276140 rs13167639 rs12658735 rs13162331 chr5_31082855_A_G chr5_31098480_C_T

genotype difference Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_38_CB Col_33_IF Col_38_CB Col_52_CB Col_59_TS Col_12_IF Col_33_IF Col_33_IF Col_52_CB Col_38_CB Col_12_CB Col_33_IF Col_34_TS Col_12_CB Col_52_IF Col_33_IF Col_33_CB Col_52_IF Col_33_IF Col_52_CB Col_52_CB Col_33_IF Col_52_IF Col_33_IF Col_52_IF Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_52_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_CB Col_38_CB Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_38_IF

RI PT


Marker ID

178

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP BOT TOP BOT TOP TOP TOP TOP BOT TOP TOP BOT TOP BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT TOP MINUS BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP MINUS BOT TOP

[A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [T/C] [A/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/C] [T/C] [A/G] [A/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/G] [A/G] [T/G] [T/C] [T/G] [T/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [D/I] [T/C] [T/G] [T/C] [A/C] [T/C] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/C] [I/D] [T/C] [A/T]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

31098480 31219952 31276167 31346747 31491121 31491121 31560626 31560626 31692876 31810218 31814203 31821106 31900372 32125842 32139875 32193664 32284508 32331324 32349641 32369377 32406588 32497909 32525644 32551899 32575879 32575914 32579105 32587994 32593108 32629942 32668282 32693566 32745752 32765489 32802351 32838131 32885528 32885528 32920002 32969062 32969062 32975490 32980906 32981090 33011986 33065853 33120048 33222540 33347982 33580181 33685863 33699676 33699676 33699676 33731503 33792456 33799699 33968752 34042757 34278032

SC

M AN U TE D

AC C

EP

chr5_31098480_C_T rs7723322 rs4867061 rs6860408 rs6884823 rs6884823 rs11746324 rs11746324 rs400042 rs11741232 chr5_31814203_A_G chr5_31821106_A_C rs7736502 chr5_32125842_G_T chr5_32139875_A_G rs7380110 chr5_32284508_C_T chr5_32331324_A_G rs11948653 rs11750707 chr5_32406588_C_T chr5_32497909_A_G rs1008023 chr5_32551899_A_G chr5_32575879_A_G chr5_32575914_A_G chr5_32579105_A_G chr5_32587994_C_T chr5_32593108_G_T chr5_32629942_A_G chr5_32668282_G_T rs4867472 rs3792758 chr5_32765489_A_C chr5_32802351_A_G chr5_32838131_A_G rs12522129 rs12522129 rs4867490 chr5_32969062_C_T chr5_32969062_C_T rs10079889 chr5_32980906_AACC_INDEL chr5_32981090_C_T chr5_33011986_A_C rs433771 rs6450946 rs12515068 chr5_33347982_G_T rs384821 rs10062990 rs966857 rs966857 rs966857 rs11948306 rs7724739 rs2032878 rs33945565 rs16892218 chr5_34278032_A_T

genotype difference Col_12_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_33_TS Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_08_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_52_CB Col_52_CB Col_52_CB Col_33_IF Col_52_CB Col_12_CB Col_12_CB Col_52_IF Col_33_CB Col_52_CB Col_33_IF Col_33_CB Col_33_IF Col_34_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_52_CB Col_52_CB Col_33_IF Col_52_IF Col_52_CB Col_33_IF Col_08_IF Col_33_IF Col_52_IF Col_12_CB Col_52_CB Col_52_CB Col_52_CB Col_33_IF Col_52_CB

RI PT


Marker ID

179

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP BOT TOP TOP BOT TOP TOP BOT BOT TOP BOT TOP BOT TOP BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP BOT TOP

[T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/C] [T/G] [A/C] [A/G] [T/C] [T/C] [A/G] [T/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/G] [A/G] [T/C] [A/G] [A/G] [C/G] [A/C] [A/C] [T/G] [T/C] [T/C] [T/C] [T/C] [A/C] [C/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/G] [T/G] [T/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [G/C] [A/C]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

34428293 34628393 34753340 34816140 34844054 34863220 35042158 35114611 35115344 35115344 35201036 35227015 35379582 35381373 35730729 35807455 36051611 36059151 36180478 36251891 36326703 36343685 36346515 36456056 36547800 36584881 36599385 36656718 36656950 36661944 36807556 36807556 37142583 37350390 37350390 37413477 37437848 37437848 37437848 37472247 37538075 37543341 37576739 37805942 37839633 37873327 37913682 38108611 38112501 38166586 38166586 38356769 38565639 38788213 38870079 38905288 38951912 38951912 38959337 39045342

SC

M AN U TE D

AC C

EP

rs4571447 rs377504 rs334912 rs17522697 rs4703479 rs3846632 rs37373 rs7734558 chr5_35115344_A_G chr5_35115344_A_G rs7718468 rs7735260 rs32778 rs32782 rs11960663 rs7736291 rs1287267 rs1287260 rs4869622 rs16902858 rs969521 rs7711733 rs4869652 chr5_36456056_C_T chr5_36547800_A_G rs10061650 rs2562573 rs4869682 chr5_36656950_C_T chr5_36661944_A_G rs6897099 rs6897099 chr5_37142583_C_G chr5_37350390_A_C chr5_37350390_A_C rs77731944 rs3776597 rs3776597 rs3776597 rs6869205 chr5_37538075_A_C chr5_37543341_C_G chr5_37576739_A_G rs11748343 rs2973033 rs12519276 chr5_37913682_C_T chr5_38108611_A_G chr5_38112501_C_T rs12109280 rs12109280 rs2589810 rs1025963 chr5_38788213_A_G rs6862959 chr5_38905288_A_G chr5_38951912_C_T chr5_38951912_C_T chr5_38959337_C_G rs7703002

genotype difference Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_38_TS Col_52_TS Col_16_TS Col_52_CB Col_33_IF Col_33_IF Col_52_CB Col_52_CB Col_33_IF Col_33_CB Col_33_IF Col_52_TS Col_33_IF Col_52_IF Col_38_TS Col_33_IF Col_33_IF Col_52_CB Col_33_CB Col_33_IF Col_16_IF Col_52_CB Col_16_IF Col_34_IF Col_12_IF Col_33_IF Col_12_CB Col_33_IF Col_16_IF Col_38_CB Col_59_TS Col_52_IF Col_59_TS Col_52_CB Col_33_IF Col_52_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_34_CB Col_52_CB Col_33_IF Col_38_CB Col_33_IF Col_12_CB Col_33_IF Col_34_IF Col_52_CB Col_38_CB

RI PT


Marker ID

180

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP TOP BOT TOP TOP BOT BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP BOT BOT TOP BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT

[A/C] [T/C] [A/C] [A/C] [T/G] [A/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/T] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [C/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

39045342 39090991 39284496 39284496 39354542 39419750 39502755 39575166 39816835 39836138 39924922 40011536 40014986 40035922 40050301 40078446 40084672 40084672 40193851 40203162 40203284 40210933 40260929 40424478 40520217 40689996 40716359 40767397 40771216 40785811 40980585 41067259 41288697 41529448 41529448 41592733 41600324 41600451 41931627 41943776 42506773 42555931 42984559 43143799 43180535 43494093 43704072 43704072 43902709 43902709 43902709 43940592 43989069 43989069 44072846 44132214 44140203 44148983 44158701 44185192

SC

M AN U TE D

AC C

EP

rs7703002 corect_rs115709031 rs75596288 rs75596288 rs700218 rs11739328 rs4957476 rs1501710 rs980306 chr5_39836138_C_T rs10076713 chr5_40011536_A_G rs6878420 chr5_40035922_A_T rs1567010 rs12186410 rs10078587 rs10078587 rs187040 rs353342 corect_rs142138280 rs353325 rs348609 chr5_40424478_A_G rs7736920 rs10060234 exm452135 rs1002424 rs257009 rs10053664 rs971075 chr5_41067259_A_G chr5_41288697_C_T rs2644046 rs2644046 rs7731285 chr5_41600324_A_G chr5_41600451_A_G chr5_41931627_A_C rs10045473 rs12153462 rs7703713 rs12188691 rs6892422 rs4866808 rs12659627 rs3828696 rs3828696 chr5_43902709_A_G chr5_43902709_A_G chr5_43902709_A_G rs76571885 rs4583891 rs4583891 rs12513463 rs7706471 chr5_44140203_C_T rs78916955 rs58093443 chr5_44185192_A_G

genotype difference Col_52_CB Col_33_IF Col_38_IF Col_52_CB Col_33_CB Col_52_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_34_TS Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_52_IF Col_16_TS Col_33_IF Col_16_TS Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_59_TS Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_52_CB Col_52_CB Col_33_IF Col_52_CB Col_12_CB Col_59_TS Col_12_IF Col_33_CB Col_52_IF Col_12_IF Col_52_CB Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_CB Col_16_IF Col_33_IF Col_33_IF

RI PT


Marker ID

181

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP BOT PLUS MINUS BOT BOT BOT TOP TOP BOT TOP TOP BOT TOP TOP TOP BOT TOP BOT BOT BOT TOP BOT BOT TOP BOT BOT BOT TOP BOT TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT MINUS TOP TOP TOP TOP TOP BOT BOT TOP TOP MINUS TOP BOT

[T/C] [A/G] [A/T] [T/C] [D/I] [D/I] [T/G] [T/G] [T/G] [A/C] [A/G] [T/A] [A/G] [A/G] [T/C] [A/T] [A/G] [A/G] [T/C] [C/G] [T/A] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/C] [T/C] [A/G] [T/C] [A/T] [A/T] [A/G] [A/G] [A/C] [A/G] [T/C] [T/C] [G/C] [T/C] [T/C] [A/G] [T/C] [D/I] [A/G] [A/G] [A/C] [A/C] [A/G] [T/G] [T/G] [A/G] [C/G] [I/D] [A/G] [T/A]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

44185912 44190635 44194083 44198078 44219903 44221673 44229646 44229646 44229646 44230121 44233661 44237896 44256422 44256422 44279163 44283001 44290574 44299400 44303760 44305309 44305515 44309684 44309684 44311070 44313151 44313151 44313650 44330857 44330857 44330995 44332421 44335338 44345540 44355363 44355621 44355621 44360892 44362538 44382842 44393569 44394495 44394495 44412381 44428516 44428516 44430824 44452944 44475619 44489470 44489470 44498735 44498735 44512378 44517392 44517392 44611650 44613453 44622905 44673324 44683488

SC

M AN U TE D

AC C

EP

rs4293927 rs4866879 rs60717014 rs2330391 chr5_44219903_AC_INDEL rs34929265 rs62369766 rs62369766 rs62369766 rs58855274 rs1823252 rs4866886 rs921177 rs921177 rs17250399 rs10941663 rs10472392 rs10072476 rs1374961 rs2290070 rs6451758 rs17228137 rs17228137 rs1374962 rs10060796 rs10060796 rs1816964 rs58307385 rs58307385 rs13180550 chr5_44332421_A_C rs983373 rs10073166 rs1374967 rs4866895 rs4866895 rs339509 rs1482671 rs6892212 rs10512852 rs68122478 rs68122478 rs1905189 rs9292907 rs9292907 rs9292908 rs1384445 rs34025432 chr5_44489470_C_T chr5_44489470_C_T chr5_44498735_A_C chr5_44498735_A_C c5_pos44548135 rs922855 rs922855 rs4573006 chr5_44613453_C_G chr5_44622905_INDEL_TATT corect_rs147039293 rs13153820

genotype difference Col_38_CB Col_33_IF Col_33_IF Col_38_CB Col_38_CB Col_33_IF Col_16_CB Col_38_CB Col_12_IF Col_12_CB Col_52_CB Col_33_IF Col_38_CB Col_12_IF Col_33_IF Col_52_CB Col_38_TS Col_38_CB Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_52_IF Col_52_CB Col_16_IF Col_12_IF Col_33_IF Col_16_TS Col_52_IF Col_38_IF Col_33_IF Col_52_CB Col_38_TS Col_33_IF Col_16_TS Col_34_IF Col_52_CB Col_52_CB Col_16_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_16_IF Col_12_IF Col_52_CB Col_52_CB Col_33_IF Col_16_IF Col_34_TS Col_08_CB Col_38_TS Col_16_IF Col_08_CB Col_38_CB Col_33_IF Col_33_IF Col_38_IF Col_33_CB Col_52_CB

RI PT


Marker ID

182

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP MINUS TOP BOT BOT TOP TOP TOP BOT BOT BOT TOP BOT BOT MINUS BOT TOP TOP BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT BOT TOP TOP PLUS BOT BOT BOT BOT BOT TOP MINUS TOP TOP TOP BOT PLUS PLUS PLUS PLUS PLUS TOP

[T/C] [G/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [D/I] [A/G] [T/G] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/G] [T/G] [D/I] [T/C] [A/C] [A/C] [T/A] [A/C] [T/C] [T/C] [G/C] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [I/D] [T/G] [T/G] [T/C] [T/G] [T/G] [A/G] [I/D] [A/C] [A/T] [A/T] [T/C] [D/I] [D/I] [D/I] [D/I] [D/I] [A/G]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

44697916 44708378 44718359 44740143 44785791 44785791 44785791 44785791 44796979 44803784 44816068 44817309 44827292 44827292 44848401 44848401 44848401 44865854 44870879 44875449 44886000 44900447 44900447 44904191 44908935 44920937 44920937 44926518 44960699 44990697 44990697 45056901 45068172 45072777 45074633 45100425 45110820 45228836 45286977 45320111 45325915 45342971 45379584 45385306 45413191 45417690 45458814 45458814 45468012 45472754 45530622 45560879 45560879 45572545 45577928 45577928 45621423 45621423 45621423 45676997

SC

M AN U

TE D

rs2165009 rs6861560 rs76586153 c5_pos44775900 rs7710952 rs7710952 rs7710952 rs7710952 rs72754298 rs6872254 rs66527160 rs7720787 rs6867533 rs6867533 rs7708213 rs7708213 rs7708213 rs10040082 chr5_44870879_A_G rs62366821 chr5_44886000_A_G rs9791059 rs9791059 rs10587556 rs6880275 rs72757836 rs72757836 chr5_44926518_A_T chr5_44960699_A_C c5_pos45026454 c5_pos45026454 rs80339183 c5_pos45103929 rs3923826 chr5_45074633_A_G chr5_45100425_C_T chr5_45110820_C_T rs12523231 chr5_45286977_C_T rs13170143 rs6888352 chr5_45342971_A_G chr5_45379584_A_INDEL rs75846016 rs80116065 rs12659024 rs76991363 rs76991363 rs78628507 chr5_45472754_GA_INDEL rs12374423 chr5_45560879_A_T chr5_45560879_A_T rs76956025 chr5_45577928_INDEL_TGAAC chr5_45577928_INDEL_TGAAC chr5_45621423_INDEL_TC chr5_45621423_INDEL_TC chr5_45621423_INDEL_TC rs16902213

genotype difference Col_52_IF Col_52_IF Col_33_IF Col_38_CB Col_33_IF Col_34_TS Col_38_CB Col_52_CB Col_33_IF Col_38_IF Col_52_IF Col_52_CB Col_34_IF Col_38_IF Col_34_IF Col_38_TS Col_52_IF Col_52_CB Col_08_CB Col_52_IF Col_33_IF Col_08_TS Col_52_IF Col_33_IF Col_38_CB Col_33_IF Col_52_CB Col_52_CB Col_33_IF Col_33_IF Col_12_IF Col_38_IF Col_33_IF Col_08_TS Col_33_IF Col_52_IF Col_12_CB Col_52_TS Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_38_IF Col_16_TS Col_16_TS Col_38_IF Col_08_TS Col_38_CB Col_12_IF Col_33_IF

RI PT


Marker ID

183

IlmnStrand

SNP

Chr

MapInfo

BOT PLUS PLUS BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP BOT TOP PLUS TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT BOT MINUS MINUS TOP TOP BOT BOT TOP BOT BOT TOP BOT PLUS BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP TOP BOT PLUS BOT TOP TOP TOP

[T/C] [D/I] [D/I] [T/C] [A/C] [T/G] [T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [I/D] [C/G] [A/G] [A/G] [G/C] [A/G] [A/G] [T/C] [T/C] [T/G] [G/C] [T/G] [D/I] [D/I] [C/G] [C/G] [T/C] [T/G] [A/G] [T/C] [T/C] [A/G] [G/C] [I/D] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [A/C] [A/G] [T/C] [D/I] [T/C] [A/G] [A/G] [A/T]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

45686918 45704984 45704984 45719487 45749291 45755115 45755115 45767488 45767488 45771614 45829518 45829518 45841630 45843915 45846620 45846620 45879274 45934521 45986569 46098714 46099326 46100884 46113552 46115369 46128475 46128475 46285430 46291624 49492838 49599696 49636753 49641663 49641663 49642379 49642379 49774038 49976089 50028103 50058043 50177886 50269870 50287379 50303356 50351642 50392093 50465915 50533202 50545925 50545925 50596784 50721696 50771114 50810834 50836718 50851538 50931368 51108566 51115572 51115572 51156626

SC

M AN U TE D

AC C

EP

chr5_45686918_C_T chr5_45704984_INDEL_TTG chr5_45704984_INDEL_TTG chr5_45719487_A_G chr5_45749291_G_T chr5_45755115_A_C chr5_45755115_A_C rs10041772 rs10041772 chr5_45771614_C_T rs74986854 rs74986854 rs6451824 rs62370605 rs72765759 rs72765759 rs74482938 rs7448999 chr5_45986569_A_G chr5_46098715_INDEL_T chr5_46099326_C_G chr5_46100884_A_G chr5_46113552_A_G rs6884716 rs11486611 rs11486611 chr5_46285430_C_T rs79793711 rs11742067 rs4865700 rs10940235 chr5_49641663_C_INDEL chr5_49641663_C_INDEL chr5_49642379_C_G chr5_49642379_C_G chr5_49774038_C_T rs13170746 rs16884728 rs282546 rs10055305 rs250244 rs72758268 chr5_50303356_INDEL_T rs4429809 rs2961807 rs13172994 rs10080044 chr5_50545925_C_T chr5_50545925_C_T rs2033237 rs62368260 rs1423611 chr5_50810834_A_C rs10471606 chr5_50851538_C_T chr5_50931368_C_INDEL rs6872636 chr5_51115572_C_T chr5_51115572_C_T chr5_51156626_A_T

genotype difference Col_33_IF Col_52_CB Col_12_TS Col_33_IF Col_16_TS Col_33_IF Col_38_TS Col_33_IF Col_38_IF Col_33_IF Col_16_IF Col_52_IF Col_33_IF Col_33_IF Col_16_IF Col_38_TS Col_33_IF Col_33_IF Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_52_CB Col_16_IF Col_12_TS Col_33_IF Col_38_IF Col_33_IF Col_52_CB Col_33_IF Col_12_IF Col_33_IF Col_52_IF Col_33_CB Col_52_CB Col_52_CB Col_52_CB Col_33_IF Col_33_IF Col_16_IF Col_38_CB Col_33_IF Col_33_CB Col_52_CB Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_33_IF

RI PT


Marker ID

184

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT TOP BOT BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP BOT TOP TOP BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP BOT TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT

[A/T] [A/C] [T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/A] [A/C] [T/C] [T/G] [T/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/C] [A/G] [T/C] [A/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [T/C] [A/C] [T/C] [A/C] [T/G] [A/G] [A/G] [T/C] [T/A] [A/G] [A/C] [T/A] [T/C] [T/G] [T/G] [T/G] [T/C] [T/C] [A/G] [A/T] [A/G] [A/G] [T/C] [T/G] [A/G] [T/C] [T/C] [T/C]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

51156626 51246015 51341471 51388888 51388888 51405600 51431680 51484966 51492113 51560998 51655244 51666685 51708854 51762532 51797570 51797570 51819014 51820344 52025719 52028827 52110676 52185695 52281914 52292723 52294551 52347369 52356006 52358757 52358757 52397199 52419944 52420445 52478715 52515331 52650747 52663996 52684170 52697383 52697383 52713970 52715066 52937096 53020039 53054584 53282979 53517015 53517015 53517015 53623313 53694111 53735299 54005536 54026811 54026811 54274151 54307421 54316028 54378192 54378192 54378192

SC

M AN U TE D

AC C

EP

chr5_51156626_A_T chr5_51246015_A_C rs9291942 rs4612018 rs4612018 rs12655411 rs10064799 chr5_51484966_C_T chr5_51492113_A_G rs10072937 rs1345981 rs11955721 rs79271777 rs2406113 rs13178052 rs13178052 rs4296761 rs4242034 chr5_52025719_C_T corect_rs184786188 rs889294 chr5_52185695_G_T rs33445 chr5_52292723_A_G rs10042752 chr5_52347369_C_T rs3212537 chr5_52358757_A_G chr5_52358757_A_G rs2233218 rs30727 rs4631137 rs2112876 chr5_52515331_G_T rs252046 chr5_52663996_A_C rs4865544 rs6866562 rs6866562 chr5_52713970_C_T chr5_52715066_A_T chr5_52937096_C_T rs6886811 chr5_53054584_A_T rs878781 rs27636 rs27636 rs27636 chr5_53623313_A_G rs6877553 rs4533844 rs74380202 rs4485879 rs4485879 rs11740219 rs2407827 rs4865908 rs3111191 rs3111191 rs3111191

genotype difference Col_12_CB Col_33_IF Col_38_IF Col_16_IF Col_38_IF Col_33_CB Col_52_CB Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_59_TS Col_33_IF Col_16_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_52_CB Col_12_IF Col_33_IF Col_52_CB Col_12_CB Col_52_CB Col_16_TS Col_33_IF Col_33_IF Col_33_CB Col_45_IF Col_52_IF Col_52_IF Col_08_IF Col_33_IF Col_16_TS Col_33_IF Col_52_CB Col_33_CB Col_38_TS Col_52_TS Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_12_CB Col_38_TS Col_52_CB Col_33_CB Col_16_TS Col_33_CB Col_38_TS

RI PT


Marker ID

185

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP BOT BOT TOP BOT BOT TOP BOT TOP PLUS TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT PLUS BOT MINUS BOT TOP BOT TOP BOT TOP TOP BOT BOT TOP TOP BOT BOT BOT TOP BOT TOP BOT BOT TOP BOT BOT TOP TOP BOT TOP TOP BOT TOP BOT BOT BOT TOP

[A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/A] [A/G] [D/I] [A/G] [T/C] [G/C] [T/C] [T/C] [T/C] [T/C] [G/C] [T/C] [C/G] [T/G] [I/D] [T/C] [I/D] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [G/C] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/G] [A/G] [A/G] [G/C] [A/G] [A/G] [T/G] [A/G] [T/G] [T/G] [T/C] [A/G]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

54492136 54492136 54579661 54825057 54832482 54842128 54850717 54880701 54945675 55010963 55196462 55508717 55555431 55567912 55574285 55582034 55598424 55611414 55611414 55611414 55627830 55647357 55698996 55699243 55718790 55733982 55737440 55747268 55808018 55810027 55833892 55851872 55873156 55875713 55905735 55921016 55921911 55982544 55992229 55992229 55992229 56009012 56023607 56041749 56042972 56044635 56055255 56057940 56068014 56085225 56085225 56096315 56098146 56098632 56101748 56113442 56113850 56113850 56115036 56125353

SC

M AN U TE D

AC C

EP

rs375631 rs375631 newrs184634450 rs4865953 chr5_54832482_A_G chr5_54842128_A_G rs6450316 rs10940474 rs2014458 rs7707639 chr5_55196462_A_T chr5_55508717_C_T chr5_55555431_C_INDEL rs445096 chr5_55574285_A_G chr5_55582034_C_G rs32489 chr5_55611414_C_T chr5_55611414_C_T chr5_55611414_C_T chr5_55627830_C_G chr5_55647357_A_G chr5_55698996_C_G chr5_55699243_A_C rs33947886 chr5_55733982_A_G chr5_55737440_INDEL_T chr5_55747268_C_T chr5_55808018_A_G rs154248 chr5_55833892_A_G chr5_55851872_A_G chr5_55873156_A_G chr5_55875713_C_T rs1279621 chr5_55921016_G_T chr5_55921911_A_G chr5_55982544_C_T c5_pos56027986 c5_pos56027986 c5_pos56027986 chr5_56009012_C_T chr5_56023607_C_T chr5_56041749_C_T chr5_56042972_C_T chr5_56044635_C_T chr5_56055255_C_T chr5_56057940_A_G c5_pos56103771 chr5_56085225_C_T chr5_56085225_C_T chr5_56096315_C_G chr5_56098146_C_T chr5_56098632_A_G chr5_56101748_A_C chr5_56113442_C_T chr5_56113850_G_T chr5_56113850_G_T chr5_56115036_A_G chr5_56125353_A_G

genotype difference Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_38_TS Col_16_TS Col_12_CB Col_12_CB Col_38_CB Col_45_IF Col_12_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_52_CB Col_33_IF Col_33_CB Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_52_IF Col_52_CB Col_33_IF Col_33_IF Col_08_CB Col_16_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_34_CB Col_16_TS Col_52_CB Col_12_IF Col_52_CB Col_33_IF Col_34_CB Col_12_CB Col_33_IF Col_52_CB

RI PT


Marker ID

186

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT PLUS BOT BOT BOT BOT TOP BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT TOP BOT TOP TOP PLUS BOT TOP

[A/G] [T/C] [T/C] [I/D] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [T/C] [A/G] [T/G] [T/C] [A/G] [T/G] [T/C] [T/C] [T/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/G] [T/A] [A/G] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/A] [A/G] [A/G] [T/C] [T/C] [G/C] [A/C] [T/C] [A/G] [A/G] [D/I] [T/C] [A/G]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

56127866 56130683 56137432 56142821 56151567 56159578 56166194 56166194 56193667 56223498 56233490 56233541 56233737 56233767 56261691 56274255 56280245 56280245 56308790 56309839 56320577 56326837 56335493 56368816 56457868 56485428 56490061 56608505 56681929 57014300 57014300 57049829 57107989 57114080 57235886 57259107 57413380 57413380 57440256 57506467 57590049 57618101 57647762 57787376 57847447 57910297 57916516 58028117 58035184 58035304 58047890 58050732 58088350 58105964 58114772 58118546 58118546 58152172 58167878 58171932

SC

M AN U

TE D

chr5_56127866_A_G chr5_56130683_C_T chr5_56137432_C_T chr5_56142821_INDEL_TACATT chr5_56151567_C_T chr5_56159578_C_T rs72758096 rs72758096 chr5_56193667_C_T chr5_56223498_G_T chr5_56233490_A_G rs2591968 chr5_56233737_A_C chr5_56233767_A_G rs2662021 chr5_56274255_A_C chr5_56280245_A_G chr5_56280245_A_G chr5_56308790_G_T chr5_56309839_C_T rs2063224 chr5_56326837_C_T chr5_56335493_A_G chr5_56368816_C_T chr5_56457868_G_T chr5_56485428_A_T chr5_56490061_C_T chr5_56608505_G_T rs7720225 chr5_57014300_A_G chr5_57014300_A_G rs79976140 rs981883 rs7724301 rs4147094 chr5_57259107_C_T rs1981840 rs1981840 rs10053377 rs7701350 rs10214231 rs173425 rs36644 chr5_57787376_A_G chr5_57847447_C_T chr5_57910297_A_G chr5_57916516_G_T chr5_58028117_A_T chr5_58035184_C_T rs293003 rs36033170 chr5_58050732_A_G chr5_58088350_C_G chr5_58105964_G_T chr5_58114772_C_T chr5_58118546_C_T chr5_58118546_C_T rs34391093 chr5_58167878_A_G chr5_58171932_A_G

genotype difference Col_33_CB Col_38_IF Col_33_IF Col_33_IF Col_52_CB Col_33_CB Col_16_TS Col_52_IF Col_59_TS Col_33_IF Col_33_IF Col_45_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_12_IF Col_52_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_52_CB Col_52_CB Col_16_TS Col_38_TS Col_52_TS Col_33_IF Col_16_IF Col_52_CB

RI PT


Marker ID

187

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT BOT MINUS BOT BOT BOT BOT BOT TOP BOT BOT TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT MINUS MINUS BOT BOT TOP TOP MINUS BOT TOP BOT BOT TOP TOP BOT TOP BOT BOT TOP TOP TOP TOP BOT BOT TOP BOT MINUS MINUS BOT TOP BOT

[T/C] [G/C] [D/I] [T/G] [T/C] [T/C] [T/C] [T/C] [A/T] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/A] [T/A] [A/G] [T/C] [T/C] [T/A] [T/G] [T/G] [T/G] [D/I] [D/I] [T/C] [G/C] [A/G] [A/G] [I/D] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/G] [A/C] [A/G] [A/G] [A/C] [T/C] [T/C] [A/G] [T/C] [I/D] [I/D] [T/G] [A/G] [T/C]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

58225764 58237234 58263441 58286277 58291208 58292330 58331812 58331812 58363778 58365931 58371239 58371987 58430362 58436444 58464402 58469521 58480158 58480158 58487041 58500417 58500417 58504535 58504535 58506640 58526467 58566164 58568111 58568473 58568473 58568473 58588164 58588164 58588269 58625403 58636101 58678829 58711459 58711707 58713761 58715782 58715833 58720965 58722737 58724653 58804379 58829777 58832869 58859925 58862842 58899545 58959977 59185454 59185454 59328597 59602340 59754578 59754578 59777491 59810351 59890278

SC

M AN U

TE D

chr5_58225764_A_G chr5_58237234_C_G chr5_58263441_GAGAACTG_INDEL chr5_58286277_A_C chr5_58291208_C_T chr5_58292330_A_G chr5_58331812_C_T chr5_58331812_C_T chr5_58363778_A_T chr5_58365931_A_G rs17777617 chr5_58371987_C_T chr5_58430362_C_T chr5_58436444_A_G chr5_58464402_C_T chr5_58469521_C_T chr5_58480158_C_T chr5_58480158_C_T chr5_58487041_C_T chr5_58500417_A_G chr5_58500417_A_G chr5_58504535_A_T chr5_58504535_A_T chr5_58506640_A_G chr5_58526467_A_G chr5_58566164_A_G chr5_58568111_A_T chr5_58568473_A_C chr5_58568473_A_C chr5_58568473_A_C chr5_58588164_AAC_INDEL chr5_58588164_AAC_INDEL rs28044 chr5_58625403_C_G rs72767734 chr5_58678829_A_G chr5_58711459_ATTA_INDEL chr5_58711707_A_G rs244565 rs244568 rs13165581 chr5_58720965_C_T chr5_58722737_C_T chr5_58724653_C_T rs12186707 chr5_58829777_A_G chr5_58832869_G_T chr5_58859925_G_T rs1395337 chr5_58899545_A_G rs7729853 chr5_59185454_C_T chr5_59185454_C_T chr5_59328597_C_T rs16874969 chr5_59754579_CA_INDEL chr5_59754579_CA_INDEL rs27224 chr5_59810351_A_G rs4326096

genotype difference Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_16_CB Col_33_IF Col_12_IF Col_38_CB Col_38_CB Col_52_TS Col_34_TS Col_16_IF Col_33_CB Col_33_IF Col_52_CB Col_38_TS Col_52_IF Col_33_IF Col_16_IF Col_38_TS Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_IF Col_34_IF Col_38_CB Col_38_CB Col_12_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_16_TS Col_12_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_08_CB Col_38_CB Col_33_IF Col_33_IF Col_16_TS Col_38_TS Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

188

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP PLUS TOP TOP BOT TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP TOP MINUS BOT BOT

[A/G] [A/G] [A/G] [T/G] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/G] [A/G] [A/G] [A/G] [A/T] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [I/D] [A/G] [A/T] [T/C] [A/G] [A/G] [C/G] [A/G] [T/G] [A/C] [A/C] [A/C] [A/C] [T/C] [A/C] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [T/G] [T/A] [A/G] [A/G] [T/C] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [A/G] [I/D] [T/G] [T/C]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

60136626 60136626 60136626 60145166 60217651 60238590 60265100 60271598 60317433 60354423 60557039 60736544 60786880 60786880 60844874 60960764 61003342 61043308 61137914 61446385 61556730 61593277 61662849 61665955 61843034 61847103 61895275 62255744 62701627 62749647 62761734 62769395 62825112 62844222 62855619 63007060 63026807 63114051 63116471 63312107 63483263 63954744 63978255 64019841 64096170 64102103 64229127 64272107 64388979 64565261 64582052 64759966 64765908 64842825 64856204 64863320 64863320 64951513 64965217 64965757

SC

M AN U TE D

AC C

EP

chr5_60136626_A_G chr5_60136626_A_G chr5_60136626_A_G chr5_60145166_A_C rs976080 rs158933 chr5_60265100_C_T chr5_60271598_C_T rs248688 chr5_60354423_A_G chr5_60557039_A_C rs13171757 rs7732234 rs7732234 chr5_60844874_A_T rs4700423 rs4699979 chr5_61043308_C_T rs975134 rs2910475 rs1108159 rs4700005 chr5_61662849_INDEL_T rs1309156 chr5_61843034_A_T rs61748228 chr5_61895275_A_G chr5_62255744_A_G rs10440625 rs1363373 rs2112508 corect_rs114141238 rs40647 rs626392 rs16891970 rs10035747 chr5_63026807_G_T rs1478491 chr5_63116471_C_T rs921297 chr5_63483263_G_T rs4700646 rs2610245 rs10075967 rs6449760 chr5_64102103_A_T chr5_64229127_C_T rs1311245 chr5_64388979_C_T rs10057851 rs2287904 chr5_64759966_A_C rs7716444 rs6895641 chr5_64856204_A_G rs56227785 rs56227785 chr5_64951513_INDEL_T rs13189159 rs27394

genotype difference Col_16_CB Col_33_IF Col_38_IF Col_12_CB Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_08_CB Col_33_IF Col_52_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_08_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_38_IF Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_52_IF Col_08_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_CB Col_52_IF Col_08_TS Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

189

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT TOP BOT TOP BOT BOT BOT TOP TOP BOT TOP BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP PLUS TOP TOP TOP TOP BOT BOT TOP BOT TOP BOT TOP BOT TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP PLUS TOP BOT TOP BOT TOP TOP BOT BOT TOP BOT BOT BOT

[T/C] [A/C] [T/C] [C/G] [T/C] [A/T] [T/C] [T/C] [T/C] [A/C] [A/G] [T/C] [A/G] [T/C] [C/G] [T/G] [T/G] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [I/D] [A/G] [A/G] [A/G] [A/G] [T/C] [T/G] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [I/D] [A/G] [T/C] [A/G] [T/G] [A/G] [A/G] [T/C] [T/G] [A/C] [T/C] [T/C] [T/C]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

64965757 65117690 65499401 65859828 65968434 66428459 66495847 66677781 66686570 66728750 66833257 67007169 67110717 67275356 67308021 67391776 67433284 67466447 67466447 67517646 67540171 67548442 67589914 67638051 67681741 67699693 67738430 68044120 68245290 68284159 68364871 68371896 68648770 70795480 70898675 71013647 71258063 71521551 71550261 71683885 71715513 72168857 72191647 72289521 72385914 72429346 72788729 72884927 72891758 73179672 73397114 73430294 73446799 73446799 73508591 73597979 73599644 73640043 73640043 73682264

SC

M AN U TE D

AC C

EP

rs27394 chr5_65117690_G_T rs253214 chr5_65859828_C_G chr5_65968434_C_T corect_rs185970928 chr5_66495847_C_T chr5_66677781_C_T rs317969 chr5_66728750_A_C rs7717572 rs4976121 rs1007047 rs999826 rs11739183 rs17309175 chr5_67433284_G_T rs6868583 rs6868583 rs831227 chr5_67540171_A_G rs706716 rs12659907 rs6871452 chr5_67681741_INDEL_T rs7721613 chr5_67738430_A_G rs6898649 rs10056163 rs4530725 rs2434343 rs2434349 rs9291949 chr5_70795480_C_T chr5_70898675_C_T rs3763153 rs6896246 rs6889892 rs7715708 rs9293289 chr5_71715513_C_T rs3797358 chr5_72191647_C_T rs10462470 rs6892973 rs488174 chr5_72788729_C_T chr5_72884928_INDEL_T rs980631 rs3749645 chr5_73397114_A_G chr5_73430294_A_C chr5_73446799_A_G chr5_73446799_A_G chr5_73508591_C_T rs16871632 rs4704126 chr5_73640043_C_T chr5_73640043_C_T rs7704601

genotype difference Col_38_IF Col_12_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_52_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_59_TS Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_52_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_CB Col_33_CB Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_59_TS Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_52_IF Col_12_IF Col_33_IF Col_16_TS Col_12_CB Col_33_IF Col_52_IF Col_59_TS

RI PT


Marker ID

190

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT TOP BOT BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT TOP TOP BOT BOT TOP BOT BOT TOP BOT TOP TOP TOP TOP TOP BOT TOP BOT BOT BOT TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP BOT

[T/C] [A/G] [T/C] [A/G] [T/G] [T/A] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [C/G] [A/G] [A/C] [A/G] [T/G] [A/G] [A/G] [T/C] [T/C] [A/T] [T/C] [T/C] [A/C] [T/G] [A/G] [A/G] [A/G] [A/C] [A/G] [T/C] [A/T] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/G] [A/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/T] [T/C] [A/C] [A/C] [T/C]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

73777123 73826659 73883079 74382081 74456477 74642855 74683646 74867124 74972877 74972877 75220933 75246226 75301942 75429892 75534570 75564437 75782623 75931253 75954096 75963210 75964280 76003254 76187308 76238478 76270853 76406451 76478418 76486226 76496152 76539153 76746779 76759233 76822823 76973352 76979432 77008253 77139236 77259149 77311370 77512229 77543377 77816007 78152192 78210725 78267856 78267856 78295451 78364935 78371170 78408876 78412395 78413504 78420300 78673236 78728923 78743472 78763345 78784281 78784281 78853921

SC

M AN U TE D

AC C

EP

chr5_73777123_A_G corect_rs148349690 kgp2125120 rs4298239 rs6872586 rs17244841 rs7356637 rs5744634 rs2216572 rs2216572 rs1917759 rs10805896 chr5_75301942_C_G chr5_75429892_C_T rs1532699 rs2937719 chr5_75782623_A_C rs13173162 rs2287930 chr5_75963210_C_T rs4235701 chr5_76003254_A_T rs7722773 rs1700680 rs10474485 chr5_76406451_G_T chr5_76478418_C_T rs2928164 chr5_76496152_C_T chr5_76539153_G_T rs10051210 rs690280 chr5_76822823_A_T rs441492 rs181270 rs2652210 chr5_77139236_C_T rs7709783 exm462764 rs9293732 chr5_77543377_G_T rs10474556 rs3098681 rs9293758 chr5_78267856_C_T chr5_78267856_C_T rs2004599 chr5_78364935_C_T rs76122043 chr5_78408876_G_T rs79450062 rs3797546 rs62365153 chr5_78673236_C_T rs7719054 chr5_78743472_A_T rs4323213 rs10942889 rs10942889 chr5_78853921_C_T

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_38_TS Col_33_IF Col_52_CB Col_33_IF Col_16_TS Col_12_CB Col_52_CB Col_12_CB Col_33_IF Col_59_CB Col_33_IF Col_38_TS Col_33_IF Col_52_CB Col_33_IF Col_52_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_38_TS Col_12_CB Col_33_IF Col_12_TS Col_33_IF Col_52_CB Col_16_IF Col_12_CB Col_45_IF Col_59_TS Col_33_IF Col_33_IF Col_52_CB Col_33_CB Col_33_IF Col_16_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_52_IF

RI PT


Marker ID

191

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP TOP BOT BOT BOT TOP TOP BOT TOP TOP TOP BOT TOP TOP BOT BOT TOP BOT TOP BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT MINUS TOP TOP BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT TOP BOT

[A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [C/G] [T/C] [A/G] [C/G] [G/C] [T/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [C/G] [A/G] [T/C] [T/C] [A/C] [T/C] [C/G] [T/G] [T/C] [T/C] [A/T] [A/C] [A/C] [T/C] [T/C] [A/C] [T/G] [T/G] [T/G] [T/C] [T/G] [I/D] [A/G] [A/G] [T/G] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/C] [G/C]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

78867249 78881844 78915662 78993484 79003360 79068089 79189682 79247901 79411443 79497415 79560904 79636193 79671584 79732913 79926586 79932640 80117918 80217130 80369942 80459446 80619046 80713340 80736449 80900598 80934784 81008182 81234311 81326622 81407916 81414229 81468529 81469082 81491408 81527262 81538046 81555328 81555328 81594748 81605353 81619915 81684613 81684613 81686624 81826276 81938623 81940674 81955591 81955591 82035050 82257991 82395874 82400029 82451212 82586489 82624287 82633951 82709977 82739803 82861400 83039012

SC

M AN U TE D

AC C

EP

rs7737048 rs4479827 chr5_78915662_A_G rs7714250 rs12651804 rs109894 rs12656872 chr5_79247901_C_T rs10474010 rs10075871 chr5_79560904_C_G chr5_79636193_A_G chr5_79671584_A_G exm464225 rs59724932 rs55759959 rs32985 rs10079494 rs16878400 chr5_80459446_C_T rs10056565 chr5_80713340_C_T exm465084 rs10942275 chr5_80934784_C_G chr5_81008182_A_G rs4703859 chr5_81326622_A_G chr5_81407916_G_T chr5_81414229_A_G chr5_81468529_C_G chr5_81469082_G_T chr5_81491408_A_G rs17245874 chr5_81538046_A_T chr5_81555328_G_T chr5_81555328_G_T chr5_81594748_C_T rs224823 chr5_81619915_G_T rs78712313 rs78712313 chr5_81686624_A_C rs17249159 rs1847040 chr5_81940675_INDEL_T rs924615 rs924615 chr5_82035050_A_C chr5_82257991_A_C rs13180356 chr5_82400029_A_G rs1382367 rs40123 rs7706470 rs10514254 chr5_82709977_C_T rs10474101 rs13164785 chr5_83039012_C_G

genotype difference Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_TS Col_12_TS Col_33_CB Col_33_CB Col_52_IF Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_08_TS Col_33_IF Col_34_IF Col_52_CB Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_12_CB Col_38_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_08_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_16_TS Col_52_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_08_CB Col_33_IF

RI PT


Marker ID

192

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT MINUS TOP TOP BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP BOT TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP

[A/G] [T/C] [A/G] [A/G] [C/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [I/D] [A/G] [A/G] [T/C] [A/G] [A/C] [A/C] [A/C] [A/C] [T/G] [A/C] [A/C] [T/C] [A/C] [A/G] [T/G] [T/G] [T/C] [T/A] [A/G] [T/C] [T/G] [T/G] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/G] [T/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [A/G]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

83047922 83163554 83173714 83173714 83230642 83242142 83243314 83292653 83312946 83394092 83477213 83506040 83635421 83722427 83763507 83848914 83890314 83890401 83890401 84003689 84136777 84167325 84178732 84178732 84372008 84468609 84656911 84712956 84712956 85047136 85130777 85137318 85249821 85251243 85251243 85372505 85388750 85487480 85593102 85611603 85624417 85646836 85646836 85824683 85824683 85839578 86061783 86113699 86136760 86136760 86136965 86319195 86409417 86424676 86502457 86502457 86502457 86502457 86665098 87025144

SC

M AN U TE D

AC C

EP

rs980696 rs6897010 rs10059533 rs10059533 rs34270567 rs4612038 rs4703977 rs6452558 rs856443 chr5_83394092_C_T rs163716 rs342410 chr5_83635421_GTAA_INDEL chr5_83722427_A_G chr5_83763507_A_G chr5_83848914_C_T chr5_83890314_A_G chr5_83890401_A_C chr5_83890401_A_C rs10076429 rs4451048 rs7720603 rs10474144 rs10474144 rs7445269 rs4516895 rs395729 rs33885 rs33885 chr5_85047136_A_G rs60769788 rs10051236 rs1438743 rs2918439 rs2918439 rs10071511 rs1422127 corect_rs188022349 rs10069895 rs16902179 rs2964887 chr5_85646836_C_T chr5_85646836_C_T chr5_85824683_A_C chr5_85824683_A_C rs6452716 rs10474240 rs2898543 chr5_86136760_A_G chr5_86136760_A_G chr5_86136965_A_C rs10942487 rs2112167 rs4141503 rs16902587 rs16902587 rs16902587 rs16902587 rs10057748 rs710392

genotype difference Col_33_CB Col_33_IF Col_52_IF Col_12_IF Col_52_CB Col_34_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_CB Col_59_TS Col_33_CB Col_52_IF Col_38_CB Col_52_IF Col_33_IF Col_34_IF Col_52_IF Col_52_IF Col_33_IF Col_52_CB Col_16_TS Col_33_IF Col_52_IF Col_33_IF Col_52_IF Col_08_CB Col_52_IF Col_33_IF Col_34_TS Col_52_IF Col_34_IF Col_16_IF Col_52_IF Col_34_TS Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_12_CB Col_38_CB Col_52_IF Col_08_CB Col_38_CB Col_12_IF Col_08_TS Col_38_IF Col_16_IF Col_12_TS Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_16_IF Col_33_TS Col_38_CB Col_52_IF Col_16_IF Col_38_CB

RI PT


Marker ID

193

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP BOT TOP TOP TOP BOT TOP BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT TOP TOP BOT TOP TOP TOP BOT TOP TOP MINUS

[A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/G] [T/C] [T/C] [T/C] [T/G] [T/C] [T/C] [T/C] [A/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/A] [A/G] [T/C] [T/G] [T/C] [A/G] [T/C] [T/C] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [T/G] [A/T] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [T/G] [A/C] [A/G] [T/C] [A/C] [A/G] [A/G] [T/C] [A/C] [A/C] [D/I]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

87082381 87183433 87315252 87315252 87422554 87669826 87675962 87870166 88120326 88157552 88186469 88194950 88270225 88384935 88421637 88615707 88726337 88752584 88775210 88775210 88872383 88893348 88898116 88933187 89005730 89015829 89200618 89322429 89322429 89419677 89651599 89675329 89748142 89852649 89979518 90229807 90229807 90297868 90297868 90785949 90805092 90808954 90901337 90901781 91075099 91113069 91113069 91193891 91196238 91196238 91239268 91275313 91347443 91390107 91443389 91449221 91495951 91725645 91755616 91783326

SC

M AN U TE D

AC C

EP

rs6868166 rs16902864 rs965566 rs965566 rs1427919 chr5_87669826_A_G rs11743103 rs10063429 chr5_88120326_C_T rs4518438 rs9293505 rs770463 chr5_88270225_A_G corect_rs114869269 chr5_88421637_A_C rs16867539 rs7736534 rs10056443 chr5_88775210_A_G chr5_88775210_A_G rs10075489 chr5_88893348_A_T chr5_88898116_A_G rs11958574 chr5_89005730_A_C rs72777262 chr5_89200618_A_G rs1978466 rs1978466 rs2920507 rs7349816 rs2935508 rs10214167 rs7733280 rs17544552 rs11744148 rs11744148 rs10942623 rs10942623 chr5_90785949_A_T chr5_90805092_C_T rs7724031 rs17641623 chr5_90901781_C_T chr5_91075099_C_T chr5_91113069_C_T chr5_91113069_C_T rs10037971 kgp6709062 kgp6709062 corect_rs116781080 chr5_91275313_C_T chr5_91347443_C_T rs4147091 rs10942660 chr5_91449221_A_G rs4549564 rs4869280 rs4260649 rs77279368

genotype difference Col_33_IF Col_12_CB Col_52_IF Col_12_TS Col_33_IF Col_38_IF Col_52_CB Col_38_CB Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_12_TS Col_52_IF Col_52_CB Col_52_CB Col_33_IF Col_16_TS Col_33_IF Col_16_TS Col_34_TS Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_08_TS Col_16_TS Col_38_CB Col_33_IF Col_12_CB Col_33_CB Col_34_IF Col_08_TS Col_08_TS Col_45_IF Col_12_IF Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_52_CB Col_52_CB Col_08_TS Col_52_IF Col_16_IF Col_52_IF Col_33_IF Col_38_CB Col_45_TS Col_33_IF Col_12_IF Col_52_IF Col_52_IF Col_12_CB Col_52_IF Col_52_IF Col_33_IF Col_12_IF Col_16_IF

RI PT


Marker ID

194

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT MINUS BOT TOP TOP TOP TOP BOT BOT TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT TOP TOP

[A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [A/C] [A/G] [A/G] [T/C] [T/A] [I/D] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/T] [T/C] [A/C] [A/C] [A/G] [A/G] [A/C] [A/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/C] [T/G] [T/C] [T/C] [A/G] [A/C] [A/G] [A/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

91826043 91826043 91851425 91991628 92008283 92064532 92064532 92117666 92117666 92139257 92139257 92236275 92344846 92443100 92452518 92517735 92578644 92586991 92734878 92734878 92767678 93115673 93165396 93796132 93796132 94000263 94000263 94030820 94056825 94268604 94268604 94304059 94353905 94436805 94436805 94690178 95268768 95356862 95444969 95674266 95805911 95805911 95817504 95840219 95928251 96231000 96427698 96460566 96466616 96663347 96888799 97027216 97094364 97206196 97425603 97438982 97463518 97468211 97512512 97512512

SC

M AN U TE D

AC C

EP

chr5_91826043_C_T chr5_91826043_C_T rs6867083 rs10476539 rs978180 rs1501923 rs1501923 chr5_92117666_C_T chr5_92117666_C_T chr5_92139257_G_T chr5_92139257_G_T rs7724557 rs2453759 rs13188341 chr5_92452518_A_T chr5_92517736_INDEL_T rs4489043 rs6881733 chr5_92734878_C_T chr5_92734878_C_T rs17083163 rs2119449 chr5_93165396_A_G rs9285014 rs9285014 chr5_94000263_C_T chr5_94000263_C_T Chr5:94030820:A:T rs432449 rs17337117 rs17337117 rs32922 rs2114194 chr5_94436805_A_C chr5_94436805_A_C rs253710 rs3777179 chr5_95356862_A_G rs4869260 chr5_95674266_C_T chr5_95805911_A_G chr5_95805911_A_G rs12153530 chr5_95840219_C_T rs7725567 rs2549782 rs316234 chr5_96460566_A_G rs13167790 rs3108536 rs4869364 chr5_97027216_A_G rs11953452 rs6875261 rs17088025 rs7725036 chr5_97463518_C_T rs6868704 rs4869188 rs4869188

genotype difference Col_16_CB Col_52_IF Col_33_TS Col_33_IF Col_52_IF Col_52_IF Col_12_IF Col_33_IF Col_52_CB Col_33_IF Col_34_IF Col_38_TS Col_33_IF Col_08_TS Col_52_CB Col_12_CB Col_33_IF Col_52_IF Col_08_IF Col_33_IF Col_33_IF Col_45_CB Col_52_IF Col_08_TS Col_33_IF Col_33_IF Col_52_CB Col_52_CB Col_16_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_59_TS Col_12_IF Col_33_TS Col_33_IF Col_52_TS Col_52_TS Col_12_IF Col_38_TS Col_52_IF Col_16_TS Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_59_TS Col_16_CB Col_33_CB Col_33_IF Col_52_IF Col_52_CB Col_52_CB Col_33_IF Col_12_CB Col_08_CB Col_38_CB

RI PT


Marker ID

195

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP TOP BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP BOT TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT

[T/G] [T/C] [T/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [T/G] [T/G] [A/C] [T/C] [T/C] [T/C] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/C] [T/G] [T/G] [T/C] [A/G] [T/G] [T/G] [T/G] [T/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

97783491 97796224 97821452 97982179 98057709 98134186 98334750 98524787 98537121 98537121 98537121 98554365 98650208 98813871 98890771 98890771 98936840 98993392 99037694 99037694 99224816 99224816 99346521 99534096 99534276 99539933 99606693 99608856 99620958 99792556 99986153 100200752 100309166 100465754 100578856 100604495 100604495 100637267 100682403 100764259 100764259 100764259 100764259 100929556 101135059 101206369 101324088 101482983 101506560 101546639 101559119 101569974 101571342 101571342 101572053 101584499 101615705 101816104 102245571 102484399

SC

M AN U TE D

AC C

EP

rs1037599 chr5_97796224_A_G rs11241621 rs27706 rs1828167 rs2662255 rs416750 rs7715226 rs2121665 rs2121665 rs2121665 rs10057544 rs6594343 chr5_98813871_A_G chr5_98890771_C_T chr5_98890771_C_T rs3850908 rs2871709 rs12654674 rs12654674 rs2616289 rs2616289 rs10057187 chr5_99534096_C_T chr5_99534276_C_T chr5_99539933_C_T rs10515301 rs610857 rs1833841 rs10900740 rs6880868 chr5_100200752_A_G rs2216614 rs2400304 rs4587054 rs1903186 rs1903186 rs10069443 rs2125714 chr5_100764259_G_T chr5_100764259_G_T chr5_100764259_G_T chr5_100764259_G_T rs2895719 rs1871334 rs7711786 rs7725478 rs6889035 rs395327 rs4703214 rs589938 kgp22313973 kgp22118727 kgp22118727 kgp3176579 rs404598 rs6884301 kgp9810224 chr5_102245571_A_G rs26522

genotype difference Col_52_CB Col_33_IF Col_52_IF Col_33_IF Col_52_IF Col_52_CB Col_33_IF Col_33_IF Col_08_TS Col_45_IF Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_08_CB Col_12_IF Col_33_CB Col_08_IF Col_33_IF Col_52_CB Col_33_IF Col_52_IF Col_52_CB Col_33_IF Col_33_IF Col_08_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_59_TS Col_59_TS Col_52_CB Col_08_CB Col_16_TS Col_38_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_38_CB Col_33_IF Col_12_IF Col_52_IF Col_16_IF Col_38_IF Col_33_IF Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

196

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP BOT TOP BOT TOP BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT TOP BOT TOP BOT TOP BOT BOT TOP TOP TOP TOP BOT BOT TOP BOT TOP BOT BOT TOP TOP BOT TOP TOP TOP TOP

[T/C] [T/C] [T/C] [A/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [C/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [T/G] [A/G] [T/C] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/G] [A/C] [T/C] [A/C] [T/C] [T/C] [C/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

102770988 102826903 102913746 102949668 102961829 102998283 103143532 103183059 103196133 103206340 103253764 103253764 103262610 103406680 103475024 103536963 103680264 103680264 103680264 103744044 103833944 104208013 104248118 104392156 104494583 104509754 104524071 104911468 104911468 104952574 105064972 105346322 105425352 105551761 105642031 105731105 105770874 105854131 105913532 106038980 106123252 106199712 106255758 106255758 106255758 106371045 106431147 106625682 106665664 106690481 106697485 106762584 106798189 106803985 106806224 106820480 106936965 106936965 106982560 106982560

SC

M AN U TE D

AC C

EP

rs2115251 rs432889 rs371315 rs7707391 rs10463996 chr5_102998283_C_T rs1422095 rs1363251 rs11959903 rs10039846 rs7736954 rs7736954 chr5_103262610_C_T rs1289188 rs2952549 rs7707433 chr5_103680264_C_T chr5_103680264_C_T chr5_103680264_C_T rs2963210 rs4299708 rs10074959 chr5_104248118_C_G chr5_104392156_C_T rs10051540 rs1428878 rs9327930 rs13180609 rs13180609 chr5_104952574_A_G rs4554183 chr5_105346322_A_G rs10059955 rs12719552 rs12516146 chr5_105731105_C_T chr5_105770874_G_T rs6891659 rs9327966 chr5_106038980_G_T rs1438255 rs296266 chr5_106255758_C_T chr5_106255758_C_T chr5_106255758_C_T rs9327987 rs17384663 rs1363896 rs252677 rs1195948 rs12514805 chr5_106762584_C_T rs154642 rs27625 rs636137 rs25966 rs3864269 rs3864269 rs10074258 rs10074258

genotype difference Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_38_CB Col_52_CB Col_12_CB Col_16_TS Col_52_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_38_CB Col_52_IF Col_16_TS Col_33_IF Col_34_CB Col_08_TS Col_33_IF Col_52_TS Col_34_TS Col_59_TS Col_16_IF Col_38_CB Col_12_CB Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_52_IF Col_52_IF Col_52_IF Col_33_IF Col_16_IF Col_08_CB Col_38_IF Col_52_IF Col_52_IF Col_16_IF Col_12_CB Col_52_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_52_TS Col_52_IF Col_12_CB

RI PT


Marker ID

197

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP BOT BOT TOP BOT BOT BOT TOP BOT TOP TOP TOP TOP BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT

[T/C] [T/G] [T/C] [A/G] [T/C] [T/C] [A/T] [T/G] [T/G] [T/G] [A/G] [T/C] [A/G] [A/C] [A/C] [A/G] [G/C] [A/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [T/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/C] [A/G] [T/G] [T/G] [A/G] [A/C] [A/G] [T/G] [T/C] [T/C] [A/C] [A/C] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

107010201 107046588 107051942 107086262 107301228 107307404 107343898 107374684 107431256 107431256 107458206 107649113 107896378 107951067 107951067 108307310 108526442 108576515 108606564 108609854 108614251 108799341 108799341 108846512 108922023 109066741 109066741 109216204 109216204 109222729 109250630 109594268 109599964 109736454 109833727 110100318 110100318 110245888 110246246 110246246 110401872 110419888 110496071 110781537 110859701 111126320 111205268 111370795 111398066 111452329 111573595 111778778 111929164 111929164 112124369 112157622 112417907 112542516 112542527 112609392

SC

M AN U TE D

AC C

EP

rs1490827 rs12656808 rs154167 rs1990918 chr5_107301228_C_T rs11242656 chr5_107343898_A_T rs12651724 rs286820 rs286820 chr5_107458206_C_T rs17386875 rs75480635 rs12652136 rs12652136 rs4957793 corect_rs147627281 rs17473588 rs7720237 rs11743452 rs2161163 rs11241020 rs11241020 rs4957821 rs902505 rs6594396 rs6594396 rs6874288 rs6874288 rs6594405 rs28825 rs4254949 chr5_109599964_A_G rs6877527 rs10035983 chr5_110100318_A_G chr5_110100318_A_G chr5_110245888_A_G rs17132499 rs17132499 rs1837253 rs2416258 rs1821908 rs17458552 rs251132 rs181918 rs10073581 chr5_111370795_A_C rs26555 rs6865881 rs7723465 rs9326854 chr5_111929164_G_T chr5_111929164_G_T rs2431238 chr5_112157622_A_C rs6859485 chr5_112542516_A_G rs1822489 rs6878329

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_12_CB Col_33_IF Col_33_TS Col_45_CB Col_16_TS Col_12_CB Col_33_IF Col_08_IF Col_16_IF Col_33_IF Col_33_IF Col_33_CB Col_38_CB Col_33_IF Col_33_IF Col_16_IF Col_52_IF Col_33_IF Col_52_CB Col_33_IF Col_45_IF Col_38_TS Col_12_IF Col_12_CB Col_52_IF Col_12_IF Col_52_IF Col_33_IF Col_33_IF Col_34_IF Col_38_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_52_CB Col_33_IF Col_38_CB Col_33_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_38_TS Col_33_IF

RI PT


Marker ID

198

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT TOP TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT MINUS BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP BOT BOT

[A/G] [A/G] [T/C] [A/C] [A/C] [T/C] [T/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [D/I] [T/C] [A/C] [T/C] [A/C] [T/C] [T/C] [T/C] [T/G] [T/C] [T/C] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [T/C]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

112945992 112965145 113047281 113135019 113160543 113282554 113306692 113429984 113584657 113604806 113668683 114289334 114451513 114451513 114451513 114451513 114614893 114647578 114709028 114877920 114877920 114877920 114885896 115030903 115128540 115229141 115272911 115294072 115318418 115339086 115339086 115402958 115402958 115555753 115952274 115966256 116160897 116228312 116232263 116232263 116245826 116280537 116472258 116476434 116519696 116663400 116770532 116785062 116797614 116799176 116804254 116812766 116855837 116857293 116857293 116869940 116951547 116962366 117139928 117146271

SC

M AN U

TE D

rs2914200 rs6889348 chr5_113047281_A_G rs6885793 rs17338434 rs10053880 chr5_113306692_G_T rs1158117 rs10056135 rs4582264 chr5_113668683_A_G rs11749427 chr5_114451513_C_T chr5_114451513_C_T chr5_114451513_C_T chr5_114451513_C_T chr5_114614893_A_G rs2925160 chr5_114709028_A_G rs256957 rs256957 rs256957 rs256978 chr5_115030903_C_T rs411148 chr5_115229141_A_G rs2416419 chr5_115294072_C_T rs6594928 rs6594929 rs6594929 rs17138784 rs17138784 chr5_115555753_CTAAC_INDEL rs680878 rs10463685 chr5_116160897_A_G rs6594987 rs7718938 rs7718938 rs712623 rs4920942 chr5_116472258_A_G chr5_116476434_C_T rs7711251 chr5_116663400_A_G chr5_116770532_A_G rs2042889 chr5_116797614_C_T chr5_116799176_A_G chr5_116804254_C_T rs78428090 rs388865 chr5_116857293_A_G chr5_116857293_A_G rs4920974 rs267067 rs434097 rs10061470 rs12655706

genotype difference Col_33_IF Col_33_IF Col_08_IF Col_33_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_52_IF Col_16_TS Col_16_IF Col_38_CB Col_52_IF Col_59_TS Col_33_IF Col_52_CB Col_33_IF Col_16_CB Col_45_IF Col_52_IF Col_33_IF Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_38_CB Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_38_TS Col_12_CB Col_33_IF Col_33_IF Col_16_TS Col_38_TS Col_59_TS Col_16_TS Col_12_CB Col_38_CB Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_52_IF Col_33_CB Col_08_CB Col_33_IF Col_33_IF Col_38_CB Col_52_IF Col_33_IF Col_52_IF Col_33_IF Col_52_IF Col_38_TS

RI PT


Marker ID

199

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP BOT TOP BOT BOT TOP TOP BOT TOP TOP BOT BOT TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP BOT TOP BOT BOT TOP BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP TOP MINUS BOT TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP

[G/C] [G/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/C] [T/G] [A/C] [A/C] [T/G] [T/C] [A/G] [A/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/C] [T/C] [A/G] [T/G] [A/G] [A/G] [A/G] [A/G] [G/C] [T/C] [A/G] [A/C] [A/G] [T/C] [A/G] [A/C] [I/D] [T/C] [A/G] [A/G] [T/C] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [A/G] [A/C] [T/C] [A/G]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

117293243 117293243 117328848 117352968 117455495 117492799 117522679 117592453 117690833 117770572 117884604 117884604 117901357 117969207 118034064 118045916 118061561 118071881 118109611 118109611 118138507 118144398 118154368 118258483 118303481 118462397 118682789 118682789 118838475 118953519 119029069 119124054 119162675 119253621 119253621 119434193 119496432 119502826 119544266 119564388 119577574 119615110 119815525 119923538 120220252 120408982 120460701 120460701 120471719 120474531 120524720 120626777 120641767 120657454 120657454 120722413 120735350 120800292 120908500 120948472

SC

M AN U

TE D

chr5_117293243_C_G chr5_117293243_C_G corect_rs142452719 chr5_117352968_A_G rs4389719 rs1479207 chr5_117522679_A_G rs17143923 rs7707505 rs79273707 rs10058989 rs10058989 rs6894915 chr5_117969207_C_T rs6888215 rs10069027 chr5_118061561_C_T rs1544740 rs657071 rs657071 rs371209 chr5_118144398_G_T chr5_118154368_C_T chr5_118258483_A_G rs299201 chr5_118462397_A_G rs6878879 rs6878879 chr5_118838475_A_C rs184497 rs1451809 rs2973940 chr5_119162675_A_G rs7713766 rs7713766 rs1348478 chr5_119496432_C_G rs982476 rs13156712 rs2161264 rs1422384 rs12108988 chr5_119815525_C_T rs62376427 chr5_120220252_INDEL_TCAA chr5_120408982_A_G rs6860060 rs6860060 rs7731784 rs13436259 rs1896656 rs4895176 chr5_120641767_C_T rs17456960 rs17456960 rs160122 chr5_120735350_C_T rs6891674 rs4425537 rs11241609

genotype difference Col_16_TS Col_12_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_12_CB Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_12_CB Col_52_IF Col_52_CB Col_33_CB Col_12_CB Col_16_TS Col_52_IF Col_34_TS Col_33_IF Col_33_IF Col_33_CB Col_38_TS Col_33_IF Col_33_IF Col_52_CB Col_34_CB Col_12_IF Col_33_CB Col_12_TS Col_33_IF Col_08_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_08_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_IF Col_16_TS Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_52_IF Col_59_TS Col_52_CB Col_38_CB Col_52_TS Col_34_IF Col_33_IF

RI PT


Marker ID

200

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT TOP BOT TOP TOP BOT MINUS TOP TOP BOT TOP BOT TOP TOP TOP TOP TOP BOT TOP BOT BOT BOT TOP BOT TOP BOT

[T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [T/G] [A/C] [T/C] [A/G] [A/G] [T/C] [I/D] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/C] [A/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/C] [T/C] [A/C] [T/C]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

121007018 121063158 121073051 121104400 121106601 121167471 121167471 121172344 121260543 121363910 121515872 121515872 121515872 121753782 121756884 121767699 122201709 122376434 122448927 122514363 122890729 122890729 123208924 123222616 123222616 123222730 123226202 123474979 123474979 123542328 123564714 123634176 123690883 123848337 123853591 123867087 123924246 124157471 124224634 124238375 124522979 124660282 124672949 124863567 124937427 124963890 124989000 124989000 125014575 125039981 125047409 125060278 125082217 125084717 125092500 125147841 125198949 125232864 125287868 125328001

SC

M AN U TE D

AC C

EP

rs10519677 chr5_121063158_A_G chr5_121073051_C_T rs1431945 rs10053356 rs10478541 rs10478541 chr5_121172344_A_G rs12518706 rs17352041 rs17148940 rs17148940 rs17148940 rs304391 chr5_121756884_C_T newrs148152880 chr5_122201709_A_G chr5_122376434_C_T rs335183 chr5_122514363_C_T rs1972627 rs1972627 chr5_123208924_A_G chr5_123222616_A_G chr5_123222616_A_G chr5_123222730_C_T chr5_123226202_A_G OncoSet2125127 rs2125127 rs25871 rs1428431 rs2619943 rs1904463 rs10062543 rs949974 rs10046065 rs7707575 rs75485675 rs745085 rs6880908 chr5_124522980_A_INDEL chr5_124660282_C_T rs1822758 rs2125139 rs330354 rs10213918 rs7736175 rs7736175 rs7700496 rs1490989 rs1490986 rs17153195 rs330238 rs13176171 rs329195 rs327826 rs432111 rs34035 rs10045999 rs12659015

genotype difference Col_12_IF Col_33_IF Col_38_IF Col_33_CB Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_16_TS Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_33_CB Col_12_IF Col_52_TS Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_33_CB Col_38_CB Col_38_IF Col_33_IF Col_45_TS Col_16_IF Col_52_CB Col_38_IF Col_38_TS Col_52_CB Col_52_IF Col_08_CB Col_34_TS Col_33_IF Col_52_IF Col_52_CB Col_38_TS Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_52_IF Col_33_IF

RI PT


Marker ID

201

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT MINUS BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT MINUS TOP

[A/C] [T/C] [T/C] [T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [T/G] [T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [D/I] [T/G] [A/C] [T/G] [T/G] [T/C] [T/C] [A/T] [A/T] [A/G] [T/C] [T/C] [A/C] [A/C] [A/C] [A/C] [T/C] [A/G] [A/G] [A/G] [G/C] [A/G] [A/G] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [T/C] [A/C] [A/C] [A/G] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [I/D] [A/C]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

125507018 125648541 125726117 125726117 125764139 125905569 126135382 126191733 126191733 126419094 126419094 126632250 126794256 126795159 126814254 127069487 127161521 127437401 127452108 127493206 127550055 127801941 127801941 127832856 127923763 128051435 128051435 128056504 128129794 128138057 128222031 128222031 128222031 128505073 128541597 128732672 128864375 128864375 129028706 129280920 129408800 129442887 129468048 129517194 129708350 129708350 129759110 129771300 129883240 129984085 130113901 131449029 131663062 131730807 131755651 131847892 131847892 131915672 131944964 132036350

SC

M AN U

TE D

chr5_125507018_A_C rs882216 rs7732081 rs7732081 chr5_125764139_G_T rs6870785 rs17598783 rs74724259 rs74724259 rs6870711 rs6870711 chr5_126632250_A_G rs17164925 rs3756721 rs35522 kgp22286230 rs72790396 rs4835942 chr5_127452108_INDEL_TATC rs2054444 rs1351141 corect_rs115035508 corect_rs115035508 rs11960575 rs11956881 chr5_128051435_A_T chr5_128051435_A_T chr5_128056504_C_T rs1019137 rs6595861 chr5_128222031_G_T chr5_128222031_G_T chr5_128222031_G_T chr5_128505073_A_C rs35100037 chr5_128732672_A_G newrs73246875 newrs73246875 chr5_129028706_C_G rs10036904 rs10036775 rs2052007 chr5_129468048_A_G rs2051802 rs7726515 rs7726515 rs2214465 rs10043554 chr5_129883240_A_C rs1073833 rs10044304 rs154728 rs272893 rs274548 rs1003533 rs10074713 rs10074713 chr5_131915672_C_T chr5_131944964_INDEL_T chr5_132036350_A_C

genotype difference Col_45_IF Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_52_CB Col_52_CB Col_33_IF Col_52_IF Col_33_CB Col_12_IF Col_33_IF Col_38_CB Col_33_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_16_TS Col_52_CB Col_33_IF Col_08_TS Col_52_IF Col_33_CB Col_38_IF Col_08_CB Col_33_IF Col_33_CB Col_33_CB Col_33_IF Col_16_IF Col_38_CB Col_52_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_12_CB Col_34_CB Col_52_CB Col_33_IF Col_59_TS Col_33_IF Col_52_CB Col_52_CB Col_12_CB Col_12_IF Col_33_IF Col_33_IF Col_38_TS Col_08_CB Col_33_IF Col_33_IF Col_16_TS Col_33_CB Col_33_IF Col_34_TS Col_33_IF Col_38_IF Col_33_CB

RI PT


Marker ID

202

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP BOT BOT TOP BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP BOT MINUS BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT TOP BOT

[A/G] [T/C] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/T] [T/C] [T/G] [A/G] [T/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/G] [T/C] [A/C] [A/G] [T/G] [T/G] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [I/D] [T/C] [T/C] [T/C] [T/C] [T/G] [A/C] [A/C] [T/C] [A/C] [T/C] [A/G] [T/C]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

132040069 132437499 132864295 132941794 133201441 133521202 133781587 133819314 133978929 134104191 134126803 134366200 134385234 134478141 134480874 134523737 134538568 134570749 134575089 134597267 134622857 134630096 134644855 134663997 134735099 134748018 134748018 134758250 134775697 134788726 134807383 134824264 134852549 134883198 134924160 134973802 135168344 135261543 135276205 135276701 135680848 135680848 135680848 135699853 136000937 136029849 136218937 136318134 136527370 136585086 136585086 136585086 136681134 137281708 137281708 137358317 137359757 137386417 137568867 137644225

SC

M AN U TE D

AC C

EP

rs12186803 rs61749631 rs700706 rs17642974 rs12519506 chr5_133521202_C_T rs10491288 rs7719606 rs4426962 rs72800339 rs13154718 rs3805663 rs713563 rs7723183 rs953600 rs78893150 rs62381538 rs55743931 rs76322451 rs609385 rs72804105 rs4976288 rs2603013 rs6877719 rs17168253 rs6876711 rs6876711 rs77071525 rs874020 rs7734632 rs6862436 rs17168440 rs72787148 rs62364456 rs13156456 rs2521968 rs17738592 chr5_135261543_C_T chr5_135276205_G_T rs31548 chr5_135680848_A_G chr5_135680848_A_G chr5_135680848_A_G rs2649693 rs10075735 rs4380648 chr5_136218937_A_G rs10589429 rs6883260 rs1434639 rs1434639 rs1434639 rs1229734 rs1125979 rs1125979 kgp11540692 rs13169864 chr5_137386417_C_T rs4835672 rs75207919

genotype difference Col_12_IF Col_33_IF Col_33_TS Col_52_CB Col_08_TS Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_08_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_52_IF Col_12_CB Col_38_CB Col_52_IF Col_38_IF Col_33_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_38_TS Col_33_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_59_TS Col_33_IF Col_38_CB Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_16_IF Col_38_CB Col_52_IF Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_52_CB Col_33_IF Col_52_CB Col_33_IF

RI PT


Marker ID

203

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT MINUS TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT TOP BOT BOT BOT MINUS MINUS BOT BOT TOP BOT MINUS TOP TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP PLUS BOT BOT TOP TOP BOT TOP BOT BOT TOP TOP TOP BOT BOT BOT TOP

[T/C] [I/D] [A/G] [A/G] [A/G] [T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [T/G] [T/G] [T/C] [A/G] [T/C] [G/C] [G/C] [D/I] [D/I] [T/C] [T/C] [A/G] [T/C] [D/I] [A/C] [A/C] [A/C] [T/C] [A/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/C] [C/G] [A/C] [T/C] [T/C] [T/C] [T/C] [A/G] [D/I] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

137648679 137691643 137876920 139325313 139325313 139329962 139395150 139892331 140324431 140466331 140527753 140720110 140720110 141012013 141354300 141482700 141511254 141511254 141517735 141517735 141569656 141862929 141910142 141912334 141999467 142223067 142223067 142250890 142268172 142371467 142371680 142420072 142656632 142656632 142673956 142861671 142955844 142973435 143036860 143115442 143194745 143194745 143194745 143230325 143231616 143412790 143412790 143570841 143735716 143786205 143898531 144098872 144098872 144099791 144103408 144103408 144155905 144155905 144155905 144296874

SC

M AN U

TE D

rs13361619 chr5_137691644_INDEL_T rs154069 rs75799087 rs75799087 chr5_139329962_C_T chr5_139395150_A_G rs1025488 rs269554 chr5_140466331_A_G rs13355454 exm487808 exm487808 chr5_141012013_A_G chr5_141354300_A_G rs1835967 rs78986499 rs78986499 chr5_141517735_G_INDEL chr5_141517735_G_INDEL chr5_141569656_A_G chr5_141862929_A_G rs17098906 rs249754 chr5_141999467_AAAG_INDEL chr5_142223067_G_T chr5_142223067_G_T chr5_142250890_A_C chr5_142268172_A_G rs11167795 rs13172733 rs190313 chr5_142656632_A_G chr5_142656632_A_G rs10482694 chr5_142861671_C_T rs153519 chr5_142973435_C_G chr5_143036860_A_C rs7723052 chr5_143194745_C_T chr5_143194745_C_T chr5_143194745_C_T rs2636111 chr5_143231616_C_INDEL rs588129 rs588129 rs9324943 chr5_143735716_A_G chr5_143786205_A_G chr5_143898531_C_T rs13357155 rs13357155 rs6863555 rs17102282 rs17102282 chr5_144155905_A_G chr5_144155905_A_G chr5_144155905_A_G rs10044798

genotype difference Col_52_CB Col_33_IF Col_33_IF Col_33_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_08_CB Col_08_IF Col_38_IF Col_33_IF Col_12_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_34_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_38_TS Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_59_TS Col_33_IF Col_33_IF Col_52_IF Col_52_CB Col_08_IF Col_33_CB Col_52_IF Col_33_IF Col_33_IF Col_33_CB Col_59_TS Col_12_CB Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_12_CB Col_59_TS Col_33_IF Col_12_CB Col_08_CB Col_38_IF Col_52_TS Col_33_IF

RI PT


Marker ID

204

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP BOT BOT BOT TOP TOP BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP

[T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [C/G] [C/G] [A/C] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/T] [A/G] [T/C] [T/C] [A/G] [T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/C] [T/C] [A/G] [A/G] [T/C] [G/C] [A/G] [T/C] [T/G] [T/C] [T/C] [A/C] [A/G] [A/G] [A/G] [A/G]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

144337292 144397607 144474779 144494659 144541531 144781346 144899133 145081915 145081915 145156158 145156158 145160343 145204434 145204434 145205480 145231621 145713230 145953954 145978224 146125038 146200904 146434146 146483818 146501138 146621550 146938899 147360316 147421615 147421615 147491218 147517318 147550938 147668768 147942238 148213082 148213082 148235423 148544809 148810746 149133874 149279976 149699621 149800334 149946821 150036258 150068839 150321163 150404657 150409667 150509733 150651775 150708723 150875468 150975571 151390009 151514171 151527585 151792075 151812469 151879912

SC

M AN U TE D

AC C

EP

rs4913013 rs740475 rs10875612 rs13359856 rs6890604 rs711170 chr5_144899133_G_T chr5_145081915_A_G chr5_145081915_A_G rs10040587 rs10040587 rs13184016 rs76332975 rs76332975 rs340046 rs6892053 chr5_145713230_C_T rs1159045 rs3096089 rs17105330 chr5_146200904_A_G rs720305 chr5_146483818_A_G corect_rs187172288 rs17465991 chr5_146938899_A_T chr5_147360316_C_T rs73794616 rs73794616 rs2287770 chr5_147517318_G_T rs1156195 rs7709509 chr5_147942238_C_T rs3857420 rs3857420 chr5_148235423_A_C rs4361503 rs353291 rs11746929 rs245073 rs4588582 rs13175409 rs253290 chr5_150036258_A_C chr5_150068839_A_G chr5_150321163_C_T rs3763012 rs8177458 chr5_150509733_C_G rs1065018 rs246491 rs165330 rs7728335 rs11744717 rs29826 rs6874463 rs9688095 chr5_151812469_C_T rs17451303

genotype difference Col_33_IF Col_33_IF Col_52_IF Col_34_TS Col_52_CB Col_33_CB Col_33_IF Col_16_TS Col_38_TS Col_33_IF Col_52_CB Col_38_CB Col_34_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_CB Col_33_CB Col_45_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_CB Col_38_TS Col_33_IF Col_52_CB Col_34_CB Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_33_CB Col_33_IF

RI PT


Marker ID

205

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP BOT TOP BOT BOT TOP BOT TOP BOT TOP BOT TOP BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT TOP TOP TOP BOT BOT MINUS BOT BOT BOT TOP TOP

[T/G] [T/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/T] [T/A] [T/C] [T/G] [T/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [A/G] [A/G] [T/G] [A/C] [A/C] [A/C] [A/C] [A/C] [T/G] [A/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [I/D] [T/C] [T/C] [T/C] [A/G] [A/G]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

152140576 152140576 152291650 152318758 152347463 152466290 152509001 152652111 152777855 152787454 152839315 153819534 153819672 153850082 153859111 153869040 154210129 154247369 154249965 154609080 154967534 155072951 155302582 155359757 155370467 155440966 155530223 155544533 155686871 155741238 155741238 155741238 155742820 155756299 155763769 156120365 156140970 156192801 156754251 156772844 156964498 156964498 156964498 156964498 156964498 157034655 157073747 157122324 157320013 157526280 157526280 157545316 157773645 157953813 158085856 158091192 158096975 158107336 158161345 158207587

SC

M AN U TE D

AC C

EP

chr5_152140576_A_C chr5_152140576_A_C rs4478368 rs17113811 rs6864972 rs11744443 rs1438946 rs11745332 rs6877008 chr5_152787454_A_G rs530376 chr5_153819534_G_T chr5_153819672_A_G chr5_153850082_A_G chr5_153859111_C_T rs13165478 rs2278223 chr5_154247369_A_T chr5_154249965_A_T chr5_154609080_A_G chr5_154967534_A_C rs1363121 rs1432723 rs13178470 rs17053040 rs17053134 rs1549887 chr5_155544533_A_C rs12653936 rs7737496 rs7737496 rs7737496 rs6898100 rs11744154 rs10061194 rs157662 chr5_156140970_C_T rs10065295 rs11743919 rs13156380 chr5_156964498_G_T chr5_156964498_G_T chr5_156964498_G_T chr5_156964498_G_T rs11134803 rs6556121 rs12188040 rs2133732 chr5_157320013_C_T rs13182548 rs13182548 rs1744359 rs1952658 rs2963436 rs71764076 chr5_158091192_C_T rs10515769 chr5_158107336_A_G chr5_158161345_A_G chr5_158207587_A_G

genotype difference Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_CB Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_38_IF Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_33_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_CB Col_16_TS Col_33_IF Col_34_TS Col_33_IF Col_33_IF Col_45_TS Col_08_TS Col_33_IF Col_12_IF Col_33_IF Col_12_CB Col_16_IF Col_38_CB Col_52_IF Col_59_TS Col_38_CB Col_45_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_52_TS Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_52_IF Col_08_CB

RI PT


Marker ID

206

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT PLUS PLUS PLUS BOT BOT BOT TOP BOT BOT BOT PLUS BOT TOP BOT BOT BOT TOP TOP TOP TOP BOT TOP BOT TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT BOT

[A/G] [A/G] [T/C] [T/A] [T/C] [A/G] [G/C] [T/C] [T/C] [T/C] [T/C] [G/C] [T/G] [A/C] [T/C] [T/C] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [I/D] [I/D] [I/D] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [I/D] [T/G] [A/C] [T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/C] [T/C] [A/G] [T/G] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [A/C] [A/G] [T/C] [T/C] [T/C]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

158220193 158264020 158267423 158380961 158423745 158427727 158444480 158459721 158513125 158513125 158513125 158534851 158637996 158698068 158848071 158973453 158976183 159011227 159038698 159051970 159051970 159101288 159170813 159310695 159310695 159325351 159371159 159371159 159371159 159490247 159633484 159842673 159902313 160123451 160123451 160187121 160230934 160388643 160510960 160635051 160661108 160712407 160754549 160893357 161269895 161517570 161522556 161677267 161697175 161722529 161729592 161730087 161730725 161730725 161730725 161829942 161897136 161906784 162214859 162524331

SC

M AN U TE D

AC C

EP

rs31864 chr5_158264020_A_G chr5_158267423_C_T rs6867332 rs12055028 chr5_158427727_C_T chr5_158444480_C_G rs7720283 rs7707897 rs7707897 rs7707897 chr5_158534851_C_G rs2195933 rs4147384 rs4921496 chr5_158973453_C_T rs4304068 chr5_159011227_A_G rs2421056 rs10043527 rs10043527 rs7720446 rs1592968 rs6861020 rs6861020 rs7712049 chr5_159371160_INDEL_T chr5_159371160_INDEL_T chr5_159371160_INDEL_T rs6861719 rs4568401 rs2910191 rs17057846 chr5_160123451_C_T chr5_160123451_C_T rs11135114 rs11446179 rs2176298 rs10866726 rs248358 rs1818429 rs252954 rs1644522 chr5_160893357_A_G rs4596421 rs209354 rs11135176 rs11135183 chr5_161697175_G_T chr5_161722529_A_G chr5_161729592_C_T rs4360077 rs11135189 rs11135189 rs11135189 chr5_161829942_A_C rs11135214 rs11954409 chr5_162214859_A_G rs4254931

genotype difference Col_52_CB Col_33_CB Col_52_CB Col_52_TS Col_52_TS Col_52_IF Col_12_CB Col_12_CB Col_16_IF Col_45_CB Col_12_IF Col_34_CB Col_33_CB Col_12_CB Col_33_IF Col_38_IF Col_52_CB Col_33_IF Col_52_IF Col_33_TS Col_52_IF Col_12_CB Col_52_CB Col_16_TS Col_52_TS Col_33_IF Col_08_CB Col_38_TS Col_52_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_16_TS Col_33_CB Col_33_IF Col_12_IF Col_52_IF Col_34_CB Col_33_IF Col_33_IF Col_34_CB Col_59_TS Col_33_IF Col_16_IF Col_38_CB Col_12_IF Col_33_IF Col_52_IF Col_33_IF Col_08_TS Col_33_IF Col_38_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

207

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT MINUS TOP TOP TOP BOT TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT TOP BOT BOT BOT TOP BOT TOP BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP MINUS BOT TOP BOT

[T/C] [T/C] [T/C] [T/G] [T/G] [T/C] [G/C] [G/C] [T/C] [A/G] [A/G] [T/C] [I/D] [A/G] [A/C] [A/G] [G/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/A] [A/G] [G/C] [T/G] [T/C] [A/G] [T/G] [A/G] [T/C] [T/C] [A/C] [T/C] [A/G] [A/G] [A/G] [T/C] [G/C] [T/C] [A/G] [A/T] [A/T] [A/G] [I/D] [T/C] [A/C] [T/C]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

162632615 162652827 162710860 162727341 162727341 162737689 162891088 162891088 162949962 162959685 162959685 162966787 162992568 163030446 163137979 163273631 163297347 163313040 163315075 163315075 163484178 163496705 163951358 163988372 163988372 164093322 164093322 164222067 164233507 164237749 164319435 164339317 164616822 164696018 164729614 164786295 164846463 164877178 165003334 165085583 165133969 165231169 165236250 165309208 165349111 165406607 165470720 165470720 165522270 165533859 165589259 165771482 165788235 165885252 165885252 165914041 165952309 166127026 166164819 166196443

SC

M AN U TE D

AC C

EP

rs2913568 rs4551093 rs1862166 rs2913578 rs2913578 rs10515854 chr5_162891088_C_G chr5_162891088_C_G rs13358512 rs76099528 rs76099528 rs6879346 chr5_162992569_A_INDEL chr5_163030446_A_G rs520002 rs6881878 rs6864768 rs17062468 rs158291 rs158291 chr5_163484178_A_G chr5_163496705_C_T chr5_163951358_C_T rs10043471 rs10043471 kgp1878586 kgp1878586 rs2909760 chr5_164233507_G_T rs4259187 rs4583905 chr5_164339317_C_T rs4868917 rs12186829 chr5_164729614_A_T rs9790890 rs12517122 rs9314069 chr5_165003334_C_T rs116953 chr5_165133969_G_T chr5_165231169_A_G rs13169962 rs10475761 rs11957651 rs2591580 chr5_165470720_C_T chr5_165470720_C_T rs2644725 chr5_165533859_C_T chr5_165589259_C_G rs1799548 rs1392383 chr5_165885252_A_T chr5_165885252_A_T rs2961863 chr5_165952310_A_INDEL rs1363634 chr5_166164819_G_T rs12515573

genotype difference Col_12_CB Col_52_IF Col_16_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_CB Col_45_IF Col_33_IF Col_08_CB Col_12_CB Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_59_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_34_CB Col_08_TS Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_38_IF Col_38_IF Col_33_IF Col_33_IF Col_52_IF Col_16_TS Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_52_IF Col_16_TS Col_38_CB Col_33_IF Col_12_IF Col_38_CB Col_08_CB Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_16_TS

RI PT


Marker ID

208

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT PLUS BOT TOP TOP BOT TOP BOT BOT TOP BOT TOP BOT BOT TOP BOT BOT TOP BOT TOP BOT BOT TOP BOT TOP TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT TOP TOP BOT

[A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/G] [A/G] [T/C] [A/G] [A/G] [A/G] [G/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [D/I] [T/G] [A/C] [A/G] [T/G] [A/C] [T/A] [T/C] [A/C] [T/G] [A/C] [T/C] [T/C] [A/G] [T/C] [T/G] [A/G] [T/C] [A/G] [T/A] [T/A] [A/G] [T/C] [A/G] [A/G] [T/C] [A/T] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [T/C] [A/G] [A/G] [T/C]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5

166284715 166302781 166566580 166649746 166792419 166828290 166870801 166905044 166919900 167070649 167208757 167392011 167487554 167903670 167924928 167977380 167977380 168165399 168189976 168189976 168276982 168494914 168582131 168592495 168629393 168828290 168892466 168973072 169031218 169532633 169661414 170258216 170470951 170801952 171080345 171244422 172040365 172457354 172559591 172786580 172786580 172874559 172882207 172975691 173016484 173300960 173542384 173793906 173823541 173839160 173848586 173944166 174105199 174192768 174192768 174221703 174417049 174435132 174472998 174518045

SC

M AN U TE D

AC C

EP

chr5_166284715_C_T rs17067690 rs2961658 rs10080168 rs2902120 chr5_166828290_C_T rs6884191 rs7719534 rs12659544 chr5_167070649_C_T chr5_167208757_A_G rs2337033 rs248001 chr5_167903670_A_G rs2445785 rs2432650 rs2432650 rs10079276 rs17732915 rs17732915 chr5_168276982_G_INDEL rs7701811 rs297824 rs297819 rs297855 rs6555860 chr5_168892466_A_T chr5_168973072_C_T rs2042248 rs10064122 rs918506 rs4867634 kgp2818050 rs7707008 rs12110228 chr5_171244422_A_C rs2089190 chr5_172457354_A_G chr5_172559591_C_T chr5_172786580_A_T chr5_172786580_A_T chr5_172874559_A_G chr5_172882207_A_G rs10866665 rs12716293 chr5_173300960_C_T chr5_173542384_A_T rs2936959 rs1862134 rs718927 rs34793559 rs703739 rs7701069 chr5_174192768_A_G chr5_174192768_A_G rs7731308 chr5_174417049_C_T rs981359 rs10053511 chr5_174518045_C_T

genotype difference Col_33_CB Col_33_IF Col_16_IF Col_33_CB Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_16_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_34_IF Col_52_CB Col_16_TS Col_38_TS Col_33_IF Col_33_IF Col_52_CB Col_38_TS Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_45_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_59_CB Col_38_IF Col_52_IF Col_33_IF Col_52_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_52_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_CB Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_12_CB

RI PT


Marker ID

209

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP BOT BOT TOP BOT BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP

[A/G] [A/T] [T/C] [T/C] [T/G] [T/C] [T/C] [T/A] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/C] [T/C] [T/C] [A/G] [T/C] [T/G] [A/C] [T/G] [T/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G]

5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 6 6 6 6 6 6 6 6 6 6 6 6 6

174598313 174601083 174609585 174616919 174769302 174860411 174896748 174955535 175131097 175131097 175131097 175863887 176001975 176021956 176140452 176188633 176343061 176362314 176363429 176396888 176511432 176735187 177645463 177649103 177717723 177949225 177990823 177990823 178311260 178311260 178436617 178436617 178436617 178665185 178699311 178699311 178746376 178820635 179430530 179470930 179577467 179649862 179695430 179795131 179878303 180235503 180682862 233750 405900 434364 480628 541668 572480 584401 642289 642289 654985 654985 805207 870244

SC

M AN U TE D

AC C

EP

chr5_174598313_C_T chr5_174601083_A_T rs4146193 rs6886962 rs2471010 chr5_174860411_C_T chr5_174896748_A_G rs72821224 rs10079693 rs10079693 rs10079693 chr5_175863887_A_G rs1078450 rs11134985 rs2220368 rs577557 chr5_176343061_A_G chr5_176362314_A_G chr5_176363429_C_T chr5_176396888_C_T chr5_176511432_G_T chr5_176735187_G_T chr5_177645463_A_C chr5_177649103_A_C rs2973775 chr5_177949225_C_T chr5_177990823_A_G chr5_177990823_A_G exm508891 exm508891 rs7700958 rs7700958 rs7700958 rs11746802 rs901254 rs901254 chr5_178746376_A_G rs6883577 rs248318 rs10061480 chr5_179577467_C_T rs3099065 rs4700730 rs35475273 chr5_179878303_A_G chr5_180235503_C_T rs2545093 rs12212523 rs3800262 rs9328192 rs9392573 rs6904638 rs2073009 chr6_584401_A_G rs9378445 rs9378445 rs9405889 rs9405889 rs11758860 rs884126

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_52_CB Col_16_IF Col_34_CB Col_52_IF Col_33_IF Col_33_CB Col_34_CB Col_38_TS Col_34_CB Col_33_IF Col_34_TS Col_52_CB Col_52_CB Col_52_CB Col_38_TS Col_52_CB Col_52_IF Col_52_CB Col_52_TS Col_33_IF Col_45_IF Col_16_TS Col_52_IF Col_33_CB Col_38_CB Col_59_TS Col_38_TS Col_08_TS Col_38_TS Col_33_TS Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_34_TS Col_33_IF Col_38_IF Col_08_TS Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_CB Col_52_CB Col_52_IF Col_12_IF Col_52_IF Col_59_TS Col_52_IF Col_12_CB

RI PT


Marker ID

210

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP BOT TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT TOP TOP BOT TOP BOT BOT PLUS PLUS TOP BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT TOP BOT TOP BOT TOP BOT

[A/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/G] [A/C] [A/C] [T/C] [T/C] [T/C] [T/G] [T/C] [A/G] [G/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/C] [T/G] [T/C] [I/D] [I/D] [A/G] [T/A] [T/C] [T/C] [T/C] [T/C] [A/G] [G/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [A/C] [T/C]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

930792 979803 979803 980237 1076198 1077306 1115897 1137160 1217204 1217204 1221294 1289807 1307846 1309483 1315309 1337311 1391620 1410267 1442713 1451437 1452004 1454972 1490582 1493695 1533536 1541749 1541781 1545963 1545963 1555810 1613076 1726162 1782040 1783630 1783630 1973579 2160244 2236926 2412228 2412228 2412228 2412228 2412228 2466482 2514312 2776303 2781931 2947783 2952289 2955802 3010390 3029127 3029127 3343544 3359194 3369270 3371291 3374575 3946972 4036260

SC

M AN U TE D

AC C

EP

rs12202545 rs2784956 rs2784956 chr6_980237_A_G chr6_1076198_A_G chr6_1077306_A_G rs1997773 rs240685 chr6_1217204_G_T chr6_1217204_G_T chr6_1221294_A_G chr6_1289807_C_T rs11242674 chr6_1309483_G_T chr6_1315309_C_T chr6_1337311_A_G chr6_1391620_C_G chr6_1410267_C_T chr6_1442713_A_G chr6_1451437_C_T chr6_1452004_C_T rs2816252 rs6906804 chr6_1493695_C_T chr6_1533536_G_T chr6_1541749_G_T rs12192861 rs61236385 rs61236385 chr6_1555810_A_G rs35717904 rs9378310 chr6_1782040_C_T chr6_1783630_A_G chr6_1783630_A_G chr6_1973579_C_T chr6_2160244_C_G rs3800191 rs4959663 rs4959663 rs4959663 rs4959663 rs4959663 rs4634509 rs967430 rs160699 chr6_2781931_A_G rs13218926 rs2756071 rs2295769 rs1143684 rs1885300 rs1885300 rs10498660 rs6923667 rs9378365 rs981946 rs6919934 rs6597013 chr6_4036260_A_G

genotype difference Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_45_IF Col_52_IF Col_52_CB Col_33_CB Col_33_CB Col_33_IF Col_12_IF Col_33_IF Col_52_IF Col_33_CB Col_33_CB Col_12_CB Col_12_IF Col_52_IF Col_12_IF Col_33_CB Col_12_CB Col_52_CB Col_52_CB Col_52_IF Col_12_CB Col_12_CB Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_34_IF Col_38_TS Col_45_IF Col_12_CB Col_12_CB Col_33_IF Col_52_IF Col_12_CB Col_12_CB Col_33_IF Col_52_IF Col_33_CB Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF

RI PT


Marker ID

211

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT PLUS PLUS BOT TOP TOP BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT

[A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [A/G] [A/C] [A/G] [T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [D/I] [D/I] [T/C] [A/C] [A/G] [T/C] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/C] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

4299380 4309521 4436299 4463967 4468699 4470378 4484855 4501489 4604939 4651958 4661844 4737179 4747159 4762144 5395285 5560506 5560726 5560726 5592955 5723227 5746943 5980711 6010539 6082485 6361816 6409308 6410663 6491347 6495522 6535323 6542221 6868584 6887857 6901007 6909188 6942514 6942564 7025442 7232186 7543783 7564461 7570791 7570791 7579412 7736743 7825257 7834019 7960742 7960742 7960742 7981671 7981671 8026969 8110994 8152417 8156183 8213567 8213567 8213567 8215433

SC

M AN U TE D

AC C

EP

rs6597051 rs932847 rs953323 chr6_4463967_G_T rs1265275 rs1265270 rs1265256 rs2181015 rs13204938 chr6_4651958_C_T rs9378408 rs12665403 rs1040045 rs4502986 rs2032989 rs7746509 chr6_5560726_INDEL_TG chr6_5560726_INDEL_TG rs4960110 rs6924018 rs9504505 rs6942389 rs4960155 rs4142291 rs7774436 rs2815816 rs4455715 rs1535705 rs6919894 rs1761938 chr6_6542221_G_T rs10900997 chr6_6887857_C_T rs3748060 rs13192947 rs2094440 rs2094442 rs1570918 rs9505086 rs2806167 rs1358904 exm514909 exm514909 rs2806225 rs2068361 rs10498673 rs267186 rs9505329 rs9505329 rs9505329 rs197123 rs197123 rs2744009 rs2039520 rs11243235 rs1334905 chr6_8213567_C_T chr6_8213567_C_T chr6_8213567_C_T chr6_8215433_C_T

genotype difference Col_12_CB Col_33_IF Col_38_CB Col_52_CB Col_33_IF Col_16_TS Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_52_IF Col_12_CB Col_12_IF Col_52_IF Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_08_TS Col_12_CB Col_33_IF Col_16_CB Col_52_IF Col_52_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_38_TS Col_45_IF Col_12_CB Col_34_TS Col_52_IF Col_33_IF Col_08_TS Col_38_TS Col_12_CB Col_52_TS Col_12_IF Col_12_CB Col_52_CB Col_08_IF Col_33_IF Col_08_CB Col_16_TS Col_33_CB Col_33_IF

RI PT


Marker ID

212

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT

[T/C] [A/G] [A/G] [T/G] [T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [C/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [A/C] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [A/G] [A/T] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/G] [A/G] [T/C] [A/G] [T/G] [T/G] [T/C] [T/C] [T/A] [A/G] [A/G] [A/G] [T/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

8256964 8348310 8379808 8420464 8604971 8621262 8645541 8959783 8973552 9015569 9060163 9142017 9142017 9475290 9538343 9621539 9643145 9662073 9894772 9894772 9895065 9926246 10057286 10057286 10079333 10166141 10233935 10256675 10256675 10256675 10269064 10329619 10358695 10362596 10379816 10381892 10391782 10392486 10430978 10447955 10447955 10447955 10466038 10481390 10613591 10636137 10823762 10879996 10932569 10938620 10961765 11158816 11174591 11227246 11227385 11288398 11305230 11379146 11413930 11458681

SC

M AN U TE D

AC C

EP

rs1413904 chr6_8348310_C_T rs6597313 rs6935430 chr6_8604971_G_T rs2984091 rs4446612 rs4388333 chr6_8973552_C_T rs382854 rs12210482 rs12205137 rs12205137 rs1015853 rs71561172 chr6_9621539_A_G rs72822396 rs9464676 chr6_9894772_C_T chr6_9894772_C_T chr6_9895065_C_T rs12202646 chr6_10057286_A_G chr6_10057286_A_G rs1322825 chr6_10166141_A_C chr6_10233935_G_T rs9350235 rs9350235 rs9350235 rs6940110 chr6_10329619_C_T rs606699 rs9295506 chr6_10379816_C_T corect_rs59996319 chr6_10391782_A_G rs78488212 chr6_10430978_C_T chr6_10447955_A_G chr6_10447955_A_G chr6_10447955_A_G rs3889361 rs502431 chr6_10613591_A_G chr6_10636137_A_G chr6_10823762_G_T chr6_10879996_G_T chr6_10932569_A_G chr6_10938620_A_G chr6_10961765_A_G rs10946984 rs4552715 chr6_11227246_A_G rs2182336 chr6_11288398_A_T rs4713379 rs9469022 chr6_11413930_A_G chr6_11458681_A_C

genotype difference Col_12_CB Col_12_CB Col_12_IF Col_52_IF Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_52_IF Col_52_IF Col_52_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_52_IF Col_33_IF Col_16_TS Col_38_TS Col_45_IF Col_52_CB Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_52_IF Col_16_TS Col_16_IF Col_33_IF Col_38_CB Col_33_IF Col_52_CB Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF

RI PT


Marker ID

213

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT MINUS BOT BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP PLUS TOP BOT TOP PLUS TOP MINUS BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT TOP TOP TOP BOT

[A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/C] [T/C] [D/I] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/G] [A/C] [T/C] [T/C] [A/G] [A/G] [I/D] [A/G] [T/C] [A/G] [I/D] [A/C] [I/D] [T/C] [T/G] [T/C] [A/G] [A/C] [T/A] [A/G] [T/C] [T/C] [T/G] [T/G] [A/G] [A/C] [T/C] [A/G] [T/G] [T/G] [A/T] [A/G] [A/G] [T/C]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

11480089 11490909 11513834 11640004 11684342 11712586 11971555 12046262 12046262 12087892 12092110 12130023 12130333 12137176 12297482 12342789 12342789 12426180 12452295 12455645 12488729 12514092 12520288 12658711 12734891 12833077 12875054 12901441 13182995 13195458 13226792 13226792 13251222 13296206 13395558 13397659 13495343 13559802 13587734 13639700 13641739 13644160 13714482 13717932 13723374 13733992 13751547 13755331 13755585 13803300 13828415 13838637 13926563 13933410 13978275 13978854 14012999 14073320 14096658 14132611

SC

M AN U TE D

AC C

EP

chr6_11480089_A_G rs6914420 rs555034 rs549655 rs6934072 chr6_11712586_C_T rs12213771 chr6_12046262_A_G chr6_12046262_A_G rs10947756 corect_rs140172281 exm516973 chr6_12130333_C_INDEL chr6_12137176_A_G chr6_12297482_C_T rs1317584 rs1317584 rs9394861 chr6_12452295_G_T chr6_12455645_C_T rs1999622 rs9349250 rs6914768 chr6_12658711_A_G rs9472446 rs12528956 rs1332841 rs9369640 rs3823445 rs1150600 rs1232381 rs1232381 chr6_13251222_AT_INDEL rs7774863 rs536916 chr6_13397659_A_G chr6_13495344_INDEL_T chr6_13559802_G_T rs66761797 chr6_13639700_A_G chr6_13641739_G_T chr6_13644160_C_T chr6_13714482_C_T rs495572 chr6_13723374_A_T chr6_13733992_A_G chr6_13751547_A_G chr6_13755331_A_G chr6_13755585_A_C chr6_13803300_G_T chr6_13828415_C_T chr6_13838637_G_T chr6_13926563_C_T rs2057536 rs280162 rs2147200 chr6_14012999_A_T rs9296918 rs12529514 rs9885921

genotype difference Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_52_TS Col_12_CB Col_12_CB Col_12_CB Col_52_IF Col_16_IF Col_52_CB Col_33_TS Col_33_CB Col_16_CB Col_12_CB Col_52_CB Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_12_CB Col_59_TS Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_59_TS Col_52_IF Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_12_CB

RI PT


Marker ID

214

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT TOP PLUS BOT BOT TOP TOP BOT TOP BOT BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP PLUS BOT TOP BOT BOT TOP BOT TOP TOP BOT BOT BOT TOP BOT BOT TOP TOP BOT BOT TOP TOP BOT BOT BOT TOP BOT BOT TOP

[T/C] [T/C] [T/A] [T/A] [C/G] [I/D] [T/C] [T/G] [A/G] [A/G] [T/G] [A/G] [T/C] [T/C] [T/G] [A/G] [A/G] [A/T] [A/G] [T/G] [A/G] [A/G] [A/G] [T/C] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [I/D] [T/G] [A/G] [T/C] [T/C] [A/C] [T/C] [A/C] [A/C] [T/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/C] [A/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/G] [T/G] [C/G] [T/C] [T/C] [A/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

14418373 14418373 14491812 14491812 14853307 14929513 14956927 15093021 15222515 15275305 15352243 15437390 15560583 15722501 15748726 15760644 15838644 15919714 15931538 15958117 16281187 16387803 16508469 16661588 16681078 16704494 16779184 16956041 16956041 17054240 17158078 17333338 17374899 17537797 17626299 17637386 17646313 17693387 17725183 17834198 17881428 17979139 18038081 18088988 18131012 18258516 18284716 18323876 18323876 18424299 18508326 18559445 18571775 18595473 18710481 18777685 18843810 19100507 19293391 19297457

SC

M AN U TE D

AC C

EP

rs7452289 rs7452289 chr6_14491812_A_T chr6_14491812_A_T chr6_14853307_C_G rs36063132 rs7741153 rs6906466 rs9349973 rs6921502 rs707838 rs2282827 rs9476849 rs9464819 rs9476903 rs1109287 chr6_15838644_A_G rs813970 rs9296994 rs9358075 rs6914805 rs9464886 rs4716077 rs9367923 rs3793102 rs3812209 rs615931 rs9477268 rs9477268 rs4142714 rs9477339 rs4440469 chr6_17374900_A_INDEL rs9465047 exm518516 exm518571 exm518607 rs79376042 rs7743695 rs4716189 rs9383330 rs12201624 rs6459587 rs12201541 rs1800584 rs172520 rs214544 rs912530 rs912530 rs516487 rs6935744 rs9396878 chr6_18571775_C_T corect_rs189533674 chr6_18710481_G_T chr6_18777685_G_T rs11756035 rs6931466 chr6_19293391_C_T rs12205836

genotype difference Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_08_TS Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_38_CB Col_12_CB Col_38_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_12_TS Col_12_CB Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF

RI PT


Marker ID

215

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP BOT

[A/G] [G/C] [T/C] [A/C] [A/T] [T/G] [T/G] [T/C] [T/C] [A/G] [A/G] [A/C] [A/G] [T/G] [A/G] [A/G] [T/C] [T/G] [A/C] [A/C] [A/G] [T/A] [T/A] [T/C] [T/G] [A/C] [A/C] [A/C] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/G] [T/G] [T/C] [T/G] [T/A] [T/A] [T/G] [A/C] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/G] [T/C] [A/G] [A/C] [A/G] [T/C] [A/G] [A/G] [T/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

19398282 19443935 19492819 19628633 19728387 19792518 19792518 19798682 19828213 19975946 20035068 20084591 20104331 20269320 20299481 20307125 20316167 20396953 20470908 20470908 20546697 20649254 20649254 20728513 20829772 20858852 20858852 20858852 20971985 21144599 21191928 21198083 21573637 21649085 21670816 21674378 21766998 21818365 21922708 21942152 21942152 21983816 21987116 22043393 22125157 22207494 22291367 22405802 22484377 22602569 22602569 22694829 22788864 22851846 22894269 22896650 22919351 22956022 22959447 22976076

SC

M AN U TE D

AC C

EP

rs10806886 chr6_19443935_C_G rs6921277 rs6930954 chr6_19728387_A_T rs1997688 rs1997688 rs9368123 chr6_19828213_C_T chr6_19975946_A_G rs495768 rs2457350 rs79434274 chr6_20269320_G_T rs4712480 chr6_20307125_A_G rs71563959 rs10806918 rs12205236 rs12205236 chr6_20546697_A_G rs6456364 rs6456364 rs6928012 rs9356755 rs9366363 rs9366363 rs9366363 rs6913817 rs10498701 rs9465991 chr6_21198083_A_G rs9358442 chr6_21649085_A_G rs1744885 chr6_21674378_G_T rs9466179 chr6_21818365_C_T rs12213632 chr6_21942152_A_T chr6_21942152_A_T rs7768772 chr6_21987116_A_C rs196032 rs9368402 rs17262993 rs849886 chr6_22405802_A_G rs9393300 rs6903615 rs6903615 rs1555108 rs17790189 rs1107271 rs75903844 rs17792036 rs78709928 rs34765475 rs78174704 rs9466536

genotype difference Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_38_TS Col_33_IF Col_52_IF Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_52_CB Col_59_TS Col_12_CB Col_52_IF Col_16_IF Col_52_IF Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_34_CB Col_12_CB Col_12_CB Col_33_IF Col_34_IF Col_33_IF Col_12_CB Col_38_CB Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_34_IF Col_12_CB Col_08_CB Col_33_IF

RI PT


Marker ID

216

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP BOT TOP TOP TOP BOT TOP BOT TOP BOT TOP BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT TOP TOP TOP TOP TOP TOP BOT TOP BOT TOP BOT TOP TOP TOP BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT

[T/C] [A/G] [A/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/C] [T/G] [A/G] [T/C] [A/G] [T/C] [T/C] [G/C] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [A/C] [T/G] [T/C] [A/G] [A/C] [T/C] [A/G] [A/G] [A/G] [A/C] [A/C] [A/C] [T/C] [A/G] [T/C] [A/G] [T/G] [A/G] [A/G] [A/C] [T/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/A]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

23012936 23021257 23033914 23052063 23066068 23141221 23141221 23180995 23182258 23188059 23189857 23194139 23198001 23200703 23201502 23205466 23205659 23208904 23220496 23224205 23243292 23249572 23249572 23249572 23286993 23289582 23344024 23344815 23345936 23393262 23415462 23417123 23433139 23437205 23437676 23437676 23437676 23462598 23463401 23465010 23468240 23469680 23475473 23507907 23510228 23513468 23513560 23514346 23519026 23536223 23542172 23554642 23556224 23556224 23569558 23586029 23586619 23587135 23590174 23597890

SC

M AN U TE D

AC C

EP

rs2498242 rs6912766 rs74837057 rs62389595 rs75040486 rs4510659 rs4510659 rs62399101 rs62399103 rs4236023 rs9466669 rs4712746 rs12208780 rs4711044 rs60641346 rs9466673 rs79620396 rs9379482 rs10080725 rs13216909 rs9466687 rs79268313 rs79268313 rs79268313 rs75533126 rs34038602 rs13219979 rs12529002 rs17275006 rs74578171 rs6910731 rs17409658 rs199039 rs6936652 rs7771911 rs7771911 rs7771911 rs199009 rs199006 rs191815 rs199002 rs10456274 rs199072 rs6940471 rs6456553 rs12215677 rs62400877 rs76871200 rs74870504 rs12212208 rs199086 rs199079 rs7749787 rs7749787 rs9466819 rs9466848 rs6456557 rs13204023 rs76485142 rs6932283

genotype difference Col_33_IF Col_16_IF Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_52_IF Col_33_TS Col_52_TS Col_52_IF Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_12_CB Col_52_CB Col_52_IF Col_12_CB Col_08_CB Col_59_TS Col_12_IF Col_33_CB Col_12_IF Col_12_CB Col_16_IF Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_12_CB Col_33_IF Col_08_TS Col_38_IF Col_52_CB Col_33_IF Col_33_IF Col_08_TS Col_12_CB Col_52_CB Col_12_CB Col_12_TS Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_59_TS Col_12_CB Col_33_IF Col_33_CB Col_52_CB

RI PT


Marker ID

217

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP

[A/C] [T/G] [T/G] [A/C] [G/C] [T/G] [A/C] [A/C] [T/C] [T/G] [T/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [A/C] [A/G] [A/G] [G/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/T] [A/G] [T/G] [T/C] [A/G] [A/C] [A/C] [T/A] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [C/G] [C/G] [C/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

23600234 23615974 23615974 23616628 23626642 23648023 23656325 23671618 23675439 23738031 23738031 23765352 23769388 23781889 23785834 23790159 23811313 23825502 23844762 23850901 23852720 23852720 23890143 23916638 23924836 23933572 23936786 23942739 23943424 23946867 23947234 23976276 23993623 23993623 24009794 24010193 24027580 24034089 24042393 24046037 24078258 24101369 24101369 24130563 24132022 24133220 24133220 24141835 24167807 24180366 24185297 24189275 24189275 24189275 24189275 24198332 24275383 24278200 24278200 24278200

SC

M AN U TE D

AC C

EP

rs197999 rs75883108 rs75883108 rs77250988 rs483790 rs72833886 rs6910572 rs12211737 rs78078072 rs9348592 rs9348592 rs16888137 rs16888161 rs16888180 rs1325024 rs11967333 rs9358706 rs17232397 rs12207777 chr6_23850901_A_C rs17232949 rs17232949 rs75398282 rs78159679 rs72842327 rs12204201 rs36002103 rs74757478 rs806553 rs550969 rs75498107 rs1511478 rs497408 rs497408 rs10484660 rs80175423 rs12209360 rs12529384 rs10946659 rs1520968 rs9460965 rs12209162 rs12209162 rs1936390 rs72828936 rs16888707 rs16888707 rs9791210 rs4582376 rs2996452 rs4712807 rs3789220 rs3789220 rs3789220 rs3789220 rs72828971 rs807699 rs3846827 rs3846827 rs3846827

genotype difference Col_12_CB Col_33_IF Col_34_IF Col_33_IF Col_33_IF Col_12_TS Col_12_CB Col_33_CB Col_33_IF Col_16_IF Col_59_TS Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_34_TS Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_38_TS Col_12_IF Col_12_CB Col_33_IF Col_12_CB Col_52_TS Col_12_CB Col_34_CB Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_CB Col_33_CB Col_38_TS Col_38_CB Col_33_IF Col_33_IF Col_38_IF Col_38_IF Col_12_CB Col_33_IF Col_38_IF Col_08_CB Col_16_CB Col_33_IF Col_59_TS Col_33_IF Col_34_TS Col_33_IF Col_52_CB Col_12_CB

RI PT


Marker ID

218

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT TOP BOT TOP BOT TOP BOT

[T/C] [A/G] [A/G] [A/G] [A/C] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/G] [T/G] [A/G] [T/G] [A/G] [A/T] [T/G] [T/C] [A/C] [T/C] [T/C] [T/C] [T/G] [T/G] [T/C] [T/G] [T/C] [A/C] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [A/C] [T/G] [A/C] [T/C] [T/C] [T/C] [T/C] [T/G] [G/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/G] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

24288724 24300886 24305184 24305184 24311559 24313828 24346056 24415136 24432052 24464226 24464226 24464226 24485429 24490028 24535208 24535208 24546604 24558192 24567223 24583804 24606069 24615063 24616302 24616882 24617530 24617530 24645697 24645697 24650626 24650731 24651604 24657964 24708523 24729897 24730494 24759766 24794915 24803317 24804860 24852751 24854639 24859663 24872939 24889730 24889730 24930614 24948280 24953195 24953195 24967240 24975533 24999161 25034184 25038723 25041146 25060863 25065669 25127176 25147492 25179357

SC

M AN U TE D

AC C

EP


genotype difference Col_52_TS Col_33_IF Col_08_CB Col_16_TS Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_38_IF Col_08_CB Col_16_TS Col_12_IF Col_33_IF Col_33_IF Col_08_TS Col_34_IF Col_38_TS Col_33_IF Col_33_IF Col_12_CB Col_08_CB Col_12_CB Col_33_IF Col_12_CB Col_16_IF Col_38_CB Col_33_IF Col_12_TS Col_33_IF Col_52_CB Col_33_IF Col_34_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_59_TS Col_33_IF Col_12_CB Col_38_TS Col_33_IF Col_38_CB Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_52_IF Col_33_IF Col_12_CB

RI PT


Marker ID

219

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP BOT BOT TOP TOP BOT BOT TOP BOT TOP TOP BOT TOP BOT BOT BOT TOP BOT TOP BOT BOT TOP BOT BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT TOP TOP BOT TOP BOT TOP BOT TOP TOP TOP TOP

[T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/C] [G/C] [T/G] [A/G] [T/G] [C/G] [C/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/C] [T/C] [T/C] [A/C] [T/C] [T/G] [A/G] [A/G] [A/C] [A/G] [T/C] [T/C] [A/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/A] [A/G] [T/C] [A/G] [A/C] [A/C] [A/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

25193064 25198663 25249623 25260434 25332130 25334288 25401131 25402793 25414419 25414537 25418027 25422961 25436955 25442464 25456221 25459107 25466648 25466889 25469120 25480367 25488265 25494956 25503659 25522713 25533534 25553459 25553459 25556249 25578433 25579853 25588949 25617291 25657590 25668031 25701858 25733095 25760260 25797824 25801057 25803095 25809887 25840450 25864898 25877970 25886245 25927388 25957392 25957642 26022392 26056604 26071093 26074594 26098755 26110314 26111756 26119459 26140134 26151535 26175852 26214237

SC

M AN U TE D

AC C

EP

rs4144129 rs9393623 rs10080837 rs10456319 rs12192665 rs2744306 rs16890551 rs16890562 rs56010624 rs9366622 rs78312771 rs6927091 rs72831267 rs1876372 rs79349325 rs75387494 rs72839013 rs301396 rs74525527 rs59703029 rs4712944 chr6_25494956_C_G rs76179038 rs212939 rs12526480 rs3804132 rs3804132 rs214050 rs75580845 rs3804121 rs76796572 rs3804103 rs4712950 rs75639901 rs79999623 rs16890978 rs78626603 rs16891051 rs1165210 rs12191655 rs1165198 rs11751616 rs1165158 rs603089 chr6_25886245_A_G rs59943357 rs169219 rs9467647 rs75397441 rs2230653 rs2051544 rs76333095 rs1150658 rs198843 rs16891315 rs198828 rs72834689 rs9358908 rs9379831 rs76389676

genotype difference Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_CB Col_52_TS Col_16_TS Col_33_IF Col_52_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_38_TS Col_45_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_12_TS Col_33_IF Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF

RI PT


Marker ID

220

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT TOP BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP

[T/C] [T/C] [T/G] [A/G] [A/C] [T/C] [T/A] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/G] [G/C] [A/G] [A/G] [A/T] [A/G] [A/G] [A/G] [A/G] [G/C] [T/C] [T/G] [A/G] [A/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/C] [A/C] [A/G] [A/G] [A/G] [A/C] [A/C] [T/G] [T/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

26338056 26341301 26345829 26347997 26360324 26371195 26395165 26441640 26441640 26441640 26441640 26561376 26561376 26572165 26581927 26946687 26999845 27022781 27024823 27041933 27214839 27226965 27230288 27241915 27249439 27259308 27285365 27287800 27303927 27385609 27409675 27498955 27516769 27519345 27588727 27619629 27694270 27746178 27758052 27788062 27813813 27828667 27883201 27884916 27948574 27957139 27985388 28037020 28056250 28064984 28073881 28124114 28133311 28133311 28157622 28157622 28157622 28157622 28179312 28218819

SC

M AN U TE D

AC C

EP

rs4412193 rs9467715 chr6_26345829_A_C rs10456328 rs75984220 rs72841516 rs73736251 chr6_26441640_C_T chr6_26441640_C_T chr6_26441640_C_T chr6_26441640_C_T rs16891824 rs16891824 rs6925895 rs79070268 chr6_26946687_C_T rs13217285 rs72838269 rs78560069 rs75462003 rs79963777 rs9393796 rs9379966 rs34843552 chr6_27249439_A_G rs9379971 rs76054911 rs12174489 rs9461362 rs77413692 rs16900009 rs6456795 rs9357041 rs6934794 rs9393831 rs78633425 rs74641239 rs9468226 rs74825289 rs200502 rs200994 chr6_27828667_A_C rs1497526 rs9468254 rs7769416 rs78190529 rs6456804 rs149957 rs17710827 rs78241630 rs34662244 chr6_28124114_C_T chr6_28133311_C_T chr6_28133311_C_T rs75978391 rs75978391 rs75978391 rs75978391 rs76214467 rs76636512

genotype difference Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_59_TS Col_16_TS Col_34_CB Col_38_CB Col_52_CB Col_52_IF Col_12_IF Col_12_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_33_CB Col_12_CB Col_12_CB Col_12_IF Col_52_TS Col_33_IF Col_52_TS Col_12_CB Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_16_TS Col_33_CB Col_38_TS Col_45_IF Col_33_IF Col_33_IF

RI PT


Marker ID

221

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT TOP TOP BOT TOP TOP BOT TOP BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP BOT

[A/C] [T/C] [T/C] [T/C] [T/C] [A/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/G] [T/G] [T/C] [T/C] [T/G] [T/C] [T/G] [T/G] [T/G] [T/G] [A/C] [T/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/A] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [T/G] [A/G] [T/C] [T/C] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

28218819 28265640 28328683 28328683 28328683 28387294 28390843 28411244 28411468 28431184 28463576 28468301 28472733 28499236 28499236 28538475 28538475 28542196 28609998 28635592 28635592 28645170 28671422 28676458 28696063 28756722 28792030 28824958 28857269 28909465 29064772 29075088 29118813 29137220 29184660 29192468 29235289 29235289 29240378 29255157 29269143 29274319 29289694 29295487 29295487 29310681 29335661 29336054 29340743 29340919 29343355 29344704 29344704 29344704 29351784 29351784 29367590 29398938 29400280 29454755

SC

M AN U TE D

AC C

EP

rs76636512 rs2743554 rs1555047 rs1555047 rs1555047 rs73740609 rs3800328 rs13190937 chr6_28411468_A_G rs9468379 chr6_28463576_C_T chr6_28468301_C_T rs34357620 rs440481 rs440481 rs16894163 rs16894163 rs12529247 rs12663789 rs4713175 rs4713175 rs9393921 rs1107160 rs9357072 rs9393929 chr6_28756722_C_T rs3118360 rs9501112 rs209148 rs4713186 chr6_29064772_C_T chr6_29075088_A_T rs3116847 chr6_29137220_A_G chr6_29184660_C_T rs75747559 rs9468503 rs9468503 chr6_29240378_C_T chr6_29255157_C_T rs7755211 rs41270643 rs28749521 rs6937882 rs6937882 rs1014258 rs9257794 rs4713211 chr6_29340743_C_T rs9257801 rs9257802 rs4598109 rs4598109 rs4598109 rs9378134 rs9378134 rs4711187 rs3117191 rs17177618 exm526060

genotype difference Col_52_CB Col_12_CB Col_16_CB Col_33_IF Col_52_IF Col_12_IF Col_12_CB Col_12_TS Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_59_TS Col_12_IF Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_38_TS Col_34_TS Col_12_CB Col_52_CB Col_16_TS Col_12_CB Col_33_IF Col_52_IF Col_08_TS Col_12_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_52_IF Col_12_IF Col_38_CB Col_52_IF Col_34_IF Col_52_IF Col_33_CB Col_33_IF

RI PT


Marker ID

222

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP BOT TOP BOT BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP TOP PLUS PLUS TOP

[A/C] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [A/T] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [A/C] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/G] [T/C] [T/C] [T/G] [T/G] [A/G] [A/C] [T/C] [T/C] [T/C] [G/C] [T/C] [T/A] [T/C] [T/G] [T/G] [T/A] [A/G] [A/G] [A/G] [A/G] [T/G] [A/G] [A/C] [I/D] [I/D] [A/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

29474385 29484215 29507426 29531860 29534892 29540522 29645634 29655113 29658864 29660816 29662374 29667890 29668913 29669830 29669830 29709949 29709949 29717811 29724939 29733807 29736792 29747373 29754016 29759885 29764082 29765001 29765001 29776322 29787369 29788606 29788606 29804165 29807923 29811022 29812958 29817995 29819338 29820002 29821032 29821340 29821692 29821692 29821896 29831571 29915469 29920755 29937242 29938571 29939978 29958526 30002881 30080274 30083708 30083708 30084313 30093137 30121243 30170628 30170628 30223903

SC

M AN U TE D

AC C

EP

rs3130860 rs2523431 rs446198 chr6_29531860_C_T rs75859832 rs982558 rs387642 rs2747454 rs3129039 chr6_29660816_A_C rs3094736 rs3116802 rs9258102 OncoSet2107203 rs2107203 rs885942 rs885942 rs1737083 rs1737078 rs1737054 rs1737037 rs2735042 chr6_29754016_C_T Chr6:29759885:G:A rs11758019 rs1630969 rs1630969 rs1736971 rs2394177 rs1610675 rs1610675 rs9404952 rs2743937 rs2523769 rs62392493 Chr6:29817995:G:A rs2517868 rs2508052 rs2517866 rs17179234 rs2734981 rs2734981 rs2734980 rs1611737 rs7745413 rs9260502 rs2517673 rs2571377 rs2523959 rs9260937 rs166327 rs2517598 rs2523978 rs2523978 rs1034327 rs2517592 rs11760001 chr6_30170629_A_INDEL chr6_30170629_A_INDEL rs2516718

genotype difference Col_12_CB Col_12_CB Col_52_IF Col_52_CB Col_38_TS Col_52_IF Col_08_TS Col_33_CB Col_33_IF Col_12_CB Col_52_IF Col_33_IF Col_08_IF Col_52_CB Col_52_CB Col_33_CB Col_52_CB Col_52_IF Col_33_IF Col_08_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_52_CB Col_12_CB Col_12_CB Col_33_CB Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_52_IF Col_16_TS Col_12_CB Col_33_IF Col_52_CB Col_12_IF Col_52_CB Col_33_IF Col_34_TS Col_52_CB Col_52_CB Col_52_CB Col_12_CB Col_08_TS Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF

RI PT


Marker ID

223

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP MINUS BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP PLUS TOP TOP TOP BOT TOP TOP

[T/C] [T/C] [T/C] [G/C] [A/G] [A/G] [T/C] [A/G] [T/G] [T/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [A/C] [A/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [D/I] [T/C] [T/C] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [A/G] [A/G] [D/I] [C/G] [A/G] [A/G] [T/C] [A/C] [A/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

30225273 30225273 30225273 30231829 30256936 30323109 30343703 30351547 30418966 30467120 30473999 30560796 30650026 30650026 30692965 30725841 30730960 30758857 30763562 30763562 30763562 30765579 30913910 30927617 30927617 30990306 30994283 31001519 31002101 31002101 31002101 31061078 31062363 31073903 31075115 31081464 31146403 31157593 31164763 31168494 31176335 31176921 31176921 31186208 31197407 31207884 31211050 31213413 31220567 31221039 31230136 31232247 31232543 31234326 31240635 31244021 31246732 31246969 31252469 31258846

SC

M AN U

TE D

rs3094632 rs3094632 rs3094632 rs3094070 rs1264622 rs3130376 corect_rs115872533 rs3094032 rs3094693 chr6_30467120_A_C rs76784686 rs13195066 rs9262142 rs9262142 rs8233 rs3095326 chr6_30730960_A_G rs3129981 rs3129986 rs3129986 rs3129986 rs1264376 Chr6:30913910:G:A corect_rs115159437 corect_rs115159437 chr6_30990306_C_T rs6928038 chr6_31001519_C_T chr6_31002101_A_G chr6_31002101_A_G chr6_31002101_A_G chr6_31061078_INDEL_TATAAC rs2535293 chr6_31073903_A_G rs1064190 rs1265047 rs1052989 rs9295957 chr6_31164763_A_G chr6_31168494_A_G OncoSet3887152 rs4351302 rs4351302 rs28360994 rs28397289 rs3869120 rs3130695 rs4332019 rs3134747 rs4416711 rs2394949 chr6_31232247_A_G rs2844623 chr6_31234326_CCACCCCACCCACT_INDEL rs4361609 rs2524074 chr6_31246732_A_G rs72855954 rs2524053 rs2256583

genotype difference Col_33_IF Col_34_CB Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_52_CB Col_38_IF Col_12_CB Col_52_CB Col_33_IF Col_12_CB Col_16_TS Col_38_TS Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_16_TS Col_33_IF Col_38_TS Col_12_CB Col_33_CB Col_16_TS Col_45_IF Col_33_IF Col_33_CB Col_52_IF Col_16_TS Col_38_TS Col_52_TS Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_34_IF Col_12_CB Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_52_IF Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF

RI PT


Marker ID

224

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP TOP TOP TOP BOT TOP BOT TOP TOP BOT TOP TOP PLUS TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP MINUS TOP BOT BOT TOP MINUS BOT BOT BOT BOT MINUS BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT TOP

[A/G] [T/C] [T/C] [A/G] [A/G] [A/T] [A/G] [T/C] [C/G] [T/C] [A/G] [C/G] [T/C] [A/G] [A/G] [D/I] [A/G] [T/C] [T/C] [T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/T] [T/C] [T/G] [T/C] [T/C] [A/G] [A/G] [D/I] [A/G] [G/C] [T/C] [A/G] [I/D] [T/G] [T/C] [T/C] [T/C] [D/I] [T/C] [A/T] [A/C] [A/G] [A/G] [A/C] [A/C] [A/T] [T/C] [A/G] [T/C] [T/G] [T/G] [T/G] [T/C] [A/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

31267618 31269348 31269553 31274289 31274289 31289727 31302470 31302563 31303835 31303873 31303949 31305328 31310139 31312758 31315959 31319144 31323766 31330828 31331257 31331829 31335454 31339844 31341357 31343874 31343919 31344098 31345486 31346805 31346929 31347816 31352040 31352060 31405771 31413379 31429927 31435833 31451279 31510924 31558031 31563240 31568279 31568279 31606376 31606678 31613739 31688518 31810085 31859578 31869673 31929014 31929014 32124543 32169574 32194854 32195332 32202597 32205863 32207178 32209861 32213638

SC

M AN U

TE D

rs9380238 rs3915971 rs9468935 rs9264939 rs9264939 rs9265199 rs6914104 rs2524227 rs28752919 rs28752921 rs28752926 rs28367820 rs28380806 rs9265866 rs9265977 chr6_31319144_G_INDEL chr6_31323766_A_G chr6_31330828_C_T rs2523557 rs2523554 rs2844573 rs2523525 rs2844556 rs2844549 rs2523640 rs2523639 rs7775117 chr6_31346805_A_G rs9266633 rs4713462 rs2442749 rs6920323 rs62395275 chr6_31413379_G_INDEL rs3094228 rs2244546 exm-rs2523708 chr6_31510924_A_G rs34015415 rs3132452 rs77056483 rs77056483 rs2077491 chr6_31606678_AAAAC_INDEL rs3130048 rs805293 rs3115673 rs13194087 rs2844455 rs437179 rs437179 chr6_32124543_A_T rs9267821 chr6_32194854_A_G rs9296012 rs9501398 chr6_32205863_A_C rs76067616 rs507778 rs9267956

genotype difference Col_12_CB Col_12_CB Col_12_CB Col_33_CB Col_12_TS Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_38_TS Col_16_TS Col_16_IF Col_33_IF Col_38_TS Col_52_CB Col_12_IF Col_38_TS Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_52_CB Col_38_TS Col_12_CB Col_12_CB Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_34_IF Col_33_IF Col_45_IF Col_12_CB Col_33_IF Col_52_IF Col_12_CB Col_12_CB Col_33_IF Col_33_TS Col_08_TS Col_38_TS Col_52_CB Col_52_IF Col_12_CB Col_12_CB Col_12_CB Col_52_CB Col_33_IF Col_34_CB Col_12_CB

RI PT


Marker ID

225

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT PLUS BOT TOP BOT MINUS TOP BOT TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT TOP TOP BOT BOT TOP TOP MINUS TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP PLUS TOP

[A/G] [G/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/C] [D/I] [T/C] [A/G] [T/C] [D/I] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/G] [T/C] [T/C] [T/C] [T/G] [A/C] [G/C] [A/G] [A/T] [A/G] [T/C] [A/C] [A/C] [T/C] [T/C] [A/G] [A/T] [D/I] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [D/I] [A/T]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

32220918 32223785 32245370 32245370 32262406 32264645 32264645 32278792 32282979 32307382 32307382 32307382 32308465 32337686 32337948 32338289 32339548 32339897 32346464 32349772 32376517 32386188 32405026 32407906 32409530 32410210 32424966 32429582 32429643 32429758 32429894 32433167 32448416 32449411 32490458 32501715 32521117 32527363 32527363 32554221 32556300 32559019 32560385 32561375 32561424 32561495 32565884 32569691 32571122 32574603 32578052 32580321 32581922 32582772 32583529 32585058 32587922 32594901 32594953 32594980

SC

M AN U

TE D

rs3115571 rs6457515 rs9268103 rs9268103 rs6457535 rs11970194 rs11970194 rs3864302 rs6909790 exm535313 exm535313 rs1033500 rs3132943 rs3129941 chr6_32337948_GCTCTTACATTG_INDEL chr6_32338289_A_G Chr6:32339548:G:A rs2050188 chr6_32346464_INDEL_TTTTGTG rs9268455 rs9268500 rs62404607 chr6_32405026_A_G rs41270488 chr6_32409530_A_G chr6_32410210_C_T chr6_32424966_G_T chr6_32429582_A_G rs9268853 rs9268858 rs9268861 rs2395185 rs9269186 rs1964995 chr6_32490458_A_T rs33997707 rs3828831 chr6_32527363_A_C chr6_32527363_A_C chr6_32554221_A_G chr6_32556300_C_T chr6_32559019_A_G chr6_32560385_A_T chr6_32561375_G_INDEL chr6_32561424_C_T rs28366319 rs9270651 rs477515 chr6_32571122_C_T chr6_32574603_A_G rs532098 Chr6:32580321:C:T rs522308 rs62406300 Chr6:32583529:G:A chr6_32585058_A_G chr6_32587922_C_T Chr6:32594901:T:C chr6_32594953_C_INDEL chr6_32594980_A_T

genotype difference Col_33_IF Col_52_CB Col_34_CB Col_12_TS Col_33_IF Col_33_IF Col_52_IF Col_38_TS Col_52_IF Col_52_IF Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_52_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_CB Col_12_CB Col_12_CB Col_33_IF Col_59_IF Col_52_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_52_TS Col_12_CB Col_16_IF Col_38_TS Col_33_CB Col_52_CB Col_33_IF Col_16_IF Col_33_CB Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_59_TS Col_12_CB Col_12_CB Col_38_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_38_TS Col_33_IF

RI PT


Marker ID

226

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT TOP TOP BOT TOP BOT BOT TOP TOP TOP BOT TOP BOT BOT BOT BOT TOP BOT PLUS TOP TOP BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT TOP BOT TOP BOT TOP TOP BOT TOP BOT TOP BOT BOT BOT TOP BOT BOT

[A/C] [A/C] [T/G] [A/G] [A/G] [T/G] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [D/I] [A/C] [A/T] [T/C] [A/G] [T/C] [T/C] [T/G] [T/C] [A/C] [A/G] [A/G] [T/C] [A/G] [T/G] [A/G] [A/T] [A/G] [A/G] [T/C] [T/G] [A/C] [T/C] [T/G] [A/G] [T/G] [A/G] [T/C] [A/G] [A/G] [T/C] [C/G] [T/C] [A/G] [G/C] [G/C] [T/G] [A/G] [T/C] [T/C]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

32595231 32595231 32603028 32604919 32605590 32605935 32612161 32612166 32615458 32620344 32623150 32623430 32626130 32628571 32634341 32636289 32636696 32636756 32652620 32653070 32653909 32654757 32656983 32658211 32658366 32667119 32667119 32667181 32678999 32679107 32681568 32683324 32685865 32685967 32686103 32688189 32689903 32690657 32690657 32690789 32690838 32692735 32698285 32706398 32711178 32719491 32741918 32743193 32743298 32748810 32754296 32774954 32776921 32777900 32793641 32793641 32793770 32797297 32810443 32830568

SC

M AN U TE D

AC C

EP

chr6_32595231_G_T chr6_32595231_G_T rs9272253 chr6_32604919_C_T rs80317061 chr6_32605935_G_T chr6_32612161_A_C rs9273063 rs17612576 rs17612788 rs3021302 rs9273339 rs7744020 chr6_32628571_C_T rs3189152 rs9274655 rs28371206 chr6_32636756_C_T chr6_32652620_A_G rs4947342 chr6_32653909_CAAA_INDEL chr6_32654757_A_C rs9378274 rs9469219 rs28371256 OncoSet3135006 rs3135006 rs78825896 rs9275572 rs17427887 rs2647089 rs3104410 rs9275653 chr6_32685967_A_G rs9275659 rs9275709 rs9275787 chr6_32690657_C_T chr6_32690657_C_T chr6_32690789_A_G chr6_32690838_G_T Chr6:32692735:A:C rs9276154 rs7773407 rs17500468 rs2157327 rs2857209 rs9276614 rs13195441 rs28986338 Chr6:32754296:C:T rs6917611 rs1054684 rs2857118 kgp7884518 kgp7884518 kgp9514439 kgp2388352 rs9276810 rs9276826

genotype difference Col_33_IF Col_52_CB Col_08_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_52_IF Col_34_CB Col_33_IF Col_52_IF Col_52_CB Col_12_CB Col_12_CB Col_08_TS Col_52_CB Col_12_CB Col_12_IF Col_52_CB Col_33_IF Col_52_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_IF Col_12_CB Col_08_TS Col_33_IF Col_12_CB Col_12_CB Col_12_IF Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_34_TS Col_52_TS Col_52_TS Col_12_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_52_CB Col_38_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_12_CB Col_33_IF

RI PT


Marker ID

227

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP BOT BOT TOP BOT TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP BOT TOP BOT TOP TOP BOT BOT TOP BOT TOP BOT BOT TOP BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP BOT BOT

[A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/G] [T/C] [A/C] [A/G] [T/G] [T/C] [A/G] [T/A] [T/A] [T/A] [A/G] [A/T] [A/G] [T/C] [T/C] [A/C] [A/G] [T/A] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/G] [A/G] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [C/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

32852519 32853511 32856208 32910877 32949876 32961104 32961361 32972887 33007019 33039804 33046662 33047898 33054281 33070749 33085851 33089623 33094600 33112576 33183248 33183248 33183248 33198771 33276770 33286825 33459368 33505594 33569441 33578303 33595021 33597079 33614127 33618361 33619442 33630129 33724794 33775391 33782040 33791230 33798041 33851349 33856903 33863002 33927961 33968128 33998970 34034191 34044268 34215228 34303485 34422930 34423850 34441731 34444100 34455509 34462944 34464010 34466292 34481092 34522772 34522772

SC

M AN U TE D

AC C

EP

rs28724901 rs34975158 rs2018501 rs16871169 chr6_32949876_A_G rs206769 rs9500927 chr6_32972887_A_G rs434610 rs9277342 rs2567279 rs2567281 rs9277517 rs3128921 rs3117039 rs3117027 rs9277752 rs3129229 rs9277936 rs9277936 rs9277936 rs213198 rs9277972 rs11873 rs7750412 rs9469481 rs13219209 rs76294076 chr6_33595021_A_T rs6926568 rs6935686 rs1536042 rs10807127 rs2147658 rs9380376 rs7774407 rs9469591 rs10947443 rs73747338 rs56111092 rs9461926 rs3800338 rs72886982 rs6905035 rs75086809 rs9368791 rs2499695 rs1150780 rs78315810 rs62399949 rs4336441 rs9394226 rs9394227 rs78380702 rs79168958 rs3904668 rs6457779 rs3800472 rs3798542 rs3798542

genotype difference Col_52_TS Col_38_IF Col_59_TS Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_52_CB Col_12_IF Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_52_CB Col_12_CB Col_12_CB Col_33_IF Col_34_CB Col_52_IF Col_59_IF Col_33_IF Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_45_IF Col_38_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_34_CB Col_38_IF Col_12_CB Col_08_TS Col_12_CB Col_12_CB Col_12_CB Col_33_CB Col_12_CB Col_12_CB Col_12_IF Col_12_CB Col_52_CB Col_52_CB Col_12_CB Col_12_CB Col_33_IF Col_52_CB Col_12_CB Col_52_IF Col_33_CB Col_59_CB

RI PT


Marker ID

228

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP BOT TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP BOT TOP TOP TOP BOT BOT BOT TOP PLUS BOT BOT TOP TOP TOP BOT TOP BOT TOP BOT BOT TOP TOP MINUS TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP BOT TOP TOP TOP TOP

[A/G] [T/C] [A/G] [T/G] [A/G] [A/G] [A/G] [C/G] [T/C] [T/C] [T/C] [A/G] [A/C] [A/G] [A/G] [A/C] [A/C] [A/C] [A/G] [T/G] [A/C] [A/G] [T/C] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [A/G] [I/D] [T/C] [T/A] [A/G] [A/G] [A/G] [T/G] [A/G] [T/G] [A/G] [T/C] [T/C] [A/G] [A/G] [D/I] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/C] [T/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

34582487 34657369 34797241 34841330 34845648 34868790 34904488 34941477 34944703 34963870 34963870 34979341 34988951 35044746 35122236 35152988 35163974 35163974 35251317 35475164 35589070 35615130 35780157 35805133 35855286 35855964 35868610 36001504 36001504 36028981 36029760 36032403 36089050 36105870 36105870 36113465 36127469 36242858 36246707 36253780 36273317 36277551 36296704 36297233 36344032 36349890 36414680 36464203 36468133 36524911 36535585 36535585 36535639 36557580 36570366 36572757 36609453 36621533 36624111 36627872

SC

M AN U TE D

AC C

EP

rs74487927 rs76419500 rs9462027 rs3800453 rs2985 rs6907619 rs1737727 rs77494753 rs76276993 rs77153991 rs77153991 rs1996912 rs3800435 rs58707510 rs75978535 rs942373 rs75992606 rs75992606 rs12203818 rs2103680 rs9380524 rs1334894 rs879668 rs17704843 rs11968721 rs3764794 rs6909155 rs74885352 rs74885352 rs76758079 chr6_36029761_INDEL_T rs851014 rs877596 rs79798018 rs79798018 chr6_36113465_C_T rs12199702 rs11755946 rs12526665 rs11756211 rs13203654 rs7738417 rs72848582 rs11752515 chr6_36344032_GTAG_INDEL rs879036 rs77767484 rs77908513 rs853884 rs648125 rs9462199 rs9462199 rs9462200 rs2145048 rs7344 rs79820538 rs9470355 rs4713994 rs7740181 rs9368950

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_16_TS Col_38_TS Col_12_CB Col_12_CB Col_38_TS Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_45_IF Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_45_IF Col_52_TS Col_33_CB Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_38_TS Col_33_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_12_CB

RI PT


Marker ID

229

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP TOP TOP BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP BOT

[A/G] [G/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/C] [T/C] [T/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [T/C] [A/G] [T/G] [A/G] [T/G] [T/G] [T/C] [T/C] [A/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/C] [T/C] [T/C] [T/G] [T/G] [T/C] [T/G] [A/G] [T/C] [T/C] [T/G] [A/G] [T/A] [T/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

36633160 36652339 36672905 36713720 36720066 36735242 36747406 36757803 36762183 36840767 36848049 36884042 36907739 36954949 36955888 36958897 36998537 37019965 37092617 37093486 37097756 37102822 37305622 37428577 37428577 37506415 37514103 37555402 37572144 37582566 37603516 37660867 37676562 37696212 37757583 37767791 37871453 37985357 38019720 38153146 38255527 38278417 38278417 38366186 38464626 38487026 38604754 38688329 38850809 39202157 39376001 39431229 39580841 39795550 39904317 40217930 40590597 40617312 40700237 40704337

SC

M AN U TE D

AC C

EP

rs4711457 rs3176352 rs9357224 rs9470386 rs58471412 rs10947628 rs4714010 rs4711465 rs3734335 rs4594944 rs4714020 chr6_36884042_A_G rs9349020 rs7739958 rs4714028 rs4714029 rs708015 rs4714033 rs58680651 rs10807178 rs9380644 rs9380645 rs9380660 chr6_37428577_A_G chr6_37428577_A_G rs2797780 rs11755405 rs2797787 chr6_37572144_G_T chr6_37582566_A_C rs12191285 chr6_37660867_C_T chr6_37676562_A_C rs2395681 rs67979687 rs16890175 chr6_37871453_C_T chr6_37985357_C_T rs9296234 chr6_38153146_C_T chr6_38255527_A_G rs12524225 rs12524225 rs4711546 rs7770868 rs12525647 rs1781708 chr6_38688329_C_T rs862432 rs9366999 rs9471093 rs9471113 chr6_39580841_C_T chr6_39795550_A_G rs2504080 rs10947864 rs846537 rs7765378 rs6458179 rs7742079

genotype difference Col_12_IF Col_52_CB Col_12_CB Col_12_CB Col_38_IF Col_12_CB Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_33_CB Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_52_IF Col_12_CB Col_12_CB Col_38_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_38_TS Col_52_IF Col_12_CB Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_12_CB

RI PT


Marker ID

230

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT BOT TOP TOP BOT MINUS BOT BOT TOP MINUS BOT BOT BOT BOT BOT BOT TOP MINUS BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP BOT BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP BOT BOT TOP TOP TOP TOP

[A/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/G] [D/I] [T/C] [T/C] [A/G] [I/D] [T/C] [T/C] [T/G] [T/G] [T/C] [T/C] [A/G] [I/D] [T/C] [A/G] [A/G] [T/C] [G/C] [A/G] [A/G] [A/G] [A/G] [A/T] [A/G] [A/G] [G/C] [A/G] [A/G] [T/G] [T/G] [A/T] [A/G] [T/C] [T/C] [A/C] [A/C] [A/G] [T/G] [T/C] [T/C] [T/C] [T/C] [C/G] [T/C] [T/C] [A/G] [T/C] [T/G] [A/G] [A/C] [A/G] [A/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

40781420 40852739 41037832 41039100 41070216 41164005 41174158 41185458 41186693 41200753 41255876 41272399 41273271 41289962 41290719 41354337 41357270 41388306 41427462 41428845 41429042 41433215 41458286 41468680 41494058 41517457 41598733 41598733 41608938 41627063 41681622 41719580 41745989 41747048 41822936 41852755 41860745 41860745 41873961 41978657 41999551 42003084 42009583 42030645 42042886 42052577 42201863 42270207 42319307 42724357 43230970 43388054 43399544 43695675 44178471 44334388 44419336 44452011 44582493 44582493

SC

M AN U TE D

AC C

EP

rs962390 rs4711652 chr6_41037832_A_G chr6_41039100_A_G chr6_41070216_A_G rs6915083 chr6_41174158_A_G chr6_41185458_A_C chr6_41186693_AAG_INDEL chr6_41200753_C_T chr6_41255876_A_G chr6_41272399_A_G chr6_41273273_A_INDEL chr6_41289962_C_T rs9471554 chr6_41354337_A_C chr6_41357270_A_C chr6_41388306_A_G chr6_41427462_C_T chr6_41428845_A_G chr6_41429043_INDEL_T rs9357362 chr6_41458286_A_G chr6_41468680_A_G chr6_41494058_C_T chr6_41517457_C_G chr6_41598733_C_T chr6_41598733_C_T chr6_41608938_C_T chr6_41627063_C_T chr6_41681622_A_T chr6_41719580_C_T rs3804281 chr6_41747048_C_G chr6_41822936_C_T chr6_41852755_C_T chr6_41860745_G_T chr6_41860745_G_T chr6_41873961_A_T chr6_41978657_C_T chr6_41999551_C_T chr6_42003084_C_T rs4333413 chr6_42030645_G_T chr6_42042886_A_G rs9357387 rs9367137 chr6_42270207_C_T rs260225 rs12195802 rs3800294 rs6907066 kgp2644939 rs9472114 rs2396243 rs7769128 chr6_44419336_C_T rs6458389 rs538891 rs538891

genotype difference Col_33_CB Col_34_TS Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_CB Col_33_CB Col_33_IF Col_33_CB Col_52_IF Col_33_IF Col_38_CB Col_12_CB Col_16_IF Col_33_CB Col_33_CB Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_33_CB Col_12_CB Col_33_CB Col_52_TS Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_12_IF Col_34_CB Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_CB Col_12_CB Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_CB Col_45_TS

RI PT


Marker ID

231

IlmnStrand

SNP

Chr

MapInfo

PLUS TOP TOP BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT MINUS BOT TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT TOP BOT BOT TOP TOP

[I/D] [A/G] [A/C] [T/G] [T/G] [T/C] [A/G] [A/G] [A/C] [A/C] [T/C] [T/C] [T/C] [T/C] [A/T] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/G] [T/C] [A/C] [T/C] [T/C] [T/C] [T/G] [T/C] [T/G] [T/C] [A/C] [T/G] [I/D] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [A/G] [A/C] [T/C] [T/C] [A/C] [A/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/G] [A/C] [T/C] [T/G] [A/G] [A/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

44929508 45181340 45255534 45468074 45468074 45506122 45529643 45862228 45880937 46321089 46507505 46517742 46517742 46517747 46563817 46594121 46606328 46606328 46606328 46609905 46625274 46683382 46704826 46837390 46847501 47067222 47067222 47161750 47199113 47311798 47626833 47680123 47700178 47939519 47984368 48162231 48329422 48329422 48367207 48562825 48564858 48593285 48700386 48851550 48919300 48928544 49641484 49642763 49752742 49785074 50022625 50068916 50068916 50068916 50082351 50176108 50239194 50261878 50334349 50334349

SC

M AN U TE D

AC C

EP

chr6_44929508_INDEL_TT rs9463078 rs73735343 rs6914610 rs6914610 rs12209785 chr6_45529643_A_G rs6458474 rs6458478 rs1867015 chr6_46507505_A_G kgp619552 kgp619552 kgp26392571 rs7761731 rs3799867 rs639434 rs639434 rs639434 kgp5626243 rs9381468 rs17288905 chr6_46704826_G_T rs1928274 rs2273265 rs80167886 rs80167886 chr6_47161750_A_G chr6_47199113_A_C chr6_47311798_C_T rs12201065 exm553621 rs16876443 rs76660172 chr6_47984369_A_INDEL rs1150813 rs12215302 rs12215302 rs9473350 rs10456593 rs9296598 chr6_48593285_G_T chr6_48700386_C_T rs10484429 rs760683 rs16878481 rs17635077 rs7746868 rs696718 rs1429601 chr6_50022625_A_G chr6_50068916_A_G chr6_50068916_A_G chr6_50068916_A_G rs9349513 rs2033993 chr6_50239194_C_T rs9349529 rs6930610 rs6930610

genotype difference Col_08_IF Col_52_IF Col_33_IF Col_33_IF Col_38_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_34_CB Col_33_IF Col_16_IF Col_38_CB Col_12_CB Col_33_IF Col_16_TS Col_08_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_08_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_52_IF Col_59_TS Col_38_IF Col_38_CB Col_33_IF Col_33_IF Col_16_IF Col_38_TS

RI PT


Marker ID

232

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT BOT TOP BOT TOP BOT BOT TOP BOT BOT BOT BOT TOP BOT BOT TOP TOP MINUS TOP TOP TOP TOP TOP BOT BOT TOP

[A/G] [A/C] [T/C] [T/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [A/C] [A/C] [A/G] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [T/G] [T/G] [T/G] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [C/G] [T/C] [T/C] [A/G] [A/G] [T/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [A/T] [T/C] [T/C] [A/G] [A/G] [D/I] [A/C] [A/C] [A/G] [A/G] [A/G] [G/C] [T/C] [A/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

50334349 50351595 50444445 50551684 50597061 50664995 50869777 50897613 51167704 51465832 51581169 51581169 51581169 51598637 51653864 51683874 52236968 52255934 52538607 52557627 52669185 52669249 52757090 53284413 53298485 53307168 53307168 53349780 53362295 53363092 53390709 53514569 53577074 53593569 53753255 54036373 54210141 54220243 54290333 54309272 54361735 54397512 54403797 54565844 54565844 54575349 54652055 54771019 54772098 54802375 54964746 54979361 55064952 55456654 55469291 55469602 55469602 55497584 55523508 55537798

SC

M AN U TE D

AC C

EP

rs6930610 rs9369954 chr6_50444445_C_T chr6_50551684_A_C rs527336 chr6_50664995_C_T rs2746657 chr6_50897613_A_G chr6_51167704_A_G rs2771009 chr6_51581169_A_C chr6_51581169_A_C chr6_51581169_A_C rs12183235 rs2182505 rs4715247 rs17650296 rs11967792 rs6909398 rs2180323 rs4715332 rs4715333 rs9463842 rs10807460 rs1377392 chr6_53307168_A_G chr6_53307168_A_G chr6_53349780_A_C kgp16935715 kgp26195148 rs1555906 chr6_53514569_C_T rs12111096 rs4493745 rs9370240 chr6_54036373_A_G rs9382326 rs17828521 rs9357804 rs34717537 rs9395969 rs243790 rs712536 rs12208090 rs12208090 rs925057 chr6_54652055_A_T rs4712082 rs7453441 chr6_54802375_C_T chr6_54964746_C_T chr6_54979361_C_INDEL chr6_55064952_A_C rs7771624 chr6_55469291_C_T chr6_55469602_C_T chr6_55469602_C_T chr6_55497584_C_G corect_rs114658255 corect_rs188311474

genotype difference Col_52_IF Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_16_TS Col_08_TS Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_38_CB Col_33_IF Col_33_IF Col_12_CB Col_08_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_08_IF Col_12_IF Col_08_IF Col_12_CB Col_12_CB Col_12_IF Col_33_IF

RI PT


Marker ID

233

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT BOT TOP BOT TOP BOT TOP TOP TOP BOT BOT BOT TOP TOP PLUS MINUS TOP TOP BOT BOT BOT BOT TOP TOP TOP

[A/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [T/G] [A/G] [A/G] [T/C] [A/C] [T/C] [A/G] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/G] [A/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [I/D] [D/I] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

55539010 55545792 55548472 55548472 55562721 55562736 55570742 55577214 55622163 55632046 55638258 55638470 55650880 55700269 55700269 55700269 55714122 55730183 55735552 55735552 55736249 55736249 55748060 55762655 55776585 55777253 55789704 55793611 55793611 55795757 55825830 55826807 55875266 55875266 55882407 55912792 55913691 55988871 56006732 56026436 56036382 56064197 56121567 56164935 56234843 56234843 56234843 56326254 56493532 56530098 56530101 56670263 57645576 57712617 57984494 57984494 57984494 58684393 61967504 61970201

SC

M AN U TE D

AC C

EP

rs7772313 rs34899952 corect_rs115281662 corect_rs115281662 rs75155434 chr6_55562736_A_G rs2475252 rs2208603 corect_rs114807737 rs78620707 rs9475400 rs16887132 rs12198872 rs77559814 rs77559814 rs77559814 rs2023580 corect_rs146371955 rs75740629 rs75740629 rs9370471 rs9370471 rs62404986 rs76583154 rs6902446 rs62404992 rs6906682 rs72872212 rs72872212 rs60564186 corect_rs115690854 rs12199050 chr6_55875266_A_G chr6_55875266_A_G rs12201283 corect_rs115941182 rs9475552 exm556967 exm556985 rs12197715 rs78568810 rs1474698 rs9296835 chr6_56164935_A_G rs9464383 rs9464383 rs9464383 chr6_56326254_C_T chr6_56493532_A_G chr6_56530098_INDEL_TAAT chr6_56530101_INDEL_TTAG rs4587171 rs9396406 kgp9822400 chr6_57984494_C_T chr6_57984494_C_T chr6_57984494_C_T rs2342108 rs704487 rs4298382

genotype difference Col_33_IF Col_33_IF Col_16_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_16_TS Col_38_TS Col_12_CB Col_12_CB Col_33_IF Col_16_CB Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_34_TS Col_52_IF Col_38_TS Col_33_IF Col_34_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_CB Col_33_IF Col_45_IF Col_52_IF Col_12_CB Col_52_IF Col_33_IF Col_33_IF

RI PT


Marker ID

234

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT TOP BOT TOP BOT BOT TOP TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP

[A/G] [A/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/G] [A/G] [A/C] [T/C] [T/C] [T/G] [A/G] [A/C] [T/C] [T/C] [T/G] [T/G] [T/C] [T/C] [A/C] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [A/G] [A/C] [T/A] [T/A] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [T/G] [T/G] [A/C] [A/C] [A/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

61970201 62001409 62097088 62223257 62235802 62333985 62358578 62412940 62607786 62634307 62673145 62673145 62761262 62887099 62922848 62985248 62985248 63005568 63005568 63137637 63375122 63496747 63518796 63529431 63575271 63617477 63617477 63668515 63710146 64003459 64212831 64353020 64411814 64487247 64572619 64693014 64721056 64771342 64789100 64811344 64811344 64851149 65031761 65267161 65300131 65328120 65328120 65384094 65499982 65578285 65578285 65578285 65586419 65586419 65595650 65692485 65692485 65812520 65857285 65903328

SC

M AN U TE D

AC C

EP

rs4298382 corect_rs143316844 rs1932643 rs405339 rs13215089 rs213786 rs213824 rs1204138 corect_rs140890483 rs1931808 rs1192457 rs1192457 rs9354583 rs6921170 rs530011 rs9454825 rs9454825 rs11758082 rs11758082 rs17465706 rs12204331 rs9443050 rs1155906 rs9343253 rs9443173 rs6931620 rs6931620 rs6931035 rs6453938 rs9343928 rs1744140 rs1681939 rs3800489 rs319924 chr6_64572619_A_G rs6934646 rs9342097 rs3003684 rs3013148 chr6_64811344_A_T chr6_64811344_A_T rs4401640 rs10944471 chr6_65267161_A_G exm558871 rs9445043 rs9445043 chr6_65384094_A_G rs6942336 rs9354178 rs9354178 rs9354178 rs2146757 rs2146757 rs4710505 rs16896133 rs16896133 chr6_65812520_G_T rs1929723 rs9453222

genotype difference Col_12_TS Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_12_IF Col_52_IF Col_33_IF Col_33_IF Col_08_TS Col_16_TS Col_16_CB Col_52_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_52_TS Col_52_CB Col_52_TS Col_16_IF Col_33_IF Col_33_IF Col_08_CB Col_33_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_38_IF Col_52_CB Col_33_IF Col_16_TS Col_16_TS Col_38_IF Col_59_TS Col_34_CB Col_38_CB Col_33_IF Col_16_TS Col_12_IF Col_59_TS Col_52_IF Col_52_TS

RI PT


Marker ID

235

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT TOP BOT TOP BOT BOT BOT TOP MINUS BOT BOT TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP BOT TOP TOP

[T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/C] [A/G] [T/G] [T/G] [A/G] [A/G] [A/C] [A/G] [T/C] [A/C] [A/G] [T/C] [T/C] [T/C] [C/G] [A/C] [T/C] [T/C] [A/G] [T/C] [T/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [I/D] [T/C] [T/C] [A/C] [A/C] [T/C] [A/C] [A/G] [T/C] [T/C] [T/A] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/C]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

66006148 66061173 66071980 66159732 66159732 66285958 66405466 66491725 66523500 66541198 66549080 66593133 66598194 66610017 66610017 66633603 66656097 66672165 67008147 67039740 67044431 67054884 67111858 67111858 67123130 67147884 67194180 67196809 67196809 67224061 67284077 67298527 67391355 67423990 67452650 67481098 67488602 67546906 67646913 67907182 67965720 67968844 67977326 68026073 68029041 68128591 68182552 68306449 68385391 68470402 68487347 68563599 68563599 68611523 68642421 68898262 68957840 69029483 69041861 69052097

SC

M AN U TE D

AC C

EP

rs9342465 chr6_66061173_C_T rs4580839 rs9453303 rs9453303 rs9351511 rs7450869 rs13191280 rs12234120 rs2000382 rs9363457 rs1499704 rs10455590 rs9453479 rs9453479 rs12214948 rs1903406 rs1037882 rs2106554 rs1398803 rs1708552 rs851860 rs9986632 rs9986632 rs9283828 chr6_67147884_C_G rs79324310 rs6914260 rs6914260 rs12212253 rs4142334 rs1536218 rs9294716 chr6_67423990_C_T rs966984 chr6_67481098_A_G rs12201073 rs4395708 rs4481415 chr6_67907183_A_INDEL rs1903058 rs6903890 rs4358597 rs13220457 rs9363741 rs11961975 chr6_68182552_C_T rs9454199 kgp2790902 chr6_68470402_A_T chr6_68487347_C_T rs12176580 rs12176580 rs11962528 rs9346099 rs777625 rs10498861 rs1388052 rs4612125 rs1907146

genotype difference Col_33_IF Col_52_IF Col_52_IF Col_52_CB Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_CB Col_38_TS Col_12_IF Col_33_IF Col_12_CB Col_52_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_38_IF Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_16_IF Col_52_IF Col_16_IF Col_33_IF Col_38_CB Col_45_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_38_CB Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_16_TS Col_52_TS Col_59_TS Col_33_IF Col_34_TS Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF

RI PT


Marker ID

236

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP TOP BOT TOP BOT BOT TOP BOT BOT TOP BOT TOP TOP BOT TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT TOP BOT BOT TOP BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP

[T/C] [T/C] [A/G] [A/C] [A/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [A/C] [T/C] [A/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/G] [T/C] [T/C] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

69150225 69185047 69199797 69210493 69294401 69534107 69629187 69652994 69710575 69714947 69844768 69851816 69944232 70214844 70257410 70324562 70329779 70527737 70586816 70590638 70655786 70817620 70847385 70847385 70847385 70962039 71024741 71104869 71214998 71219464 71219464 71329265 71755474 71755730 71781342 71829282 71860000 71874228 71936677 71936677 72052626 72072140 72154887 72164390 72195981 72196292 72223787 72227953 72253007 72386141 72567430 72636359 72666847 72801288 72825419 72902964 73322054 73377551 73419514 73463601

SC

M AN U TE D

AC C

EP

corect_rs117136519 rs13207908 rs9363933 rs10806600 rs9346224 rs4706665 rs7747549 rs7748808 rs1999787 rs3798999 rs1482326 rs1912988 rs1512229 rs12110376 chr6_70257410_A_G rs13207307 rs6455330 chr6_70527737_A_C rs1934897 rs12201139 rs9454921 rs3793056 rs9446206 rs9446206 rs9446206 rs2274584 chr6_71024741_G_T chr6_71104869_A_G rs2262681 rs6907049 rs6907049 rs1608696 chr6_71755474_A_C rs9446327 rs6911809 rs1857225 rs10945289 chr6_71874228_G_T rs12529720 rs12529720 rs34724485 rs1407593 chr6_72154887_A_G rs852944 rs493265 chr6_72196292_C_T rs199644 rs13196838 rs9360459 chr6_72386141_C_T rs9358983 rs34201438 rs13206801 rs1471640 rs9351889 rs1830338 rs10943040 rs12201380 rs6904964 rs7743377

genotype difference Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_38_IF Col_16_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_59_TS Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_38_TS Col_33_IF Col_38_IF Col_52_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_CB Col_12_CB Col_16_IF Col_52_IF Col_33_IF Col_52_CB

RI PT


Marker ID

237

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP BOT TOP BOT TOP BOT TOP TOP TOP BOT TOP BOT BOT BOT TOP

[T/G] [A/G] [A/G] [T/G] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/C] [T/A] [T/A] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/C] [T/C] [A/C] [A/C] [T/C] [A/G] [T/C] [A/C] [T/C] [A/G] [A/G] [A/T] [T/G] [A/G] [T/G] [T/C] [T/C] [C/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

73535736 73574348 73627111 73633619 73641100 73806409 73965968 74014468 74226353 74530075 74870820 74952557 75123102 75124746 75228844 75261639 75322251 75322251 75405874 75455385 75455385 75455385 75493210 75516703 75532577 75579036 75680571 76171513 76268389 76416655 76470448 77211098 77386768 77529907 77570467 77606341 77630718 77666932 77803487 77926495 78069733 78278777 78459121 78494764 78543069 78543069 78657290 78708695 78797804 78817347 78912889 78946797 78946797 79148758 79155534 79163463 79176271 79196788 79204960 79289949

SC

M AN U TE D

AC C

EP

chr6_73535736_A_C chr6_73574348_A_G rs11962902 rs73753206 rs2882328 chr6_73806409_A_G rs2603472 rs555779 rs11755449 chr6_74530075_C_T rs6453739 chr6_74952557_C_T rs7742773 rs77887372 chr6_75228844_A_G rs493818 chr6_75322251_A_T chr6_75322251_A_T rs2485116 rs2502465 rs2502465 rs2502465 chr6_75493210_C_T rs12526043 rs6918679 rs75326071 rs6932000 rs2998367 chr6_76268389_A_G rs3798461 chr6_76470448_C_T chr6_77211098_A_G rs16887919 rs936498 chr6_77570467_A_G rs9443309 rs7744191 chr6_77666932_A_G rs16888579 rs13196496 rs10455107 chr6_78278777_A_G rs2170649 rs17777705 rs9294089 rs9294089 rs9361318 rs6932080 rs16889669 rs11752049 rs9443542 rs6901674 rs6901674 chr6_79148758_A_T rs4706705 rs11754966 rs6939797 rs7759740 rs2321443 chr6_79289949_C_G

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_45_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_12_CB Col_16_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_59_TS Col_33_IF Col_52_IF Col_16_TS Col_38_TS Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_34_TS Col_34_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_16_CB Col_12_CB Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_16_IF Col_12_CB Col_38_IF Col_33_IF Col_12_CB Col_34_TS

RI PT


Marker ID

238

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT BOT TOP BOT TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT TOP BOT TOP TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT TOP

[T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [T/G] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [T/A] [A/G] [T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/G] [A/G] [A/C] [A/C] [T/G] [T/C] [T/C] [A/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

79301495 79303628 79369333 79483474 79489676 79700056 79721953 79721953 79722046 79722046 79831619 79857062 79857062 79857900 80177371 80340234 80392301 80539454 80551303 80572483 80717676 80985885 81055396 81089536 81092467 81178549 81243724 81342885 81423391 81447367 81478607 81517302 81517302 81564185 81570914 81614126 81689287 81695012 81789320 81792413 81831574 81848295 81856665 81904308 81936720 81974654 82010784 82063869 82063869 82078402 82109125 82140311 82168150 82169305 82193008 82218794 82241588 82323207 82331376 82370380

SC

M AN U TE D

AC C

EP

rs9448493 rs236874 rs12210702 rs1507152 rs9361440 corect_rs147969652 chr6_79721953_G_T chr6_79721953_G_T rs76552004 rs76552004 corect_rs117172178 corect_rs116453832 corect_rs116453832 rs12196543 chr6_80177371_C_T rs997226 chr6_80392301_A_G rs9352773 rs7766056 rs9448842 chr6_80717676_C_T chr6_80985885_A_C rs7759304 chr6_81089536_A_G chr6_81092467_C_T chr6_81178549_A_G chr6_81243724_A_T rs2496689 rs1545557 rs1339377 rs10485285 rs9341828 rs9341828 rs7769005 rs9449153 rs4543324 rs9352909 chr6_81695012_A_C chr6_81789320_C_T rs310420 rs7748211 rs1443882 rs6935142 rs9344125 chr6_81936720_C_T chr6_81974654_A_G rs12199170 chr6_82063869_A_G chr6_82063869_A_G chr6_82078402_A_G rs11756740 rs1088022 chr6_82168150_A_C chr6_82169305_C_T rs4642522 chr6_82218794_G_T chr6_82241588_G_T chr6_82323207_C_T chr6_82331376_A_G chr6_82370380_A_G

genotype difference Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_38_CB Col_52_IF Col_34_CB Col_52_CB Col_33_IF Col_08_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_16_TS Col_12_CB Col_12_IF Col_33_CB Col_08_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_08_IF Col_33_IF Col_52_IF Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_38_CB Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

239

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP

[T/C] [T/C] [T/G] [T/C] [T/C] [A/G] [G/C] [G/C] [T/C] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [A/G] [A/C] [T/C] [T/A] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [T/G] [T/G] [A/G] [T/G] [A/C] [A/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/T] [A/G] [A/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

82376015 82385689 82393531 82465766 82465766 82521052 82618257 82618257 82701424 82751263 82804125 82841134 82938817 83010246 83065888 83522930 83881077 83881077 83932019 83943928 84017921 84108200 84166675 84169965 84229114 84348873 84431756 84436210 84440981 84539297 84539297 85005647 85005820 85005820 85034419 85153040 85153040 85195224 85228896 85246086 85247657 85462640 85471464 85518398 85521035 85850774 85890143 85901618 86073707 86091724 86781618 86898957 86898957 86898957 87235122 87338453 87338453 87756580 88089160 88128267

SC

M AN U TE D

AC C

EP

chr6_82376015_C_T chr6_82385689_A_G chr6_82393531_A_C rs194608 rs194608 chr6_82521052_C_T chr6_82618257_C_G chr6_82618257_C_G corect_rs147529871 chr6_82751263_C_T rs9443948 rs2152842 rs655345 rs511002 rs770898 chr6_83522930_G_T chr6_83881077_A_G chr6_83881077_A_G rs1936820 rs1180237 rs1144184 chr6_84108200_A_T chr6_84166675_C_T rs2000375 rs568129 rs3798865 rs16873894 chr6_84436210_C_T rs79947602 chr6_84539297_C_T chr6_84539297_C_T chr6_85005647_C_T chr6_85005820_C_T chr6_85005820_C_T chr6_85034419_G_T rs72898901 rs72898901 chr6_85195224_A_G rs6936385 rs12526313 chr6_85247657_A_C rs860844 rs6942044 rs9450039 rs215922 rs1407160 rs1407167 rs9294329 rs586364 rs4707202 chr6_86781618_C_T rs3949571 rs3949571 rs3949571 corect_rs151091025 rs1538407 rs1538407 rs1590428 rs1884320 rs6454618

genotype difference Col_52_CB Col_52_CB Col_33_IF Col_52_IF Col_12_IF Col_33_CB Col_16_TS Col_52_IF Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_45_IF Col_59_CB Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_52_CB Col_12_IF Col_33_IF Col_08_IF Col_16_TS Col_12_TS Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_CB Col_59_TS Col_33_IF Col_38_TS Col_59_TS Col_33_IF Col_33_IF Col_12_CB

RI PT


Marker ID

240

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP BOT TOP TOP BOT BOT TOP TOP BOT TOP BOT TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT MINUS TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT TOP BOT BOT BOT TOP PLUS TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT

[A/G] [T/C] [T/C] [A/G] [T/G] [A/C] [A/G] [T/G] [T/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [D/I] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/C] [A/G] [T/G] [T/C] [A/G] [A/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/C] [D/I] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [A/C] [A/G] [T/C]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

88344020 88391734 88400258 88817786 88883522 88916635 88959850 89045060 89255787 89262470 89360880 89773517 89778440 89820477 89914763 90036983 90408742 90487004 90577984 90787599 90912594 91002682 91184183 91184183 91295495 91376033 91615574 91863336 91928587 91939989 91981841 91994620 92164986 92509127 92597696 92599727 92627946 92669376 92827954 92919416 92929307 92956282 93005995 93057790 93059146 93059146 93059146 93059146 93127527 93185955 93277987 93428051 93512325 93520257 93582968 93702141 93760118 93848400 93849385 94031651

SC

M AN U TE D

AC C

EP

chr6_88344020_A_G rs2787917 chr6_88400258_C_T rs6908755 rs9450907 chr6_88916635_G_T rs6899329 rs6934116 chr6_89255787_G_T rs2875553 kgp1897326 chr6_89773517_C_T rs9451140 rs7773548 rs11756847 rs9344925 rs12530146 chr6_90487004_C_T exm566638 rs4053608 rs12209546 chr6_91002682_C_T rs1144157 rs1144157 chr6_91295495_INDEL_TC rs1923075 chr6_91615574_C_T chr6_91863336_A_G chr6_91928587_C_T rs6928795 rs10755495 rs10944534 rs9362875 rs76349325 rs75471765 rs9353872 rs1498260 rs12526373 rs9451925 rs2120546 rs7775910 chr6_92956282_C_T rs1015455 chr6_93057790_G_INDEL chr6_93059146_C_T chr6_93059146_C_T chr6_93059146_C_T chr6_93059146_C_T rs1365711 rs2555772 rs12216384 chr6_93428051_A_G rs9345274 rs9294536 rs1572626 rs677242 rs12216260 rs538751 rs17540607 rs164302

genotype difference Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_34_TS Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_52_IF Col_33_IF Col_34_CB Col_12_CB Col_33_IF Col_34_TS Col_33_IF Col_33_IF Col_38_TS Col_45_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_12_CB Col_33_IF Col_16_TS Col_12_CB Col_16_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_38_CB Col_45_IF Col_52_IF Col_59_TS Col_52_IF Col_33_IF Col_52_IF Col_33_IF Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_33_CB Col_12_IF Col_34_IF Col_33_IF

RI PT


Marker ID

241

IlmnStrand

SNP

Chr

MapInfo

BOT BOT MINUS TOP TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP TOP TOP

[T/G] [T/A] [I/D] [A/T] [A/C] [A/C] [A/G] [A/G] [T/C] [A/G] [T/G] [T/C] [T/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/T] [A/T] [A/T] [T/G] [T/G] [T/C] [T/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [C/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

94061405 94115568 94237101 94277701 94347616 94347616 94388836 94388836 94437794 94493290 94500169 94805083 94891004 94921408 95025391 95106958 95106958 95145888 95145888 95188273 95211552 95342008 95342008 95342008 95362698 95362698 95364959 95421874 95456914 95552683 95556864 95871752 95872321 95927283 95963764 96014686 96070254 96085046 96218908 96218908 96308231 96444751 96786690 96988480 96988480 97073320 97080198 97091898 97096065 97096065 97102615 97204294 97489770 97494739 97497406 97549206 97964889 98068593 98379027 98406902

SC

M AN U TE D

AC C

EP

rs164539 rs423131 chr6_94237102_INDEL_TTTA chr6_94277701_A_T chr6_94347616_A_C chr6_94347616_A_C rs9345382 rs9345382 chr6_94437794_A_G chr6_94493290_C_T rs1537834 chr6_94805083_A_G rs12530049 chr6_94921408_A_G rs1235830 rs9445244 rs9445244 rs9294602 rs9294602 rs9445285 chr6_95211552_C_T chr6_95342008_A_T chr6_95342008_A_T chr6_95342008_A_T rs9452884 rs9452884 rs2502026 rs6931706 rs6918852 rs9360079 rs197870 rs7746362 rs12216275 chr6_95927283_A_G rs7749777 rs6932267 rs4383824 rs4074107 rs9493940 rs9493940 chr6_96308231_A_G rs11156122 kgp206681 chr6_96988480_A_G chr6_96988480_A_G rs211175 rs12200560 chr6_97091898_C_T rs9400212 rs9400212 rs1413522 rs11153162 rs1766483 rs17057302 chr6_97497406_C_T rs1206155 rs9489047 rs3924094 rs6940021 chr6_98406902_C_G

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_12_CB Col_33_IF Col_34_IF Col_33_IF Col_33_CB Col_16_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_16_IF Col_52_IF Col_33_IF Col_16_TS Col_08_IF Col_33_IF Col_12_CB Col_34_CB Col_12_IF Col_33_IF Col_08_IF Col_33_IF Col_33_IF Col_33_IF Col_08_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_12_IF Col_33_IF Col_52_TS Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_52_TS Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_16_CB

RI PT


Marker ID

242

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP PLUS TOP BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT TOP TOP BOT TOP TOP BOT TOP BOT BOT BOT BOT TOP MINUS BOT BOT BOT TOP BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP

[C/G] [C/G] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [I/D] [A/G] [T/C] [T/C] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/C] [A/G] [T/C] [A/G] [A/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/G] [T/C] [T/C] [A/G] [I/D] [G/C] [T/G] [T/C] [A/G] [G/C] [A/G] [T/C] [A/C] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

98406902 98406902 98435125 98494649 98517272 98596926 98653755 98699553 98794833 98926295 98926295 99045749 99175625 99198403 99221669 99275290 99297801 99351047 99439619 99457449 99457449 99819379 99843948 99880380 99882563 99911409 100068487 100108144 100237880 100480906 100539396 100677172 100862051 100894587 100999211 101118698 101166809 101174245 101307131 101365551 101400529 101407104 101427687 101481014 101615409 101655044 101658891 101699402 101713407 101713407 101807507 101860718 101886701 101902958 101911859 101929203 101939743 102005370 102008803 102050856

SC

M AN U

TE D

chr6_98406902_C_G chr6_98406902_C_G rs10872224 chr6_98494649_A_G rs12214442 chr6_98596926_A_G kgp2098626 chr6_98699553_A_G chr6_98794833_A_G chr6_98926295_C_T chr6_98926295_C_T rs6929790 rs9388676 chr6_99198404_A_INDEL rs9385493 chr6_99275290_C_T chr6_99297801_C_T rs195824 chr6_99439619_C_T chr6_99457449_C_T chr6_99457449_C_T rs6925344 chr6_99843948_A_G chr6_99880380_A_G rs17785525 chr6_99911409_A_C chr6_100068487_C_T chr6_100108144_A_G rs6936455 rs4240585 rs6910833 kgp8032830 rs17060534 rs1857859 chr6_100999211_A_G chr6_101118698_A_G rs7748644 rs12525128 chr6_101307131_C_T chr6_101365551_C_T chr6_101400529_INDEL_TTAA chr6_101407104_C_G chr6_101427687_G_T rs1765075 rs1775644 chr6_101655044_C_G rs3849200 chr6_101699402_A_G chr6_101713407_G_T chr6_101713407_G_T rs1485833 rs7754131 rs1890278 rs9485499 chr6_101911859_A_G rs990386 rs2399711 rs9373614 chr6_102008803_C_T chr6_102050856_G_T

genotype difference Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_12_IF Col_38_TS Col_52_IF Col_33_IF Col_33_IF Col_45_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_12_CB Col_16_TS Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_IF Col_33_IF Col_12_CB Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_45_TS Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_34_CB Col_33_CB Col_33_IF Col_33_IF Col_38_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

243

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT TOP BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP

[A/C] [A/C] [A/G] [T/C] [A/G] [T/C] [T/A] [T/A] [T/A] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/C] [A/C] [T/C] [A/C] [T/C] [T/C] [T/C] [C/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/C] [A/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [T/G] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/G] [A/C] [T/C] [T/C] [T/G] [T/C] [A/G] [A/G] [A/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

102050856 102058566 102062911 102065779 102230045 102261954 102270618 102270618 102270618 102323696 102399279 102432869 102485159 102485159 102485159 102501774 102512835 102530252 102594313 102671592 102727931 102809554 102833855 102834990 103047078 103067505 103090133 103213824 103213824 103312779 103327607 103338050 103360651 103360651 103438452 103609631 103609631 103797506 103856382 103909931 103909931 103945307 103945307 104016730 104016730 104016969 104091611 104227713 104452961 104539777 104560332 104583607 104601445 104676937 104681487 104712443 104756256 104869034 105016259 105091850

SC

M AN U TE D

AC C

EP

chr6_102050856_G_T chr6_102058566_A_C chr6_102062911_C_T chr6_102065779_C_T rs9322608 chr6_102261954_A_G chr6_102270618_A_T chr6_102270618_A_T chr6_102270618_A_T rs4120910 rs1413970 rs1360790 rs9498821 rs9498821 rs9498821 rs954765 chr6_102512835_A_G rs2782901 rs1232239 chr6_102671592_G_T chr6_102727931_A_C chr6_102809554_A_G rs9322655 chr6_102834990_C_T chr6_103047078_A_G rs12206844 chr6_103090133_C_G rs1523411 rs1523411 chr6_103312779_C_T rs1431218 rs1359053 chr6_103360651_C_T chr6_103360651_C_T rs9373671 chr6_103609631_G_T chr6_103609631_G_T rs12202509 chr6_103856382_C_T chr6_103909931_A_G chr6_103909931_A_G rs4521633 rs4521633 rs6923962 rs6923962 rs7452689 rs9499625 chr6_104227713_A_G rs926275 rs9322793 rs9485936 rs13203780 rs1365688 rs2820247 rs2820263 chr6_104712443_G_T rs2198337 chr6_104869034_A_G rs76599536 rs9377661

genotype difference Col_52_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_34_IF Col_38_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_45_CB Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_08_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_38_CB Col_52_IF Col_33_IF Col_16_IF Col_59_TS Col_38_TS Col_12_IF Col_33_IF Col_52_CB Col_38_TS Col_59_TS Col_33_IF Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_16_IF Col_52_IF Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_16_TS Col_52_CB Col_33_IF Col_33_IF Col_38_TS Col_33_CB

RI PT


Marker ID

244

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT TOP BOT BOT TOP TOP BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT TOP TOP TOP BOT TOP BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT MINUS BOT TOP TOP BOT TOP BOT TOP BOT TOP TOP TOP TOP TOP BOT PLUS TOP PLUS BOT PLUS PLUS TOP TOP PLUS TOP

[T/C] [A/G] [T/C] [T/C] [A/C] [T/A] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [D/I] [T/C] [A/C] [A/G] [T/G] [A/G] [T/C] [A/G] [T/A] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [D/I] [A/G] [I/D] [T/C] [D/I] [D/I] [A/G] [A/G] [D/I] [A/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

105180785 105180893 105191814 105421317 105478927 105516323 105891508 105988260 105988260 106265305 106354440 106359032 106364362 106385525 106518237 106518237 106518237 106568864 106642208 106718522 106821393 106821393 106852349 106895837 107126673 107178396 107304447 107343445 107537007 107713574 108000123 108147644 108246298 108366865 108724903 108791781 108927842 109294322 109302649 109306489 109307710 109313728 109320441 109326183 109328432 109330367 109330417 109330417 109334971 109338433 109339773 109340291 109345042 109347262 109359118 109359118 109383400 109406223 109428468 109463186

SC

M AN U

TE D

rs4336470 rs17065282 rs6942231 chr6_105421317_C_T rs2057391 corect_rs189826909 chr6_105891508_C_T rs9373790 rs9373790 chr6_106265305_A_G chr6_106354440_C_T rs4945734 rs4946709 rs6924145 chr6_106518237_C_T chr6_106518237_C_T chr6_106518237_C_T rs693612 rs9486302 chr6_106718522_C_T rs17066910 rs17066910 rs910688 rs9373866 chr6_107126673_A_G rs2024741 chr6_107304447_C_T chr6_107343445_C_T rs17068076 chr6_107713574_A_G rs9373966 rs4946872 rs6905131 rs9486785 chr6_108724903_C_T chr6_108791781_G_INDEL kgp8427517 chr6_109294322_G_T chr6_109302649_C_T chr6_109306489_A_C chr6_109307710_A_G chr6_109313728_C_T chr6_109320441_C_T chr6_109326183_A_T chr6_109328432_A_G chr6_109330367_A_G chr6_109330417_C_T chr6_109330417_C_T chr6_109334971_A_C chr6_109338433_C_T chr6_109339774_G_INDEL chr6_109340291_C_T chr6_109345042_AAT_INDEL chr6_109347262_C_T chr6_109359118_CTGA_INDEL chr6_109359118_CTGA_INDEL chr6_109383400_C_T chr6_109406223_A_G chr6_109428468_INDEL_TG chr6_109463186_A_G

genotype difference Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_33_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_08_TS Col_12_CB Col_33_IF Col_38_CB Col_33_IF Col_38_CB Col_12_TS Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF

RI PT


Marker ID

245

IlmnStrand

SNP

Chr

MapInfo

MINUS BOT TOP BOT BOT BOT BOT PLUS BOT TOP TOP TOP TOP TOP BOT BOT TOP BOT TOP TOP TOP BOT TOP TOP BOT TOP BOT TOP BOT BOT TOP BOT TOP BOT TOP TOP BOT BOT TOP BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP

[D/I] [T/C] [A/C] [T/G] [T/G] [T/A] [T/A] [D/I] [T/C] [A/G] [A/C] [A/G] [A/G] [A/C] [T/C] [T/G] [A/G] [T/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/G] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

109492071 109492740 109494473 109495333 109495333 109498878 109498878 109503896 109736253 109851937 109854243 110050590 110301661 110447643 110629139 110695855 110710018 110757008 110844259 111157593 111185850 111432853 111683322 111722292 111814177 111901770 111955435 111964747 112130670 112152560 112232137 112300914 112367137 112397665 112418460 112418460 112431283 112562472 112583612 112598700 112661923 112670402 112672155 112691284 112694090 112716390 112777316 112784876 112795844 112805037 112819571 112819571 112830623 112837059 112837059 112852469 112896820 112909707 112919957 112919957

SC

M AN U TE D

AC C

EP

chr6_109492072_C_INDEL chr6_109492740_A_G chr6_109494473_G_T chr6_109495333_A_C chr6_109495333_A_C chr6_109498878_A_T chr6_109498878_A_T chr6_109503897_C_INDEL rs13195517 rs11969939 rs10782163 chr6_110050590_C_T chr6_110301661_A_G rs4945850 rs17071424 chr6_110695855_G_T rs964080 chr6_110757008_A_C rs2817778 rs9487538 chr6_111185850_A_G rs9320359 rs11751625 rs12198525 chr6_111814177_A_G chr6_111901770_C_T rs10457242 rs9481173 chr6_112130670_C_T rs1327204 rs9320383 chr6_112300914_A_G rs4947161 exm572641 chr6_112418460_A_G chr6_112418460_A_G rs12204892 rs71541023 corect_rs185500695 rs10080802 corect_rs143543160 corect_rs112871184 rs11153362 rs12527210 rs75920285 rs78315287 rs2048471 corect_rs117035784 rs12212209 rs7750740 corect_rs151217308 corect_rs151217308 corect_rs147637256 rs1276588 rs1276588 rs1767965 rs12199556 rs2251690 corect_rs117108785 corect_rs117108785

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_38_IF Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_52_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_52_IF Col_59_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_38_TS Col_38_IF Col_52_IF Col_59_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_34_IF Col_16_TS Col_38_CB

RI PT


Marker ID

246

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP TOP TOP BOT TOP TOP TOP BOT BOT BOT TOP BOT BOT TOP BOT TOP TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT PLUS BOT TOP TOP BOT TOP BOT BOT BOT TOP BOT BOT TOP TOP BOT TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP TOP

[A/G] [T/C] [T/C] [A/G] [A/C] [A/G] [T/A] [A/G] [A/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/G] [T/C] [C/G] [T/C] [I/D] [T/C] [A/G] [A/C] [T/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/C] [T/A] [T/C] [A/G] [A/G] [A/G] [T/G] [A/G] [A/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

112919957 112955668 112961019 112963274 112966440 113023402 113167290 113202257 113346306 113510245 113583415 113620484 113641221 113897215 114028139 114113176 114273646 114469035 114553302 114553302 114617619 114628486 114628486 114631425 114714143 114966921 114966921 115157124 115235605 115377513 115396302 115470078 115739944 115768169 115967305 115999417 116063382 116128667 116292489 116307190 116325142 116470561 116509636 116716944 116727827 116740906 116753297 116759974 116759974 116764073 116764475 116767882 116768276 116769453 116780718 116786369 116787664 116787858 116805134 116834007

SC

M AN U

TE D

corect_rs117108785 rs12530109 chr6_112961019_A_G chr6_112963274_A_G chr6_112966440_A_C rs1378699 rs12664779 rs7744587 rs1481323 rs9488095 rs12181480 rs7768849 rs9942436 chr6_113897215_A_G rs7774400 rs80029443 rs10499080 rs2348921 rs62415834 rs62415834 chr6_114617619_A_C chr6_114628486_C_T chr6_114628486_C_T rs6927808 rs1033392 chr6_114966921_A_G chr6_114966921_A_G chr6_115157124_C_T rs9372420 rs17835143 chr6_115396302_C_G rs9400792 chr6_115739944_INDEL_TGTG rs74485376 rs7746151 corect_rs112051919 rs7740854 rs9320549 rs11752170 chr6_116307190_C_T rs3756772 rs958738 rs12526817 chr6_116716944_A_G chr6_116727827_A_G chr6_116740906_G_T chr6_116753297_A_G chr6_116759974_C_T chr6_116759974_C_T chr6_116764073_C_T chr6_116764475_A_G chr6_116767882_A_C chr6_116768276_A_T chr6_116769453_C_T chr6_116780718_C_T chr6_116786369_C_T rs2637679 chr6_116787858_G_T chr6_116805134_C_T chr6_116834007_A_G

genotype difference Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_59_TS Col_12_CB Col_08_TS Col_38_IF Col_52_IF Col_52_IF Col_52_IF Col_59_TS Col_33_IF Col_33_CB Col_16_IF Col_52_IF Col_16_TS Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_45_IF Col_16_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_16_TS

RI PT


Marker ID

247

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP BOT MINUS TOP BOT TOP BOT BOT TOP BOT PLUS BOT BOT BOT BOT BOT TOP TOP MINUS BOT BOT TOP BOT BOT TOP TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP BOT BOT PLUS TOP TOP TOP BOT BOT BOT MINUS

[A/G] [T/G] [T/G] [A/G] [T/C] [D/I] [A/G] [G/C] [A/G] [T/C] [T/C] [A/C] [T/C] [D/I] [T/G] [T/C] [T/C] [G/C] [T/G] [A/G] [A/G] [I/D] [T/A] [T/C] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/G] [A/G] [T/C] [A/G] [A/G] [C/G] [C/G] [C/G] [C/G] [G/C] [T/C] [T/C] [A/G] [C/G] [A/G] [T/C] [A/C] [A/G] [A/G] [T/C] [T/C] [I/D] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [I/D]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

116834007 116851907 116851907 116864282 116900999 116968547 116970863 116978336 117027121 117084246 117084246 117086265 117089143 117100474 117105519 117111708 117111708 117117628 117126345 117131164 117150008 117166030 117166035 117168025 117181666 117192190 117194896 117199391 117199391 117199391 117200434 117202460 117206305 117212689 117220647 117227298 117232854 117232854 117232854 117232854 117236923 117239141 117239141 117250182 117250515 117254282 117254982 117257645 117258344 117262450 117263605 117263612 117264241 117264713 117265125 117265349 117265558 117265558 117265558 117266058

SC

M AN U TE D

AC C

EP

rs2250263 chr6_116851907_A_C chr6_116851907_A_C chr6_116864282_C_T chr6_116900999_C_T chr6_116968548_C_INDEL chr6_116970863_C_T chr6_116978336_C_G chr6_117027121_A_G chr6_117084246_A_G chr6_117084246_A_G chr6_117086265_G_T chr6_117089143_A_G chr6_117100474_G_INDEL rs587771 chr6_117111708_C_T chr6_117111708_C_T chr6_117117628_C_G chr6_117126345_A_C chr6_117131164_A_G newrs6907580 chr6_117166030_INDEL_TA chr6_117166035_A_T chr6_117168025_C_T chr6_117181666_G_T chr6_117192190_A_G chr6_117194896_A_G chr6_117199391_C_T chr6_117199391_C_T chr6_117199391_C_T chr6_117200434_A_C chr6_117202460_A_C chr6_117206305_A_G chr6_117212689_A_G chr6_117220647_A_G chr6_117227298_C_T chr6_117232854_C_G chr6_117232854_C_G chr6_117232854_C_G chr6_117232854_C_G chr6_117236923_C_G chr6_117239141_C_T chr6_117239141_C_T chr6_117250182_A_G chr6_117250515_C_G chr6_117254282_C_T chr6_117254982_C_T chr6_117257645_G_T chr6_117258344_C_T chr6_117262450_C_T chr6_117263605_C_T chr6_117263612_A_G chr6_117264245_A_INDEL chr6_117264713_G_T chr6_117265125_A_G chr6_117265349_A_G chr6_117265558_C_T chr6_117265558_C_T chr6_117265558_C_T chr6_117266058_A_INDEL

genotype difference Col_16_TS Col_33_IF Col_59_CB Col_34_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_45_IF Col_59_TS Col_12_CB Col_33_IF Col_38_IF Col_52_IF Col_08_CB Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_CB Col_45_IF Col_12_IF Col_33_CB Col_12_CB Col_38_CB Col_38_CB Col_33_CB Col_33_IF Col_16_IF Col_38_CB Col_45_TS Col_59_TS Col_38_IF Col_38_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_45_TS Col_33_IF Col_33_IF Col_38_TS Col_34_CB Col_33_IF Col_52_IF Col_33_IF Col_34_TS Col_52_IF Col_33_IF

RI PT


Marker ID

248

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP TOP TOP TOP BOT MINUS BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP BOT TOP TOP BOT BOT TOP BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP MINUS MINUS MINUS TOP TOP BOT BOT TOP TOP BOT BOT BOT TOP BOT TOP

[A/G] [T/G] [T/C] [A/G] [A/G] [A/C] [A/C] [T/G] [I/D] [T/A] [T/A] [T/C] [T/C] [A/G] [T/C] [A/G] [A/C] [A/C] [A/G] [T/A] [A/G] [A/G] [T/A] [T/C] [A/G] [T/A] [A/G] [A/G] [T/C] [T/G] [T/A] [T/A] [T/A] [A/G] [G/C] [G/C] [G/C] [T/A] [T/A] [A/C] [A/G] [A/G] [A/G] [T/A] [A/C] [D/I] [D/I] [D/I] [A/G] [A/G] [T/C] [T/C] [A/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

117266989 117269258 117269268 117270411 117270411 117270815 117270815 117271126 117271457 117276147 117276147 117276640 117276640 117276834 117276846 117276942 117279904 117279904 117281179 117285642 117300756 117355419 117445998 117486083 117495112 117513361 117536236 117559693 117599965 117600609 117611155 117611155 117611155 117625339 117630904 117630904 117630904 117637573 117637573 117641458 117641931 117643828 117643828 117670874 117678843 117682600 117682600 117682600 117685741 117714636 117718388 117733452 117735255 117763230 117780037 117781984 117785696 117814437 117817126 117819357

SC

M AN U TE D

AC C

EP

chr6_117266989_C_T chr6_117269258_A_C chr6_117269268_A_G chr6_117270411_A_G chr6_117270411_A_G chr6_117270815_A_C chr6_117270815_A_C chr6_117271126_A_C chr6_117271460_INDEL_T chr6_117276147_A_T chr6_117276147_A_T chr6_117276640_A_G chr6_117276640_A_G chr6_117276834_C_T chr6_117276846_A_G chr6_117276942_C_T chr6_117279904_G_T chr6_117279904_G_T chr6_117281179_A_G chr6_117285642_A_T chr6_117300756_C_T chr6_117355419_A_G chr6_117445998_A_T chr6_117486083_C_T rs9400983 corect_rs187801855 chr6_117536236_A_G chr6_117559693_C_T chr6_117599965_C_T chr6_117600609_A_C rs10484304 rs10484304 rs10484304 rs407724 chr6_117630904_C_G chr6_117630904_C_G chr6_117630904_C_G chr6_117637573_A_T chr6_117637573_A_T corect_rs150750988 chr6_117641931_C_T chr6_117643828_C_T chr6_117643828_C_T rs9374651 chr6_117678843_A_C chr6_117682600_AG_INDEL chr6_117682600_AG_INDEL chr6_117682600_AG_INDEL chr6_117685741_C_T rs78481243 corect_rs140813329 rs9385013 rs3777981 rs11758804 corect_rs140721206 corect_rs147424605 rs6942067 rs13195478 rs9489215 rs2057314

genotype difference Col_33_IF Col_33_IF Col_52_IF Col_34_IF Col_59_TS Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_12_CB Col_38_CB Col_38_CB Col_33_IF Col_08_TS Col_33_IF Col_33_CB Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_38_TS Col_52_IF Col_08_CB Col_45_TS Col_52_CB Col_38_IF Col_16_IF Col_45_IF Col_52_CB Col_16_TS Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_52_IF Col_33_IF Col_33_CB Col_38_CB Col_52_IF Col_59_TS Col_08_TS Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_34_CB Col_33_IF

RI PT


Marker ID

249

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT TOP TOP TOP PLUS TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP BOT TOP BOT TOP BOT TOP TOP BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT TOP BOT

[T/C] [A/C] [T/G] [T/G] [T/C] [T/C] [T/A] [T/C] [G/C] [G/C] [G/C] [A/G] [A/G] [A/G] [T/A] [T/C] [A/C] [T/C] [A/G] [A/G] [A/C] [D/I] [A/T] [A/T] [A/T] [A/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/C] [T/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [G/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/C] [T/C]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

117829310 117852276 117891826 117891826 117935676 118001918 118006336 118148148 118255689 118255689 118255689 118612400 118612400 119575860 119601855 119756937 119852918 119857792 120222479 120314863 120346723 120445679 120458466 120458466 120458466 120485517 120491715 120491715 120491715 120559644 120590561 120682845 120717175 120810486 120818634 120895333 120915110 121051181 121313346 121356936 121366033 121414103 121427721 121451095 121458284 121558031 121558031 121577370 121733886 121809450 121949958 122163160 122287873 122581103 122586107 122661338 122945140 122955721 123116006 123206331

SC

M AN U

TE D

rs1321812 chr6_117852276_A_C rs72965562 rs72965562 corect_rs117613751 corect_rs118020931 rs77885036 rs2678772 rs9489282 rs9489282 rs9489282 rs1923282 rs1923282 rs2357163 chr6_119601855_A_T rs12197534 rs9401149 rs4551205 chr6_120222479_C_T rs1474780 rs6907790 chr6_120445679_GAAA_INDEL chr6_120458466_A_T chr6_120458466_A_T chr6_120458466_A_T rs4272235 rs155156 rs155156 rs155156 rs6907748 rs9320745 chr6_120682845_C_T rs1486216 rs1032161 chr6_120818634_A_G rs11153923 rs13214581 chr6_121051181_A_G rs908461 rs9387915 rs9398619 chr6_121414103_C_T chr6_121427721_C_T rs1273728 chr6_121458284_C_G rs6941235 rs6941235 rs7745023 rs12204978 rs4946572 rs9401435 chr6_122163160_A_C rs6903218 rs7765736 rs1379087 rs7751410 rs9388105 chr6_122955721_A_G chr6_123116006_G_T rs7758880

genotype difference Col_33_IF Col_38_IF Col_33_IF Col_12_CB Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_08_IF Col_33_IF Col_12_CB Col_52_IF Col_59_TS Col_33_IF Col_34_IF Col_52_CB Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_08_TS Col_52_IF Col_12_CB Col_33_CB Col_08_TS Col_16_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_38_CB Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_34_IF Col_33_IF Col_12_CB Col_52_IF Col_33_CB Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_16_TS

RI PT


Marker ID

250

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT TOP TOP BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT TOP BOT BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT

[A/G] [T/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/C] [A/C] [A/C] [A/C] [A/G] [T/G] [A/T] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/C] [A/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [C/G] [T/C] [A/G] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [A/C] [A/C] [T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

123286751 123305965 123591424 123591424 123731285 123731285 123818871 123829676 123868992 123894928 123924927 123927957 124075528 124135635 124298718 124317132 124317132 124342291 124349384 124468235 124603390 124610052 124619294 124662331 124662331 124662999 124673700 124678420 124685182 124690371 124690371 124708702 124743507 124744006 124744006 124772136 124792915 124889636 124907009 125252842 125368709 125409031 125690544 125839978 125839978 126057748 126100556 126122564 126288023 126500851 126500851 126822635 126822635 126964510 127096527 127210093 127258980 127258980 127258980 127422632

SC

M AN U TE D

AC C

EP

rs4896501 rs9372726 rs11757138 rs11757138 rs9388238 rs9388238 rs9320939 rs9398732 rs6905496 chr6_123894928_A_G rs7760343 chr6_123927957_C_T chr6_124075528_C_T rs7758557 rs9320967 chr6_124317132_A_C chr6_124317132_A_C rs234463 rs17086515 chr6_124468235_A_T rs802497 chr6_124610052_C_T rs9491108 rs57407099 rs57407099 rs9320987 rs12201181 chr6_124678420_C_T rs1407529 rs980658 rs980658 rs12055404 rs531930 rs9482558 rs9482558 chr6_124772136_A_G chr6_124792915_C_T rs612146 rs649757 newrs6927751 rs1830651 rs471429 chr6_125690544_A_G rs9491432 rs9491432 chr6_126057748_C_T rs1739386 chr6_126122564_A_G rs3757212 chr6_126500851_A_G chr6_126500851_A_G rs9372840 rs9372840 rs4273712 rs983741 rs2151522 chr6_127258980_C_T chr6_127258980_C_T chr6_127258980_C_T chr6_127422632_C_T

genotype difference Col_33_IF Col_33_IF Col_08_TS Col_12_IF Col_16_TS Col_38_TS Col_08_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_16_IF Col_38_CB Col_59_TS Col_08_CB Col_33_IF Col_33_IF Col_12_IF Col_52_IF Col_12_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_52_IF Col_52_IF Col_52_IF Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_38_IF Col_33_IF Col_59_TS Col_33_CB Col_34_IF Col_38_IF Col_52_IF Col_16_IF

RI PT


Marker ID

251

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP BOT TOP TOP TOP BOT BOT BOT TOP TOP BOT TOP TOP TOP TOP BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP

[T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/C] [A/C] [A/G] [A/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/C] [A/G] [T/C] [G/C] [T/C] [A/G] [A/C] [T/G] [C/G] [A/G] [A/G] [A/C] [T/C] [A/G] [T/C] [A/C] [A/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/A] [T/A] [T/A] [T/A] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/C] [A/C] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

127422632 127455138 127509157 127528104 127575171 127583408 127709434 127723584 127903054 127909977 127923526 127941122 128067246 128222626 128284771 128324241 128567019 128569608 128624360 129117861 129236954 129383680 129422405 129425564 129486578 129537876 129537876 129540114 129793597 129793971 129836155 129872966 129907587 129982285 130036632 130037920 130101130 130143739 130152440 130152440 130152440 130176430 130176430 130321899 130321899 130345835 130345835 130373188 130393148 130479049 130488626 130495883 130495883 130544761 130723467 130723467 130723467 130850699 130910342 130926413

SC

M AN U TE D

AC C

EP

chr6_127422632_C_T rs7766106 rs7745274 kgp1703293 chr6_127575171_C_T rs4321843 chr6_127709434_A_C rs9401957 rs1080436 chr6_127909977_A_C rs960104 corect_rs137898443 rs11961168 rs156065 rs802721 rs717851 kgp10248661 kgp17361090 rs17055587 chr6_129117861_C_G rs9482955 rs12190465 rs7751685 rs9388686 chr6_129486578_C_G rs265360 rs265360 rs265354 chr6_129793597_C_T rs6905196 chr6_129836155_C_T rs10457525 rs6935162 rs9388722 rs17468526 rs12205840 chr6_130101130_C_T chr6_130143739_A_G rs9372948 rs9372948 rs9372948 chr6_130176430_A_T chr6_130176430_A_T chr6_130321899_A_T chr6_130321899_A_T chr6_130345835_A_G chr6_130345835_A_G chr6_130373188_A_G chr6_130393148_C_T rs1889625 chr6_130488626_A_G rs10223341 rs10223341 rs4897379 rs1398817 rs1398817 rs1398817 rs9388801 rs9321242 rs4897445

genotype difference Col_52_TS Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_52_IF Col_33_CB Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_52_IF Col_16_TS Col_33_IF Col_38_TS Col_33_IF Col_16_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_52_CB Col_16_IF Col_33_CB Col_38_TS Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_12_IF Col_12_CB Col_08_TS Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_12_CB

RI PT


Marker ID

252

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT BOT TOP BOT BOT TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT MINUS BOT TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT TOP TOP TOP BOT TOP TOP BOT

[A/G] [A/C] [A/G] [T/G] [T/C] [T/C] [A/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/G] [T/C] [C/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/T] [A/G] [A/G] [A/C] [T/C] [A/G] [A/G] [T/C] [I/D] [T/C] [A/G] [A/G] [T/G] [T/G] [T/C] [T/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/A] [A/G] [A/G] [T/C]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

130984945 131003355 131092501 131128370 131397303 131404668 131465988 131716570 131918737 132066501 132071193 132537406 132537834 132633239 132730372 132730947 132780167 132781339 132942953 132982421 133111349 133150887 133267403 133267403 133271320 133366486 133459694 133578733 133610598 133613408 133621996 133675770 133698314 133702841 133728417 133803682 133817456 133827354 134104132 134104132 134152181 134624952 134792784 135028089 135056757 135176176 135238546 135566220 135824535 135851084 135933005 136127782 136142054 136263177 136464760 136475578 136554647 136695212 136695212 136960278

SC

M AN U TE D

AC C

EP

rs2020202 rs7752280 rs761836 rs7761842 rs6913822 rs9398976 rs12206629 rs7753432 rs17060430 rs7759504 rs4383836 rs7756650 rs7760956 chr6_132633239_A_G chr6_132730372_C_G rs1416100 rs1044083 rs3183732 rs9321355 rs7762377 newrs35004921 rs755895 rs6904471 rs6904471 rs271151 rs4571580 chr6_133459694_A_C rs973714 rs211432 chr6_133613408_C_T rs9373046 rs2184783 chr6_133698314_A_G chr6_133702841_A_T chr6_133728417_C_T rs6905892 rs568911 rs2277083 rs1208256 rs1208256 rs1746015 chr6_134624953_A_INDEL rs2327477 chr6_135028089_A_G rs1407107 rs1040806 rs9494117 chr6_135566220_C_T chr6_135824535_G_T chr6_135851084_C_T rs2143681 rs7776097 rs78638213 chr6_136263177_A_G rs7770469 chr6_136475578_C_T rs2274141 rs3778297 rs3778297 rs6917580

genotype difference Col_38_CB Col_33_CB Col_33_IF Col_33_CB Col_45_IF Col_33_IF Col_59_TS Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_CB Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_59_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_08_IF Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_12_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_16_TS Col_08_CB Col_38_CB Col_33_IF

RI PT


Marker ID

253

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT BOT MINUS TOP BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT TOP TOP BOT TOP BOT BOT TOP TOP TOP BOT BOT TOP BOT TOP BOT BOT TOP BOT TOP TOP BOT BOT TOP BOT TOP TOP TOP BOT TOP BOT BOT TOP TOP TOP TOP

[A/G] [T/G] [T/C] [T/G] [T/G] [I/D] [A/G] [T/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/C] [A/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [T/C] [A/G] [T/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/G] [T/C] [A/G] [G/C] [A/G] [A/G] [A/G] [T/C] [A/C] [T/C] [T/C] [A/C] [A/C] [A/G] [A/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

137042403 137079542 137165720 137319455 137319455 137468132 137743424 137848642 137922827 137923390 137948434 138150434 138288536 138345500 138415246 138583058 138674754 138732238 139047627 139213276 139247076 139285630 139355741 139793320 139811689 139870725 139901814 140206760 140375362 140475571 140785977 141319040 141319040 141442825 141488481 141488481 141541276 141671732 141764919 141937741 142164431 142169481 142169787 142236407 142308294 142625734 142641606 142870555 142986690 143033056 143058408 143058408 143154012 143347740 143669993 143726697 143733576 143802490 143896343 143908013

SC

M AN U TE D

AC C

EP

rs9389429 rs4896219 corect_rs149491404 chr6_137319455_A_C chr6_137319455_A_C chr6_137468133_A_INDEL rs1022501 rs9402902 rs646807 rs9376287 rs636107 rs2788287 rs11154948 chr6_138345500_A_G rs2473098 corect_rs142546104 rs203133 rs9495078 rs78431885 rs11962409 rs3763188 rs9376387 chr6_139355741_C_T chr6_139793320_A_G rs9495497 chr6_139870725_G_T chr6_139901814_G_T rs4895576 chr6_140375362_C_T rs2328026 rs17069970 rs12175481 rs12175481 rs4385332 rs1452992 rs1452992 chr6_141541276_A_C rs9376609 rs12212395 rs9496101 rs9496163 rs9389952 chr6_142169787_A_G rs9389954 rs78858447 chr6_142625734_G_T rs12189801 chr6_142870555_A_G chr6_142986690_C_G rs9390019 rs538289 rs538289 chr6_143154012_C_T rs17590726 rs9399441 rs9376748 rs2496589 rs161061 rs9496677 rs9403515

genotype difference Col_33_IF Col_34_TS Col_33_IF Col_33_IF Col_34_IF Col_45_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_CB Col_12_CB Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_38_TS Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_12_IF Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

254

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT TOP BOT TOP BOT TOP BOT BOT MINUS TOP BOT TOP BOT BOT TOP TOP BOT BOT TOP BOT TOP BOT BOT TOP TOP TOP TOP BOT BOT BOT MINUS MINUS MINUS BOT TOP TOP TOP BOT BOT BOT MINUS MINUS BOT BOT TOP

[T/C] [A/G] [A/G] [A/G] [T/G] [T/C] [A/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/A] [I/D] [A/G] [T/C] [A/C] [T/C] [T/C] [A/G] [A/G] [T/G] [T/C] [A/G] [T/C] [A/C] [T/C] [T/G] [A/T] [A/T] [A/T] [A/T] [T/C] [T/C] [T/G] [I/D] [I/D] [I/D] [T/C] [A/G] [A/G] [A/G] [T/C] [G/C] [T/G] [D/I] [D/I] [T/A] [T/G] [A/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

144056863 144281385 144402945 144434024 144460762 144768755 144832105 144838068 144926230 144943157 144968195 144968195 145225953 145225953 145370150 145370150 145416819 145539467 146014168 146025662 146072662 146118225 146314207 146894221 146944800 146954820 147013320 147035092 147039763 147062220 147086448 147335168 147490398 147535305 147819598 147859406 147866682 147994707 148330091 148330091 148424401 148424401 148439839 148445276 148462046 148525846 148525846 148525846 148744408 149074229 149074229 149074229 149092757 149107051 149366064 149406072 149406072 149443522 149539730 149552517

SC

M AN U

TE D

rs7738300 rs7770000 rs6929066 rs6935203 rs6916177 exm583742 exm2113062 exm583912 rs1554816 rs9390180 rs7753246 rs7753246 rs9390258 rs9390258 chr6_145370150_C_T chr6_145370150_C_T chr6_145416819_A_G rs12206002 rs4896837 rs6930154 rs7752286 rs12199362 chr6_146314207_A_T chr6_146894222_A_INDEL rs7746671 rs1107205 rs9497607 rs6922075 rs73573701 rs1327666 chr6_147086448_A_G chr6_147335168_A_C rs1660690 rs1221638 rs325118 rs9403860 chr6_147866682_C_T rs4896938 chr6_148330091_A_T chr6_148330091_A_T rs9485246 rs9485246 rs4896965 chr6_148445276_A_G rs13216119 chr6_148525847_A_INDEL chr6_148525847_A_INDEL chr6_148525847_A_INDEL rs11754081 rs9498147 rs9498147 rs9498147 rs6570896 chr6_149107051_C_G rs2153252 chr6_149406072_ACTC_INDEL chr6_149406072_ACTC_INDEL chr6_149443522_A_T chr6_149539730_G_T rs6910470

genotype difference Col_34_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_IF Col_33_IF Col_12_IF Col_34_IF Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_59_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_CB Col_16_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_59_TS Col_12_CB Col_16_IF Col_45_IF Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_52_CB Col_33_IF Col_16_IF Col_52_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_16_IF Col_33_CB Col_33_CB Col_33_IF Col_38_TS

RI PT


Marker ID

255

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP MINUS BOT BOT BOT BOT BOT TOP TOP BOT TOP TOP BOT BOT BOT TOP PLUS TOP BOT BOT TOP PLUS TOP BOT BOT BOT TOP TOP BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT TOP

[T/C] [T/C] [T/C] [A/G] [T/A] [T/A] [T/A] [T/A] [A/G] [T/C] [T/C] [C/G] [C/G] [A/G] [A/T] [A/T] [T/C] [T/C] [T/C] [T/C] [A/G] [I/D] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [D/I] [A/G] [T/G] [T/G] [A/G] [I/D] [A/C] [T/A] [T/A] [T/A] [A/G] [A/G] [G/C] [T/C] [A/G] [T/A] [A/C] [A/C] [A/C] [T/A] [T/C] [T/C] [G/C] [A/C]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

150318351 150318351 150713782 150730975 150733271 150733271 150733271 150733271 150779197 150997440 151048986 151068097 151068097 151095379 151243700 151243700 151264778 151278172 151401394 151401394 151461931 151492177 151496169 151572302 151572302 151575261 151606695 151610726 151621055 151653171 151660544 151696304 151721749 151750960 151803659 151817992 151819414 151855488 151892151 151926707 151943977 151956936 151958612 151979037 151979037 151979037 151985550 151985574 151987442 152010377 152010561 152016369 152072718 152072718 152080735 152092638 152092846 152092846 152102999 152115186

SC

M AN U TE D

AC C

EP

rs9383633 rs9383633 rs2076292 rs650597 rs9478733 rs9478733 rs9478733 rs9478733 rs4870524 rs17080093 rs6901930 chr6_151068097_C_G chr6_151068097_C_G rs11155751 rs9478858 rs9478858 rs803447 rs1738586 chr6_151401394_C_T chr6_151401394_C_T rs12660161 rs5880916 chr6_151496169_C_T rs10499265 rs10499265 rs4870004 rs62441530 rs72994089 rs77108514 rs73619276 rs55702615 rs6557131 chr6_151721749_A_G rs72997908 rs13215869 rs17081325 rs66974624 rs6557144 rs4869738 rs4324787 rs10872676 rs66768853 rs6912323 chr6_151979037_A_T chr6_151979037_A_T chr6_151979037_A_T rs851997 rs78517863 chr6_151987442_C_G c6_pos152052070 rs2982572 rs862346 rs9918437 rs9918437 rs1124674 rs1415193 chr6_152092846_A_G chr6_152092846_A_G chr6_152102999_C_G chr6_152115186_G_T

genotype difference Col_16_TS Col_52_TS Col_33_IF Col_33_CB Col_16_CB Col_34_TS Col_38_IF Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_34_CB Col_33_IF Col_34_TS Col_52_CB Col_33_IF Col_08_TS Col_16_TS Col_38_TS Col_33_IF Col_34_TS Col_33_IF Col_16_TS Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_59_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_CB Col_34_CB Col_52_CB Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_34_CB Col_34_CB Col_33_CB Col_12_IF Col_33_IF Col_33_IF Col_52_IF Col_59_TS Col_33_IF Col_33_IF

RI PT


Marker ID

256

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT TOP TOP TOP PLUS BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT TOP BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP BOT BOT TOP TOP MINUS TOP TOP BOT TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP BOT

[A/C] [T/G] [T/G] [T/G] [A/G] [A/G] [A/G] [D/I] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/C] [A/G] [A/G] [T/G] [T/C] [A/G] [T/C] [T/A] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/T] [I/D] [A/G] [A/G] [T/C] [C/G] [A/G] [A/C] [A/C] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/T] [T/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

152123593 152143389 152143389 152143389 152251568 152268483 152278741 152284226 152300627 152305758 152305758 152307706 152310170 152313718 152333104 152358179 152387664 152436506 152436506 152449729 152460272 152474790 152479587 152486648 152486648 152505770 152516578 152520494 152527409 152536374 152544371 152561737 152568722 152592751 152608067 152630180 152630180 152630180 152635846 152635846 152641656 152641656 152648927 152658343 152671919 152680057 152680057 152707063 152708797 152746851 152751278 152751278 152752312 152757224 152757224 152762098 152762098 152779933 152786796 152789850

SC

M AN U TE D

AC C

EP

chr6_152123593_A_C rs9340788 rs9340788 rs9340788 chr6_152251568_C_T rs3020424 chr6_152278741_C_T chr6_152284226_C_INDEL rs9340939 rs76015055 rs76015055 rs2144025 chr6_152310170_C_T rs9340944 rs13203975 rs2982712 rs3778082 rs79783156 rs79783156 rs2673781 rs13202108 rs9397084 rs17082253 rs2635473 rs2635473 chr6_152505770_G_T rs2813533 rs2635443 exm587535 rs2763030 rs7382254 rs9322364 rs9371246 rs633891 rs7747166 rs7742927 rs7742927 rs7742927 rs9383986 rs9383986 rs7741183 rs7741183 rs6557213 rs79927770 rs63671560 rs75530749 rs75530749 rs9478329 rs6557218 rs13191697 exm588395 exm588395 rs492233 rs34028822 rs34028822 rs6915736 rs6915736 rs34610829 rs62427039 rs75851819

genotype difference Col_33_IF Col_16_TS Col_52_IF Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_59_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_34_TS Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_52_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_IF Col_52_TS Col_59_TS Col_16_IF Col_52_IF Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_52_IF Col_52_IF Col_08_TS Col_33_IF Col_33_IF Col_12_TS Col_52_TS Col_16_TS Col_38_TS Col_08_CB Col_52_IF Col_33_IF Col_12_CB Col_52_IF

RI PT


Marker ID

257

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT BOT PLUS TOP BOT BOT MINUS TOP MINUS TOP BOT TOP BOT TOP TOP BOT BOT TOP PLUS TOP TOP TOP PLUS PLUS BOT BOT BOT TOP BOT TOP PLUS PLUS BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP MINUS BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT

[T/G] [T/C] [D/I] [A/G] [T/C] [T/C] [I/D] [A/G] [I/D] [A/G] [T/G] [A/G] [G/C] [A/G] [A/G] [T/C] [T/A] [A/G] [D/I] [A/G] [A/G] [A/G] [D/I] [D/I] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [D/I] [D/I] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [D/I] [T/C] [T/C] [A/C] [A/C] [A/C] [T/C] [G/C] [G/C] [T/G] [T/A] [T/C] [T/C] [T/C]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

152789850 152833539 152839147 152891333 152896974 152971269 152995392 153026120 153038310 153069721 153070451 153103035 153112181 153141841 153141841 153145137 153148590 153163066 153165382 153171417 153188447 153188447 153209978 153209978 153217869 153220274 153223368 153262604 153273743 153291883 153320421 153331544 153333328 153351759 153367516 153367516 153378090 153380228 153384196 153401046 153402841 153403820 153403820 153404250 153407175 153408920 153410067 153413274 153413274 153421545 153421545 153421545 153430417 153430451 153430451 153445965 153446191 153458348 153462396 153473232

SC

M AN U

TE D

rs75851819 chr6_152833539_A_G chr6_152839147_AAC_INDEL rs76776697 rs12528046 chr6_152971269_C_T chr6_152995392_A_INDEL rs9384034 rs5880999 rs3757070 rs1407267 rs4870142 corect_rs188005892 chr6_153141841_A_G chr6_153141841_A_G rs77276966 chr6_153148590_A_T rs9371639 rs67521795 rs192846 rs603992 rs603992 rs71766152 rs71766152 rs2840300 rs633399 rs12209062 rs17251334 rs6900526 rs76686834 rs68115660 chr6_153331544_AACT_INDEL rs650018 chr6_153351759_A_G chr6_153367516_C_T chr6_153367516_C_T rs6935593 rs7762794 rs1933262 rs10872697 rs6920313 rs9478388 rs9478388 rs11155894 rs626671 rs654845 chr6_153410067_AAAG_INDEL rs618173 rs618173 rs11155895 rs11155895 rs11155895 rs35714751 rs6931160 rs6931160 rs9371676 rs1281967 rs1281956 rs1281952 rs1281978

genotype difference Col_12_CB Col_59_TS Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_12_TS Col_12_CB Col_33_IF Col_16_IF Col_16_TS Col_33_IF Col_38_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_38_TS Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_59_TS Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_TS Col_12_CB Col_08_IF Col_34_TS Col_12_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_59_CB Col_12_CB

RI PT


Marker ID

258

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP TOP BOT TOP PLUS TOP BOT TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP BOT MINUS PLUS PLUS BOT BOT TOP TOP BOT TOP BOT TOP BOT BOT TOP TOP BOT TOP TOP TOP TOP TOP TOP BOT TOP TOP BOT TOP BOT BOT BOT BOT TOP

[T/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [I/D] [A/G] [T/C] [A/G] [T/G] [T/C] [A/C] [A/C] [A/G] [T/A] [T/A] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [A/C] [A/C] [T/C] [I/D] [I/D] [I/D] [T/C] [T/G] [A/C] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/G] [C/G] [A/C] [A/T] [A/C] [A/G] [A/C] [T/G] [A/G] [A/G] [T/C] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

153489212 153518604 153569587 153569587 153577503 153586633 153615184 153618194 153627062 153635596 153667028 153704558 153707246 153710987 153710987 153744282 153745214 153745214 153754313 153786361 153786361 153806090 153806090 153828648 153859024 153889419 153889419 153912911 153924817 153928161 153928161 153967439 154025836 154297720 154522661 154606745 154609173 154694179 154829397 155078641 155498116 155597005 155630653 155644183 155906479 155966676 156001548 156012352 156076001 156087233 156141694 156277741 156287430 156345213 156377582 156458742 156492674 156496460 156540417 156543930

SC

M AN U TE D

AC C

EP

rs1281989 rs17724757 rs9285537 rs9285537 rs6905569 rs73008501 chr6_153615184_A_G chr6_153618195_A_INDEL rs9371687 rs77524228 rs78861330 rs7738326 rs6922464 rs6904654 rs6904654 rs270292 rs270295 rs270295 rs7758257 rs270260 rs270260 rs62436406 rs62436406 rs270276 chr6_153859024_A_C rs75299946 rs75299946 rs9322426 rs66537630 rs57214238 rs57214238 chr6_153967439_A_G rs1937594 rs10457902 rs9322451 rs6930716 chr6_154609173_C_T rs9384206 chr6_154829397_C_T rs11156000 newrs191375040 chr6_155597005_A_G rs9384310 rs324365 chr6_155906479_C_G rs12211057 chr6_156001548_A_T rs12663232 chr6_156076001_A_G rs11965880 rs4382275 rs9480235 corect_rs114278568 rs13218955 rs1584535 rs4394225 rs9397906 rs7742923 rs2820406 rs6918330

genotype difference Col_33_IF Col_33_IF Col_16_IF Col_38_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_52_IF Col_59_TS Col_16_TS Col_33_IF Col_52_IF Col_59_TS Col_38_CB Col_12_CB Col_33_IF Col_52_IF Col_12_CB Col_52_CB Col_08_TS Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_TS Col_34_IF Col_34_CB Col_12_TS Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_52_CB Col_33_IF

RI PT


Marker ID

259

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT TOP BOT TOP BOT TOP BOT TOP TOP TOP BOT BOT BOT PLUS BOT PLUS TOP BOT BOT TOP PLUS TOP TOP BOT BOT TOP TOP TOP MINUS TOP BOT BOT BOT BOT PLUS TOP TOP BOT BOT BOT TOP BOT MINUS BOT TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP BOT

[A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/G] [T/G] [T/G] [D/I] [T/G] [I/D] [A/G] [T/C] [T/C] [A/G] [D/I] [A/G] [A/G] [T/C] [T/G] [A/G] [A/G] [A/G] [D/I] [A/G] [T/C] [T/C] [T/C] [T/C] [I/D] [A/G] [A/G] [T/G] [T/C] [T/C] [A/G] [T/C] [D/I] [T/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

156545132 156553950 156555020 156801192 157115057 157196974 157273576 157318748 158240876 158622391 159425707 159803460 159861286 159861286 159861286 160109543 160112584 160140054 160146224 160157057 160159503 160161628 160165563 160167870 160167870 160195120 160205991 160206631 160207570 160208735 160234068 160260145 160272430 160332332 160335017 160352497 160359654 160359708 160388156 160397200 160412524 160422785 160428858 160437880 160451672 160453561 160467087 160501175 160543148 160543206 160572279 160572279 160578271 160580496 160637239 160637239 160637239 160637890 160646280 160686668

SC

M AN U

TE D

rs2818058 rs2820397 rs17087225 rs958386 chr6_157115057_C_T chr6_157196974_A_G chr6_157273576_C_T rs6557516 rs6934158 rs662185 rs2016588 chr6_159803460_A_G rs6455639 rs6455639 rs6455639 chr6_160109543_AGGAA_INDEL chr6_160112584_A_C rs67581695 rs9457712 chr6_160157057_A_G rs12204454 rs6899987 rs5881336 rs80325933 rs80325933 rs75757546 chr6_160205991_A_C rs3818299 rs4709369 chr6_160208735_A_G chr6_160234074_AAC_INDEL chr6_160260145_A_G chr6_160272430_C_T chr6_160332332_C_T chr6_160335017_C_T chr6_160352497_A_G rs34136856 rs77582863 chr6_160388156_C_T chr6_160397200_G_T chr6_160412524_A_G rs9295119 chr6_160428858_A_G rs77153348 chr6_160451672_ACCGCCT_INDEL rs4709390 rs4708856 exm592399 rs12208357 exm592517 rs619598 rs619598 chr6_160578271_G_T chr6_160580496_C_T rs596881 rs596881 rs596881 rs694812 chr6_160646280_C_T rs316029

genotype difference Col_38_TS Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_CB Col_38_TS Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_12_IF Col_52_IF Col_59_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_12_CB Col_08_TS Col_12_CB Col_38_TS Col_38_IF Col_16_IF Col_59_TS Col_33_IF Col_33_IF Col_16_TS Col_38_TS Col_45_IF Col_52_IF Col_38_IF Col_33_IF

RI PT


Marker ID

260

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT TOP BOT BOT PLUS BOT BOT TOP TOP BOT BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT TOP BOT TOP BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP

[A/G] [T/C] [T/C] [T/C] [C/G] [T/G] [T/G] [I/D] [T/C] [T/C] [A/G] [A/T] [T/C] [T/C] [T/C] [A/G] [A/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [A/C] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [T/C] [A/C] [A/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

160697762 160702694 160727406 160734416 160734935 160736497 160736497 160738028 160741508 160764901 160765407 160765589 160771766 160771766 160771810 160779134 160780912 160781803 160785976 160822925 160826095 160842537 160850911 160869091 160870476 160899138 160931149 161014107 161074143 161090520 161128947 161143565 161173349 161216608 161234047 161263633 161313816 161324294 161334405 161344717 161772949 162086325 162086509 162095455 162114809 162308434 162445715 162445715 162507690 162594941 162626188 162855426 162860638 163007394 163050848 163050848 163058804 163192038 163241610 163241610

SC

M AN U TE D

AC C

EP

rs533452 rs2774221 rs435682 rs416426 rs410377 chr6_160736497_G_T chr6_160736497_G_T chr6_160738028_A_INDEL rs445849 rs506799 chr6_160765407_A_G rs637575 chr6_160771766_C_T rs639426 rs509707 rs641990 chr6_160780912_A_C chr6_160781803_A_G chr6_160785976_A_G rs3105752 rs1605964 rs3123636 chr6_160850911_C_T chr6_160869091_C_T chr6_160870476_G_T chr6_160899138_A_G chr6_160931149_A_G rs13198987 rs3011437 rs1358754 rs1652508 rs4252119 rs783172 rs2064712 rs813021 chr6_161263633_A_G rs79085151 rs73017795 rs77968450 chr6_161344717_A_G rs3798964 rs9365313 chr6_162086509_C_T rs4708920 rs9364608 rs9355947 corect_rs117021541 corect_rs117021541 rs1893551 rs871387 chr6_162626188_C_T rs13215957 chr6_162860638_G_T rs9347669 rs6911406 rs6911406 chr6_163058804_C_T rs11961035 chr6_163241610_A_G chr6_163241610_A_G

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_59_TS Col_52_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_08_TS Col_38_TS Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_33_TS Col_33_IF Col_52_IF Col_12_CB Col_08_CB Col_38_IF Col_12_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_52_IF Col_52_IF Col_12_CB Col_33_CB Col_33_IF Col_33_CB Col_33_IF Col_38_CB Col_52_IF Col_38_IF Col_52_IF Col_08_CB Col_16_IF

RI PT


Marker ID

261

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT BOT TOP TOP BOT TOP TOP BOT TOP BOT TOP TOP TOP BOT TOP TOP BOT TOP BOT BOT TOP BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP PLUS PLUS TOP BOT BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT TOP BOT TOP BOT TOP TOP TOP

[A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/C] [A/G] [T/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/G] [T/G] [T/G] [T/C] [A/C] [A/G] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G] [I/D] [I/D] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [A/G] [T/C] [A/G] [T/G] [A/G] [A/G] [A/G]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6

163241610 163241610 163241610 163286352 163286352 163435051 163435051 163562038 163578785 163587817 163629787 163635880 163673166 163677027 163709810 164008408 164015506 164097101 164320109 164324219 164451546 164667024 164998556 165040373 165066871 165072478 165164603 165295240 165591630 165706473 165765865 165779416 165818532 165837992 165837992 166037902 166183799 166183799 166299347 166299569 166485042 166572045 166572045 166572045 166603765 166624249 166893239 166945320 167333973 167461501 167461562 167466150 167756096 168410722 168442475 168456495 168542557 168543303 168564920 168576635

SC

M AN U TE D

AC C

EP

chr6_163241610_A_G chr6_163241610_A_G chr6_163241610_A_G rs9346938 rs9346938 rs6924858 rs6924858 chr6_163562038_C_T rs34774992 chr6_163587817_C_T rs9458753 rs6906182 rs9295214 rs1555064 rs10945886 rs4709725 rs12202352 rs1475161 chr6_164320109_A_G rs9458932 rs9365646 rs9346998 rs9347876 rs11968290 rs4709871 rs9364750 rs1511088 rs9347937 rs2583822 rs1105228 rs487489 chr6_165779416_A_C chr6_165818532_C_T rs9459417 rs9459417 rs12212598 chr6_166183800_A_INDEL chr6_166183800_A_INDEL rs6932405 rs4709991 chr6_166485042_C_T rs3127328 rs3127328 rs3127328 rs10428822 rs4385290 rs6926800 chr6_166945320_C_T rs9355606 rs12529876 rs10484530 kgp11138329 rs12197891 rs2843003 rs4708629 chr6_168456495_A_G rs1602283 rs6939959 rs9346527 chr6_168576635_A_G

genotype difference Col_38_TS Col_45_TS Col_52_IF Col_08_CB Col_12_IF Col_59_TS Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_52_IF Col_16_IF Col_38_TS Col_33_IF Col_38_TS Col_33_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_08_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_59_IF Col_12_IF Col_33_IF Col_52_IF Col_33_IF Col_33_CB Col_38_TS Col_52_TS Col_33_IF Col_33_IF Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_34_IF Col_33_IF Col_12_CB Col_33_IF

RI PT


Marker ID

262

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP BOT TOP BOT BOT BOT TOP BOT TOP TOP BOT BOT TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP BOT TOP BOT TOP TOP

[T/C] [A/G] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/G] [A/G] [A/C] [A/C] [C/G] [A/G] [A/C] [A/G] [A/G] [A/G] [T/C] [T/G] [T/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/C] [A/G] [T/C] [T/C] [A/C] [A/C] [T/C] [T/G] [T/G] [A/G] [T/G] [G/C] [T/C] [T/C] [T/C] [A/G] [G/C] [T/C] [A/G] [C/G] [T/G] [A/G] [T/C] [A/G] [A/C]

6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7

168620970 168630983 168738199 169084125 169211953 169352091 169369886 169434121 169458719 169503245 169506837 169635205 169635205 169644519 169731432 169733088 169915475 169994413 169995365 170330173 170331956 170331956 170517351 113319 1541276 1656264 1828038 1829899 1851205 2172455 2990009 3093297 3148092 3326129 3371579 3371961 3472629 3571289 3627799 3763146 3763146 3841629 3891289 3891289 3940792 4388142 4397935 4616061 4832371 4832371 4860572 4900991 5106686 5159711 5220892 5258938 5342413 5429478 5432672 5453953

SC

M AN U TE D

AC C

EP

chr6_168620970_C_T rs2127330 rs4708456 chr6_169084125_A_G rs4496770 rs2180332 rs9455812 rs369417 rs9455530 rs9406337 rs833681 rs11751422 rs11751422 rs57899989 rs6605538 rs7382645 chr6_169915475_C_T rs2494673 rs4716369 kgp11768983 chr6_170331956_G_T chr6_170331956_G_T chr6_170517351_C_T chr7_113319_A_G chr7_1541276_C_T corect_rs186514209 rs13238613 rs7789703 rs35273555 rs3778991 rs7806365 rs11768102 rs1872881 rs12700767 rs11981207 rs4416733 rs17133346 rs12111969 rs2614967 rs6952117 rs6952117 chr7_3841629_C_T rs12532912 rs12532912 chr7_3940792_C_T rs12534827 corect_rs117386030 chr7_4616061_A_G chr7_4832371_A_G chr7_4832371_A_G chr7_4860572_A_G chr7_4900991_C_G rs4585633 chr7_5159711_C_T chr7_5220892_C_G chr7_5258938_G_T rs11979775 corect_rs117726990 rs7791057 rs10237045

genotype difference Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_45_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_38_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_16_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_38_IF Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_16_TS Col_12_CB Col_33_CB Col_33_CB Col_12_CB Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_38_TS Col_12_CB Col_52_TS Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_33_CB Col_33_IF

RI PT


Marker ID

263

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP BOT TOP BOT BOT BOT PLUS TOP TOP TOP TOP BOT TOP TOP TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT TOP BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP BOT

[T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/G] [T/C] [I/D] [A/C] [A/C] [A/G] [A/G] [T/C] [C/G] [A/C] [A/G] [T/C] [A/C] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/G] [T/G] [A/G] [A/G] [A/C] [T/C] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/G] [A/G] [A/G] [A/C] [T/C] [A/G] [T/C] [T/C] [A/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [C/G] [T/G]

7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7

5489294 5489294 5508040 5531898 5562740 5582640 5605130 5611474 5620063 5728359 6017476 6017476 6135023 6135023 6372038 6872172 6999037 7171376 7205749 7570959 7660540 7676343 7710914 7774684 7774684 7801684 7833725 7870047 7870047 7885705 7885705 7907142 7930712 7973654 7992828 8088394 8152340 8199401 8244409 8244409 8261078 8308993 8423035 8453313 8534595 8556293 8579216 8641237 8727339 8790170 8817682 8817762 8817762 8896639 9042560 9062830 9073385 9158650 9159274 9218021

SC

M AN U TE D

AC C

EP

rs12667716 rs12667716 corect_rs117944794 corect_rs183700605 rs852432 corect_rs140595521 rs12666245 rs852496 rs6976407 chr7_5728360_INDEL_T chr7_6017476_A_C chr7_6017476_A_C chr7_6135023_A_G chr7_6135023_A_G chr7_6372038_C_T chr7_6872172_C_G chr7_6999037_A_C chr7_7171376_C_T rs4720723 rs17168516 rs12702622 rs17466737 rs13227585 rs10952069 rs10952069 chr7_7801684_C_T rs6957398 rs10952075 rs10952075 chr7_7885705_A_G chr7_7885705_A_G rs17562330 rs6976269 rs6966273 rs37944 rs10226865 rs12702698 rs2348895 chr7_8244409_A_G chr7_8244409_A_G chr7_8261078_A_G rs1558557 rs12702726 rs1007096 chr7_8534595_C_T chr7_8556293_A_C rs6955389 rs10278529 rs73676114 chr7_8790170_C_T chr7_8817682_A_C rs10280502 rs10280502 chr7_8896639_C_T rs17158339 rs10259251 chr7_9073385_C_T rs293173 chr7_9159274_C_G rs293136

genotype difference Col_38_TS Col_12_CB Col_16_TS Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_38_IF Col_12_CB Col_33_CB Col_12_CB Col_33_IF Col_34_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_38_TS Col_33_IF Col_12_CB Col_38_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_16_TS Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB

RI PT


Marker ID

264

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT TOP BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP BOT TOP TOP BOT TOP

[A/G] [A/G] [T/G] [T/G] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/A] [T/A] [T/G] [C/G] [T/C] [T/C] [T/C] [A/C] [T/C] [A/G] [T/C] [T/A] [A/G] [A/G] [T/C] [T/C] [A/C] [A/C] [A/G] [A/C] [T/C] [T/C] [A/G] [A/G] [G/C] [T/C] [T/C] [A/G] [A/G] [T/A] [T/A] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [A/G] [T/C] [T/G] [C/G] [T/C] [A/G] [A/G] [T/C] [A/G]

7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7

9312300 9312300 9385303 9385303 9412730 9518522 9550478 9607852 9620759 9637524 9647486 9659255 9659255 9659662 9678967 9685210 9689736 9712539 9821727 9826825 9837098 9868553 9883039 9998779 10265600 10283962 10283962 10299080 10299080 10303377 10348223 10383638 10468765 10554750 10593658 10608467 10649207 10671985 10678939 10678939 10698718 10698718 10701741 10836089 10836487 10902381 11027377 11027377 11039740 11130664 11144030 11216782 11246692 11277857 11300701 11403405 11602899 11615654 11682138 11699711

SC

M AN U TE D

AC C

EP

chr7_9312300_C_T chr7_9312300_C_T rs4313076 rs4313076 rs12702898 rs2709097 rs12702917 rs2709073 rs4639407 rs2657245 rs12533525 rs10225058 rs10225058 chr7_9659662_G_T rs73051040 rs73051066 rs1505341 chr7_9712539_C_T rs10224861 rs1399487 rs12672973 rs161089 chr7_9883039_A_T rs6955008 rs7802767 rs73675695 rs73675695 rs17162827 rs17162827 rs766549 rs13244651 rs17442517 rs6946433 rs1013719 rs17163246 chr7_10608467_C_G rs10952224 rs1557999 rs55968145 rs55968145 chr7_10698718_A_T chr7_10698718_A_T rs2352452 rs12673360 rs979058 rs6952827 corect_rs149209243 corect_rs149209243 chr7_11039740_A_G rs2906553 rs6954805 rs10234187 rs17164013 rs10267548 chr7_11300701_C_G chr7_11403405_C_T rs16 rs12699246 rs1725449 chr7_11699711_A_G

genotype difference Col_08_IF Col_52_IF Col_16_TS Col_33_IF Col_12_CB Col_08_TS Col_38_CB Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_16_CB Col_52_CB Col_52_IF Col_33_IF Col_16_TS Col_33_IF Col_52_IF Col_52_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_52_CB Col_33_IF Col_16_IF Col_52_IF Col_16_CB Col_52_IF Col_52_IF Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_52_CB Col_52_IF Col_12_TS Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

265

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP BOT BOT MINUS MINUS MINUS PLUS PLUS PLUS PLUS PLUS TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP BOT TOP TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP BOT TOP BOT BOT TOP BOT BOT TOP TOP BOT BOT BOT TOP BOT TOP

[T/C] [T/C] [A/C] [T/G] [T/C] [D/I] [D/I] [D/I] [I/D] [I/D] [I/D] [I/D] [I/D] [A/G] [A/G] [A/G] [G/C] [T/C] [T/C] [T/G] [A/G] [A/G] [C/G] [T/C] [A/G] [A/G] [A/G] [A/C] [T/C] [A/G] [A/G] [A/C] [T/C] [T/G] [T/C] [A/G] [T/C] [T/C] [T/G] [T/C] [A/G] [A/C] [A/C] [T/C] [A/G] [T/G] [A/C] [T/A] [T/A] [A/G] [T/C] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G]

7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7

11745609 11767633 11806005 11893555 11916354 11916786 11916786 11916786 11916787 11916787 11916787 11916787 11916787 12000154 12007154 12007154 12073527 12127252 12166784 12170496 12175556 12196391 12226015 12245606 12308175 12328567 12422721 12429488 12491847 12533065 12604371 12614638 12693392 12697630 12708420 12709353 12774492 12774492 12817829 12822398 12875858 12990038 13074317 13214998 13448100 13520443 13551373 13576377 13576377 13693060 13734725 13739253 13801764 13852206 13955324 13961306 14003105 14004710 14118349 14170925

SC

M AN U

TE D

rs10950364 rs13307585 chr7_11806005_G_T rs10259581 rs10253052 chr7_11916786_CG_INDEL chr7_11916786_CG_INDEL chr7_11916786_CG_INDEL chr7_11916788_AAGTAGTAT_INDEL chr7_11916788_AAGTAGTAT_INDEL chr7_11916788_AAGTAGTAT_INDEL chr7_11916788_AAGTAGTAT_INDEL chr7_11916788_AAGTAGTAT_INDEL rs2966628 rs17577569 rs17577569 chr7_12073527_C_G rs10271169 rs4721036 rs4721042 rs6955418 rs12536822 chr7_12226015_C_G rs13240394 rs7808979 chr7_12328567_C_T rs12699367 rs848013 rs1100135 rs847919 rs6954111 rs2215063 chr7_12693392_C_T rs13224841 chr7_12708420_C_T chr7_12709353_C_T chr7_12774492_C_T chr7_12774492_C_T rs4719334 rs16877556 rs12699421 rs4721166 rs17166626 corect_rs145668018 chr7_13448100_C_T rs1347075 rs2723398 chr7_13576377_A_T chr7_13576377_A_T rs17167319 rs2214867 chr7_13739253_A_C rs11768005 chr7_13852206_C_T chr7_13955324_C_T rs17167656 chr7_14003105_C_T rs757699 rs765001 rs17167907

genotype difference Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_38_IF Col_16_TS Col_38_IF Col_45_IF Col_52_IF Col_12_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_52_IF Col_52_TS Col_38_CB Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_38_IF Col_12_TS Col_52_TS Col_16_TS Col_33_IF Col_52_IF Col_33_IF Col_52_CB Col_52_TS Col_16_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_52_IF Col_52_CB Col_16_IF Col_12_CB Col_52_IF Col_33_IF

RI PT


Marker ID

266

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP TOP BOT BOT TOP BOT TOP TOP BOT TOP BOT TOP BOT TOP BOT BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT TOP TOP BOT TOP TOP TOP TOP TOP MINUS BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT

[A/G] [C/G] [A/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [A/C] [T/C] [A/G] [T/C] [A/C] [T/C] [A/C] [T/C] [T/C] [A/G] [A/G] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [A/G] [T/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/C] [A/G] [A/C] [D/I] [T/C] [A/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [T/G] [T/G] [T/G] [A/G] [A/G] [T/C] [A/G] [T/C]

7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7

14192611 14215788 14270475 14275432 14288573 14431799 14490193 14493460 14494842 14596480 14719872 14737999 14842034 14857399 14891202 14960988 14963217 14996843 15048814 15100749 15113866 15114926 15134349 15134349 15138424 15140690 15221249 15221999 15264585 15273717 15279488 15496808 15506789 15745324 15745324 15747273 15758899 15771599 15771799 15775095 15859501 16019599 16024528 16127297 16144157 16177852 16177852 16177852 16177852 16211816 16242073 16263268 16274120 16367282 16503724 16531836 16560898 16564423 16572051 16599762

SC

M AN U TE D

AC C

EP

rs7777178 chr7_14215788_C_G rs985105 chr7_14275432_C_T rs12537544 chr7_14431799_C_T rs17651211 rs987449 rs1431520 chr7_14596480_A_G rs1357861 rs1568846 rs7784714 chr7_14857399_C_T rs975689 rs10276360 chr7_14963217_A_C rs7811800 rs6976381 rs17348054 rs62450376 rs6971261 rs12155180 rs12155180 chr7_15138424_C_T rs9648196 chr7_15221249_C_T rs4489212 rs7777548 rs6954271 rs10263318 chr7_15496808_G_T chr7_15506789_A_G rs6942413 rs6942413 rs17169004 rs10226819 rs17340395 rs37407 rs10249588 rs12531519 chr7_16019599_INDEL_TC chr7_16024528_C_T rs12539174 rs10950603 chr7_16177852_C_T chr7_16177852_C_T chr7_16177852_C_T chr7_16177852_C_T rs1012402 rs1527226 rs4721481 rs6974124 rs6973038 rs17619858 rs2158793 rs10214948 chr7_16564423_C_T rs1404171 rs7780726

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_38_CB Col_33_IF Col_52_CB Col_08_IF Col_33_IF Col_38_CB Col_16_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_45_TS Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_16_TS Col_33_IF Col_33_IF Col_34_CB Col_52_IF Col_33_CB Col_08_TS Col_16_IF Col_52_IF Col_12_IF Col_33_IF Col_12_CB Col_33_IF Col_52_TS Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

267

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP TOP BOT BOT TOP BOT BOT BOT TOP BOT TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP BOT TOP

[T/C] [T/C] [T/C] [A/G] [T/C] [A/C] [A/C] [A/C] [A/G] [G/C] [G/C] [A/G] [A/G] [T/C] [T/G] [A/G] [T/C] [T/C] [T/G] [A/G] [T/C] [A/G] [A/C] [T/C] [T/C] [A/G] [A/G] [T/G] [T/G] [T/C] [T/C] [A/G] [T/C] [T/G] [T/C] [T/G] [A/G] [A/C] [T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [T/C] [A/G] [A/G] [T/G] [T/G] [T/C] [T/G] [T/C] [A/G] [T/C] [T/G] [A/G] [T/G] [A/C]

7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7

16700447 16740554 16759108 16785610 16788739 16851612 16878113 16886964 16932926 16942915 16942915 16968409 16968509 17082894 17111402 17142276 17296072 17448444 17472677 17478097 17490691 17495669 17533687 17554444 17554444 17605070 17679522 17687722 17722452 17810108 17813677 17995976 18017943 18093358 18113850 18171029 18186306 18233458 18268749 18373171 18384157 18411255 18411255 18446741 18449665 18554092 18621679 18633901 18635619 18674040 18691879 18763844 18787563 18836667 18860014 18964076 18968003 18993249 19055703 19250387

SC

M AN U TE D

AC C

EP

rs11771285 rs1459558 chr7_16759108_C_T chr7_16785610_A_G rs2693095 rs10085446 rs10232481 rs1525741 rs4582450 rs74506643 rs74506643 chr7_16968409_A_G rs847396 rs4721562 rs11981130 chr7_17142276_A_G rs17137472 rs6461315 rs12699853 chr7_17478097_A_G rs655478 rs1868361 rs12699858 rs7785619 rs7785619 rs1448673 rs1990467 rs10225730 chr7_17722452_G_T chr7_17810108_C_T rs2723520 chr7_17995976_C_T rs12669067 rs7804628 chr7_18113850_A_G rs1178370 rs12699970 rs1178328 chr7_18268749_C_T chr7_18373171_A_C chr7_18384157_C_T chr7_18411255_C_T chr7_18411255_C_T rs17169602 rs2162562 kgp6883538 chr7_18621679_C_T chr7_18633901_A_G rs2695026 rs2285430 chr7_18691879_G_T chr7_18763844_C_T rs1178163 rs12540872 chr7_18860014_A_G rs12700014 rs10226243 rs11505418 rs10255384 rs10253644

genotype difference Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_CB Col_33_IF Col_33_CB Col_34_TS Col_12_TS Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_45_TS Col_33_IF Col_33_IF Col_16_CB Col_12_CB Col_12_IF Col_52_IF Col_33_IF Col_38_IF Col_12_CB Col_33_IF Col_52_CB Col_34_CB Col_33_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_CB Col_33_IF Col_38_TS Col_33_IF Col_33_CB

RI PT


Marker ID

268

IlmnStrand

SNP

Chr

MapInfo

PLUS PLUS TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT TOP TOP BOT BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT MINUS BOT BOT BOT BOT BOT TOP TOP TOP MINUS TOP TOP BOT PLUS MINUS BOT BOT

[D/I] [D/I] [A/G] [A/G] [A/G] [T/C] [T/G] [T/G] [T/C] [T/C] [A/G] [A/T] [A/C] [T/C] [A/G] [T/C] [T/G] [A/G] [A/C] [A/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/G] [A/C] [A/C] [T/C] [T/C] [A/C] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [I/D] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [A/C] [A/C] [D/I] [A/G] [A/G] [T/C] [I/D] [D/I] [T/C] [T/C]

7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7

19321012 19321012 19371790 19422419 19532084 19541920 19547138 19547138 19592673 19611630 19616522 19616542 19661286 19687779 19711762 19719456 19760411 19788403 19894101 19903954 19999873 19999873 20152801 20251640 20371232 20429735 20487120 20509202 20565735 20647060 20670610 20706430 20706631 20744543 20754254 20764374 20840256 20840256 20840256 20891520 20896062 20972111 20989862 21033218 21059378 21069563 21101947 21148692 21148879 21192264 21202828 21296092 21342912 21373772 21404787 21431809 21433027 21487894 21516100 21610296

SC

M AN U TE D

AC C

EP

chr7_19321012_C_INDEL chr7_19321012_C_INDEL rs7796931 chr7_19422419_C_T rs7787541 rs7810842 rs10234065 rs10234065 rs17141582 rs11486800 chr7_19616522_C_T chr7_19616542_A_T rs13235383 rs1476882 rs6974308 rs11771348 chr7_19760411_G_T rs12666488 rs13243056 rs764131 rs2390205 rs2390205 chr7_20152801_C_T rs3095009 chr7_20371232_C_T rs2189300 rs10270074 chr7_20509202_A_G chr7_20565735_A_C chr7_20647060_G_T chr7_20670610_G_T kgp13621074 kgp13722811 rs2158855 chr7_20754254_C_T rs10950831 chr7_20840256_A_G chr7_20840256_A_G chr7_20840256_A_G chr7_20891520_C_T chr7_20896062_A_G chr7_20972111_A_C chr7_20989862_C_T chr7_21033225_A_INDEL chr7_21059378_A_G chr7_21069563_A_G chr7_21101947_A_G chr7_21148692_A_G chr7_21148879_A_C rs4473915 rs7781186 chr7_21296092_A_C chr7_21342912_C_INDEL rs2057999 chr7_21404787_A_G rs4389830 chr7_21433027_A_INDEL chr7_21487894_AAG_INDEL chr7_21516100_A_G rs12669957

genotype difference Col_16_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_CB Col_12_CB Col_33_IF Col_38_CB Col_33_CB Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_16_CB Col_12_TS Col_38_CB Col_12_CB Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_16_TS Col_12_CB Col_45_IF Col_52_TS Col_12_IF Col_52_TS Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_12_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_16_IF Col_52_CB Col_16_IF

RI PT


Marker ID

269

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP BOT TOP BOT TOP TOP BOT TOP TOP TOP BOT TOP TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT

[T/C] [T/C] [T/C] [T/G] [T/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/C] [A/G] [T/C] [A/C] [A/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [T/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [A/G] [A/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [A/C] [A/C] [T/C] [A/G] [A/G] [C/G] [A/G] [T/A]

7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7

21915464 21932317 22079598 22083233 22233813 22242535 22316308 22326193 22385661 22598742 22811921 22872704 23028041 23220235 23483815 23564767 23652561 23684965 23738221 23811800 23828207 23833243 24177538 24356504 24433001 24444777 24468285 24490073 24529055 24645082 24648024 24680053 24701995 24727355 24734004 24734004 24890808 24932346 24966446 25023441 25089059 25128788 25262594 25266616 25299989 25380101 25474384 25606273 25814109 25861138 25888067 25936614 26237609 26237609 26371279 26388832 26427889 26455770 26508020 26820637

SC

M AN U TE D

AC C

EP

chr7_21915464_A_G rs9639401 rs1174952 rs1619250 rs3813383 rs4719687 rs1636899 rs17146555 chr7_22385661_C_T rs9655226 rs10950917 chr7_22872704_A_G rs2286705 rs10254544 rs12540730 rs17150424 rs13227748 rs10253843 chr7_23738221_C_T rs10247878 rs7782946 rs7791283 rs198729 rs1012768 rs2521646 rs4956 rs7796645 rs7782559 rs2711111 chr7_24645082_C_T chr7_24648024_A_C rs2711132 rs6943306 chr7_24727355_A_G rs75543068 rs75543068 rs10238784 rs10486438 rs123 rs179 rs4236318 rs39446 rs739749 chr7_25266616_G_T rs2107124 rs12700609 rs720847 rs2999577 rs4719826 rs12535837 chr7_25888067_A_G rs12536040 chr7_26237609_A_C chr7_26237609_A_C rs6461929 rs3801888 rs1406593 rs1229674 rs6963302 chr7_26820637_A_T

genotype difference Col_52_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_38_TS Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_34_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_45_CB Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_12_CB Col_12_CB Col_12_CB Col_38_TS Col_12_CB Col_33_IF Col_08_TS

RI PT


Marker ID

270

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT TOP TOP MINUS TOP BOT BOT TOP TOP TOP BOT BOT BOT TOP BOT BOT BOT PLUS TOP TOP BOT BOT TOP PLUS TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT TOP

[T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [T/C] [A/C] [A/G] [D/I] [A/G] [G/C] [T/G] [A/T] [A/C] [A/C] [T/C] [T/G] [T/C] [A/G] [T/C] [T/C] [T/C] [I/D] [A/G] [A/C] [T/C] [T/C] [A/G] [I/D] [A/G] [G/C] [G/C] [T/C] [T/G] [T/C] [A/G] [T/A] [T/A] [T/A] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [C/G]

7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7

26838990 26883169 26928040 26941344 26964182 27108127 27311801 27353904 27356635 27372021 27484471 27588342 27607747 27611847 27621365 27631631 27642318 27643141 27648351 27649020 27697939 27723870 27740201 27776465 27786666 27803521 27809980 27810037 27823084 27824635 27824635 27827903 27842918 27851055 27854043 27854043 27860762 27882316 27890947 27892144 27943464 27943464 27943464 27951021 27961643 27962659 27972593 27974243 27989862 28003516 28004717 28030486 28037886 28087525 28095967 28095967 28095967 28115253 28116172 28146305

SC

M AN U TE D

AC C

EP

chr7_26838990_G_T chr7_26883169_A_G chr7_26928040_C_T chr7_26941344_C_T kgp9917608 rs2465274 rs11563584 chr7_27353904_A_G chr7_27356635_A_C rs10155834 chr7_27484471_A_C chr7_27588342_A_G chr7_27607747_INDEL_TC chr7_27611847_C_T chr7_27621365_C_G chr7_27631631_A_C chr7_27642318_A_T chr7_27643141_G_T c7_pos27614876 chr7_27649020_C_T chr7_27697939_A_C chr7_27723870_C_T chr7_27740201_C_T chr7_27776465_C_T chr7_27786666_C_T chr7_27803521_A_G chr7_27809980_ATT_INDEL chr7_27810037_A_G chr7_27823084_A_C chr7_27824635_A_G chr7_27824635_A_G chr7_27827903_C_T chr7_27842918_A_INDEL chr7_27851055_A_G chr7_27854043_C_G chr7_27854043_C_G chr7_27860762_A_G chr7_27882316_G_T chr7_27890947_C_T chr7_27892144_C_T chr7_27943464_A_T chr7_27943464_A_T chr7_27943464_A_T rs217 chr7_27961643_C_T chr7_27962659_A_G chr7_27972593_C_T chr7_27974243_C_T chr7_27989862_C_T chr7_28003516_C_T chr7_28004717_A_C chr7_28030486_C_T chr7_28037886_C_T chr7_28087525_C_T chr7_28095967_C_T chr7_28095967_C_T chr7_28095967_C_T chr7_28115253_C_T chr7_28116172_A_G chr7_28146305_C_G

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_38_CB Col_52_IF Col_33_IF Col_12_CB Col_12_CB Col_38_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_08_TS Col_33_IF Col_12_CB Col_33_IF Col_38_CB Col_33_CB Col_38_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_16_TS Col_33_CB Col_38_TS Col_33_IF Col_33_IF Col_12_CB

RI PT


Marker ID

271

IlmnStrand

SNP

Chr

MapInfo

MINUS BOT PLUS BOT BOT TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP TOP BOT BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP BOT BOT TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT

[D/I] [T/C] [D/I] [T/C] [T/C] [A/G] [A/G] [T/C] [T/G] [T/G] [A/G] [T/C] [A/C] [A/C] [T/C] [A/C] [A/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/T] [A/T] [A/C] [T/G] [C/G] [A/G] [T/G] [T/C] [A/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/C] [T/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C]

7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7

28176370 28266383 28271388 28277811 28316031 28371537 28429243 28474345 28532464 28532464 28558705 28574273 28689433 28689433 28704218 28708073 28757611 28949597 29001210 29260018 29413879 29760273 29772138 29917385 29991995 30243357 30251267 30251267 30267092 30365310 30406043 30531653 30994911 31023278 31066593 31303730 31303730 31319422 31358060 31358060 31526529 31768673 31902703 32034799 32167619 32167619 32228302 32311672 32700515 32706934 32843795 32888045 32995331 33239007 33239007 33239843 33272814 33346932 33476376 33536947

SC

M AN U TE D

AC C

EP

chr7_28176370_C_INDEL chr7_28266383_C_T chr7_28271388_INDEL_TG chr7_28277811_A_G chr7_28316031_A_G chr7_28371537_C_T chr7_28429243_A_G chr7_28474345_A_G rs4722804 rs4722804 rs11980665 chr7_28574273_C_T chr7_28689433_G_T chr7_28689433_G_T chr7_28704218_A_G chr7_28708073_G_T chr7_28757611_G_T chr7_28949597_A_G chr7_29001210_C_T rs245934 rs7794652 chr7_29760273_A_G rs850086 rs917145 rs4722964 rs12535035 rs10246870 rs10246870 rs6965065 chr7_30365310_G_T chr7_30406043_C_G chr7_30531653_C_T rs4723034 chr7_31023278_C_T rs1894847 chr7_31303730_A_G chr7_31303730_A_G rs11762801 rs1558434 rs1558434 rs16875548 rs12532450 rs3922299 rs4723120 rs32304 rs32304 rs6978495 rs1450869 rs1839580 chr7_32706934_C_T rs4720078 rs62467360 rs4720087 rs17170110 rs17170110 corect_rs117722687 chr7_33272814_A_G rs10253342 rs1419926 rs13227256

genotype difference Col_12_CB Col_33_IF Col_33_CB Col_33_CB Col_33_IF Col_12_CB Col_12_CB Col_52_CB Col_33_IF Col_52_IF Col_33_CB Col_12_IF Col_38_CB Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_38_TS Col_52_IF Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_12_TS Col_33_IF Col_16_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_12_CB

RI PT


Marker ID

272

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP BOT TOP TOP TOP TOP BOT TOP TOP BOT TOP BOT BOT BOT TOP TOP BOT TOP BOT TOP TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT TOP BOT BOT TOP BOT TOP BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP BOT TOP BOT

[T/G] [T/C] [A/G] [A/G] [T/G] [A/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/A] [A/G] [T/C] [T/G] [T/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/C] [A/G] [A/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/C] [A/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/G] [A/C] [T/C]

7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7

33554162 33662618 33696721 33749773 33750141 33944535 34038414 34193952 34293293 34467317 34493607 34493607 34600627 34688425 34719549 35120352 35131294 35280947 35392897 35394378 35564882 35626559 35894239 36437671 36466655 36499921 36625156 37110289 37111356 37199569 37341710 37374510 37436929 37534044 37534044 37534044 37584705 37603812 37675572 37719133 37742031 37935150 37940824 37977116 38435447 38454797 38546848 38626520 38634185 38695210 38796570 38873858 38873937 39060267 39211106 39242508 39345684 39540140 39716368 40162586

SC

M AN U TE D

AC C

EP

rs12674093 rs2034515 rs17170329 chr7_33749773_A_G rs12701320 chr7_33944535_A_C rs17169617 rs17169667 rs2392265 rs7790986 rs6968672 rs6968672 chr7_34600627_A_T rs2609234 rs2531841 rs17800067 kgp11480458 rs2240994 rs10486663 rs340373 chr7_35564882_C_T rs17678399 rs10232178 rs197361 rs3815484 rs10227096 rs2392450 rs880865 chr7_37111356_C_T rs11768811 rs4720241 rs6974491 rs1882077 rs10237799 rs10237799 rs10237799 rs17171090 chr7_37603812_G_T rs6462780 chr7_37719133_A_G rs17171134 chr7_37935150_A_G rs7811420 chr7_37977116_C_T rs6953928 rs2299946 rs3807411 chr7_38626520_C_T rs6962805 chr7_38695210_A_G rs2240350 chr7_38873858_C_T rs12533017 rs17255994 rs17171546 rs4472423 rs6962816 rs6949167 chr7_39716368_A_C rs13233333

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_CB Col_12_CB Col_33_IF Col_52_IF Col_59_TS Col_16_IF Col_52_IF Col_33_IF Col_52_IF Col_52_CB Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_38_TS Col_16_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_38_TS Col_52_IF Col_33_IF Col_38_IF Col_12_CB Col_52_CB Col_52_CB Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_CB Col_52_TS Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF

RI PT


Marker ID

273

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT TOP TOP BOT TOP BOT BOT TOP BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP BOT TOP BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP BOT TOP BOT BOT TOP TOP BOT BOT TOP BOT TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT TOP

[A/G] [A/G] [T/C] [T/C] [T/C] [A/C] [A/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/C] [A/C] [A/C] [A/C] [A/C] [T/C] [A/G] [T/C] [A/G] [T/G] [G/C] [T/C] [A/G] [A/G] [A/G] [T/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/G] [T/G] [A/G] [A/C] [T/A] [T/C] [A/G] [T/C] [A/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G]

7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7

40307178 40693151 40760498 40887010 41046770 41176030 41176030 41431684 41519437 41569108 41696061 41707793 41988488 42210292 42434846 42501585 42503417 42503417 42605660 42605660 42786613 42786613 42786613 42949101 43252171 43293718 43398963 43969408 45185278 45196053 45248202 45253436 45267580 45283529 45428369 45581268 45698253 45932600 45949570 45950446 45953812 46160929 46450230 46558855 46570611 46811178 46918904 46959491 46987509 47008390 47261581 47440225 47445641 47445641 47601082 47829266 47896089 48043659 48141472 48222948

SC

M AN U TE D

AC C

EP

rs4129802 rs4492257 rs735303 kgp11268412 chr7_41046770_A_G rs2108157 rs2108157 rs273188 rs568520 chr7_41569108_C_T chr7_41696061_A_G chr7_41707793_C_T rs6463079 chr7_42210292_C_T rs1073164 rs2877149 chr7_42503417_A_G chr7_42503417_A_G rs4367431 rs4367431 rs62457858 rs62457858 rs62457858 rs1048423 chr7_43252171_A_G rs17723390 rs2052148 rs2079390 rs10225913 rs6463265 rs1294881 chr7_45253436_A_G rs73102061 chr7_45283529_G_T rs1969508 rs10951822 rs2960288 rs4988515 rs2270628 rs10282088 rs2453840 chr7_46160929_C_T rs10275461 rs6463333 rs12535902 rs12668204 chr7_46918904_A_G rs917132 chr7_46987509_A_G rs929341 rs893525 chr7_47440225_C_T chr7_47445641_A_G chr7_47445641_A_G chr7_47601082_C_T chr7_47829266_C_T rs6947342 chr7_48043659_C_T exm620361 chr7_48222948_C_T

genotype difference Col_12_CB Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_16_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_33_CB Col_33_IF Col_52_TS Col_34_TS Col_12_CB Col_16_IF Col_38_CB Col_45_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_38_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_16_CB Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_34_TS Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_52_CB Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_CB Col_33_CB Col_59_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

274

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT TOP PLUS BOT BOT TOP BOT TOP TOP BOT BOT TOP BOT TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP TOP BOT BOT TOP BOT

[A/G] [A/G] [T/G] [A/G] [I/D] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/G] [T/C] [T/C] [T/G] [T/C] [A/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/G] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [A/C] [A/C] [A/C] [A/C] [A/G] [T/C] [T/C] [A/C] [A/G] [T/C] [T/C] [A/G] [T/C]

7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7

48627470 48686032 48686600 48722168 48758970 48805301 48805301 48850987 48876014 48981329 49017001 49378273 49460153 49462209 49616203 49672367 49706591 50012321 50119502 50361683 50512284 50802434 50881795 51137856 51165130 51277376 51682401 51825899 51829861 51999888 52240990 52265380 52305206 52306639 52472450 52516374 52548691 52548691 52554862 52764733 52767350 52802167 52846014 52857194 53011910 53282512 53292132 53331061 53368683 53368683 53368683 53537843 53652608 53836381 53870862 54006503 54019032 54041574 54058186 54232247

SC

M AN U TE D

AC C

EP

rs1527837 rs3923511 rs6955686 rs7809837 chr7_48758971_A_INDEL chr7_48805301_C_T chr7_48805301_C_T rs2363131 chr7_48876014_C_T rs7802229 rs2364008 rs2217465 rs2023965 rs2365053 chr7_49616203_A_G rs6953677 rs6961746 chr7_50012321_C_T rs1911754 rs6583440 rs2305358 rs6968827 chr7_50881795_A_G rs17799219 rs10899772 rs801139 chr7_51682401_A_G rs1008386 rs2537505 rs372475 rs4413723 rs12673349 rs4286900 rs10227794 rs1012036 rs10277927 rs984197 rs984197 rs6972820 rs1729831 chr7_52767350_A_C chr7_52802167_A_G rs2965507 rs971648 rs11760600 chr7_53282512_C_T rs6956230 rs6945046 rs55846311 rs55846311 rs55846311 rs17692753 rs2059407 rs6966615 rs1406637 chr7_54006503_A_G rs6942618 rs1405425 chr7_54058186_C_T chr7_54232247_A_G

genotype difference Col_33_IF Col_33_IF Col_52_TS Col_38_TS Col_33_IF Col_16_IF Col_52_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_12_CB Col_16_IF Col_38_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_12_CB Col_34_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_34_IF Col_38_CB Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_08_TS Col_08_TS Col_12_CB Col_33_CB Col_33_CB Col_16_IF Col_33_CB Col_52_IF Col_08_IF Col_34_CB Col_12_CB Col_33_IF Col_52_CB Col_52_CB Col_12_CB Col_33_IF Col_16_TS

RI PT


Marker ID

275

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP TOP BOT BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT

[T/C] [T/C] [A/G] [A/C] [T/C] [A/C] [A/C] [A/G] [T/C] [T/G] [G/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/G] [A/C] [A/G] [A/C] [T/G] [T/C] [T/C] [T/C] [A/C] [A/G] [A/T] [A/T] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/C] [A/C] [T/C] [T/C] [A/G] [A/G] [A/C] [A/G] [A/G] [T/C]

7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7

54324299 54717529 54825019 54890409 55005796 55065449 55065449 55094705 55172768 55203297 55265940 55390990 55442775 55715496 55893310 55905896 55944254 56294281 56348924 56727631 56760226 56833052 57295015 57332230 57372536 57530627 57595593 61778241 61888557 62074781 62113011 62241041 62241668 62656497 62827491 63739470 63962963 63980233 63983681 63983681 64284959 64292695 64397931 64403082 64566009 64679561 64745413 64762394 64864800 65202326 65846275 65846275 66032955 66506086 66962579 66962579 67109115 67352771 67352771 67434847

SC

M AN U TE D

AC C

EP

kgp225348 rs568201 rs2256906 rs10281305 chr7_55005796_A_G rs13243259 rs13243259 chr7_55094705_A_G rs2110290 rs6947594 rs2472520 rs2177808 rs11974368 rs3935167 chr7_55893310_C_T rs10230845 rs6593288 rs1722282 rs940494 rs2634107 rs10243656 rs10229556 rs4401792 rs10480917 rs6557570 kgp4531772 chr7_57595593_A_G chr7_61778241_A_G chr7_61888557_G_T rs12669087 rs8188332 rs13242011 rs4718203 rs4718878 kgp2044361 chr7_63739470_C_T rs1885912 rs4717195 chr7_63983681_A_T chr7_63983681_A_T rs7792444 rs6460195 rs12534485 rs79314686 rs1709517 rs2900856 rs6460232 chr7_64762394_A_G rs4122883 rs6460259 rs778720 rs778720 rs801191 rs6974864 rs10249596 rs10249596 rs6952180 rs1600879 rs1600879 rs12673611

genotype difference Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_52_IF Col_33_CB Col_33_IF Col_52_TS Col_34_CB Col_33_IF Col_33_IF Col_12_CB Col_52_TS Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_08_IF Col_34_CB Col_33_IF Col_33_IF Col_38_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_33_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_16_TS Col_33_IF Col_33_IF Col_38_TS Col_52_TS Col_33_CB Col_16_TS Col_38_TS Col_12_CB

RI PT


Marker ID

276

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP

[T/C] [T/A] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/C] [A/G] [T/C] [T/C] [A/G] [A/C] [T/C] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/G] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/C] [T/C] [A/C] [A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G]

7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7

67473231 67757237 68000942 68061765 68104188 68326660 68569292 68673096 69210523 69731460 69936332 70533310 70572266 70585797 70722423 71138339 71470001 71521799 71641264 71967583 72904810 74282675 75059630 75985552 76510219 76514143 76810993 77055836 77233827 77314818 77443514 77602832 77660364 77693091 77693385 77741395 77836723 77845098 77958122 77962151 77984798 78019346 78019476 78019476 78066878 78109304 78141660 78199699 78219089 78303699 78536207 78575481 78664922 78693250 78858392 78963773 78971036 79000456 79000456 79029377

SC

M AN U TE D

AC C

EP

rs10274191 chr7_67757237_A_T chr7_68000942_C_T rs10950139 rs10280848 rs10237067 rs2103036 rs1543239 rs7793984 chr7_69731460_C_T chr7_69936332_A_G rs12698994 rs10265996 rs11762189 rs17142997 rs10231680 rs1099451 rs844762 rs10807744 rs6460021 rs17145713 kgp2869084 kgp678557 chr7_75985552_A_G rs2868248 rs17722062 rs17544690 chr7_77055836_C_T rs1972568 rs12113119 chr7_77443514_C_T rs848458 rs2428924 rs6977382 rs6977897 rs3807730 rs10256412 rs6959540 rs798309 rs17150542 rs78006312 rs13223430 rs1468596 rs1468596 rs10266582 rs12667712 rs6947977 chr7_78199699_A_G chr7_78219089_G_T rs9886142 rs12705833 rs1642888 chr7_78664922_A_G rs2191719 rs2056753 rs7811833 rs10499842 rs10237230 rs10237230 rs10261439

genotype difference Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_38_TS Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_38_TS Col_33_IF Col_33_IF Col_52_TS Col_34_CB Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_45_TS Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_CB Col_33_IF Col_16_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_38_TS

RI PT


Marker ID

277

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT TOP PLUS TOP TOP PLUS PLUS MINUS BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP BOT TOP TOP BOT TOP BOT TOP BOT TOP BOT TOP TOP TOP

[A/G] [A/G] [A/C] [A/C] [A/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [G/C] [T/C] [T/G] [A/G] [D/I] [A/C] [A/G] [D/I] [D/I] [I/D] [T/C] [A/C] [A/G] [G/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/G] [T/C] [T/C] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [A/G] [T/G] [A/G] [A/C] [T/C] [A/G] [T/C] [A/C] [T/C] [A/G] [T/C] [A/T] [A/T] [A/G]

7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7

79029377 79124213 79221707 79248120 79293811 79338211 79644412 79659914 79701003 79723943 80040648 80082634 80123999 80177084 80219350 80233088 80252518 80256759 80282092 80282092 80300397 80315791 80453333 80504737 80539206 80566789 80648073 80652059 80812355 80812398 80869330 80889355 80950176 80986411 81031024 81092205 81273423 81309505 81521295 81600267 81609774 81609774 81671447 81755870 81805657 81868265 81880361 82001859 82053091 82183868 82225621 82238638 82251883 82371376 82384766 82430654 82509435 82555669 82555669 82775328

SC

M AN U

TE D

rs10261439 chr7_79124213_A_G rs12534777 rs6955922 rs2714675 rs2689790 rs728459 rs17153268 rs4731190 rs6945349 rs471683 chr7_80082634_C_G rs6975345 rs819454 chr7_80219350_C_T chr7_80233088_AAAAAAAG_INDEL rs4545029 chr7_80256759_C_T chr7_80282092_G_INDEL chr7_80282092_G_INDEL chr7_80300397_ACA_INDEL chr7_80315791_A_G rs2030925 chr7_80504737_A_G chr7_80539206_C_G rs17154598 rs4019352 rs853107 rs7797263 rs7797400 chr7_80869330_C_T chr7_80889355_C_T chr7_80950176_A_G chr7_80986411_A_G rs10271086 chr7_81092205_A_G rs10276241 rs1029568 rs1733623 rs1229504 rs37087 rs37087 chr7_81671447_A_G rs258690 rs1156450 rs10275727 rs38554 rs12536871 chr7_82053091_A_G rs11760881 chr7_82225621_C_T chr7_82238638_C_T rs10267783 rs6956744 chr7_82384766_C_T rs12667348 rs10250881 chr7_82555669_A_T chr7_82555669_A_T rs10081314

genotype difference Col_45_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_08_TS Col_33_IF Col_33_CB Col_52_IF Col_33_IF Col_33_CB Col_38_TS Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_38_TS Col_12_CB Col_12_TS Col_12_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_CB Col_12_TS Col_33_IF Col_33_IF Col_52_TS Col_52_CB

RI PT


Marker ID

278

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT TOP BOT BOT PLUS BOT TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP MINUS BOT BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT TOP BOT TOP TOP MINUS TOP BOT TOP

[A/G] [A/G] [T/C] [A/C] [A/C] [T/C] [T/C] [T/C] [T/C] [A/C] [T/G] [T/G] [A/G] [T/C] [A/G] [A/C] [A/G] [A/G] [A/C] [A/G] [T/C] [T/C] [A/C] [T/G] [T/G] [I/D] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/C] [T/G] [T/C] [T/C] [T/C] [T/C] [A/T] [C/G] [I/D] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/A] [A/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [D/I] [A/C] [T/C] [A/G]

7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7

82835999 82835999 82871082 82965793 82965793 83056950 83078033 83109037 83133378 83149564 83206573 83206573 83211117 83518131 83583757 83642555 83659577 83659577 83691571 83782839 83908587 83908587 83944506 83982343 84081186 84152696 84243643 84305487 84346026 84359284 84532628 84861335 84946665 85030592 85124635 85239145 85415440 85415440 85442461 85570408 85637769 85709526 85814138 85814138 85952083 86074295 86074295 86085024 86123682 86457525 86542996 86678160 86767689 86944642 86989163 86989163 87133386 87141497 87160645 87165857

SC

M AN U TE D

AC C

EP

rs1159635 rs1159635 rs73165982 chr7_82965793_A_C chr7_82965793_A_C chr7_83056950_A_G corect_rs139527736 rs10270844 rs17157672 rs1860610 rs1979768 rs1979768 rs6966242 rs10487867 rs797827 rs17158505 rs17158529 rs17158529 rs2189849 rs17158675 chr7_83908587_C_T chr7_83908587_C_T chr7_83944506_G_T rs611954 rs2706903 chr7_84152697_INDEL_T rs9642186 rs10230448 rs11761247 rs4728560 chr7_84532628_A_G rs11973517 rs1429743 rs2463478 rs2463678 chr7_85239145_C_T rs10952858 rs10952858 rs6944288 rs17160369 chr7_85637770_A_INDEL rs7811160 rs10223926 rs10223926 rs6977312 rs2110391 rs2110391 rs6946717 chr7_86123682_A_T rs10226401 rs11981220 rs6955322 rs7812191 rs7778976 kgp13744895 kgp13744895 rs28364278 rs1002204 rs9282563 rs41305517

genotype difference Col_52_CB Col_12_IF Col_52_IF Col_08_CB Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_IF Col_52_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_CB Col_52_TS Col_16_IF Col_33_IF Col_38_CB Col_52_IF Col_52_IF Col_33_IF Col_16_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_16_TS Col_12_CB Col_45_IF Col_16_IF Col_52_IF Col_12_CB Col_33_IF Col_16_CB Col_33_IF Col_16_IF Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_52_IF Col_12_CB Col_52_CB Col_38_TS Col_33_IF

RI PT


Marker ID

279

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT BOT BOT TOP BOT BOT BOT TOP TOP TOP BOT TOP TOP BOT TOP BOT TOP TOP TOP BOT BOT TOP BOT BOT TOP BOT TOP BOT BOT TOP BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP BOT TOP TOP

[T/C] [C/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [A/G] [A/G] [T/G] [A/G] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/G] [A/G] [T/C] [T/A] [T/A] [T/A] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/C] [T/A] [T/G] [T/G] [T/G] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/T]

7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7

87178626 87201482 87205663 87205663 87330423 87493807 87537533 87550234 87605618 87605618 87699736 87812968 87812968 87826957 88161734 88161734 88178616 88203866 88210663 88324856 88324856 88568549 88637780 88657093 88689707 88711537 88778601 88830659 89202784 89387626 89449405 89449405 89580280 89687976 89925561 89983808 90161308 90187804 90197700 90247630 90247630 90583793 90583793 90639136 90726315 90773525 90836643 90866589 90870373 91166300 91174263 91174263 91174263 91233469 91262670 91303535 91311892 91406123 91417816 91435820

SC

M AN U TE D

AC C

EP

rs2235013 rs10260862 rs1989830 rs1989830 rs6465118 rs10278291 chr7_87537533_C_T rs2158929 rs1688888 rs1688888 rs2282954 rs7792913 rs7792913 chr7_87826957_G_T rs6977770 rs6977770 rs2519526 rs2188253 rs2519533 rs11971667 rs11971667 rs10258416 rs756749 rs10253454 rs2158143 rs2189058 rs2015523 rs757153 rs2214221 rs7350025 rs7805617 rs7805617 rs2374079 rs886778 rs2040514 rs42663 rs12154771 rs10273323 rs2374329 rs13236114 rs13236114 chr7_90583793_A_G chr7_90583793_A_G rs11773740 rs705357 corect_rs113990321 chr7_90836643_C_T rs6955473 rs10277895 chr7_91166300_A_T chr7_91174263_A_C chr7_91174263_A_C chr7_91174263_A_C rs2540592 chr7_91262670_A_G rs12672616 rs1357517 chr7_91406123_C_T chr7_91417816_C_T chr7_91435820_A_T

genotype difference Col_33_IF Col_12_CB Col_16_TS Col_33_IF Col_08_CB Col_33_IF Col_34_CB Col_33_IF Col_08_TS Col_38_IF Col_33_IF Col_16_TS Col_12_CB Col_33_IF Col_45_IF Col_52_TS Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_16_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_34_CB Col_16_TS Col_33_IF Col_33_IF Col_52_TS Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_12_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_08_CB Col_38_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_52_IF

RI PT


Marker ID

280

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT TOP BOT BOT TOP BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP

[A/G] [A/C] [T/G] [A/C] [A/G] [T/G] [T/G] [T/G] [T/C] [A/C] [A/G] [A/G] [T/C] [C/G] [A/C] [A/G] [T/C] [T/G] [T/C] [A/G] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/G] [A/G] [T/C] [A/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/A] [T/C] [A/G] [A/G]

7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7

91472801 91572749 91580287 91610111 91616891 91629984 91629984 91629984 91650065 91653851 91672403 91694604 91696208 91742728 91758422 91781380 91914218 92021007 92031948 92258715 92328956 92577760 92675349 92889748 93009475 93014243 93046845 93046845 93116299 93186244 93353042 93364926 93364926 93364926 93435967 93452850 93468212 93510823 93516148 93535185 93592846 93621393 93678400 93691744 93724608 93756035 93890183 93890385 93902975 94033031 94033031 94059236 94137554 94137554 94196161 94207653 94213972 94408558 94788164 94789681

SC

M AN U TE D

AC C

EP

chr7_91472801_A_G rs2961019 chr7_91580287_A_C chr7_91610111_G_T chr7_91616891_A_G chr7_91629984_G_T chr7_91629984_G_T chr7_91629984_G_T chr7_91650065_A_G chr7_91653851_G_T chr7_91672403_A_G chr7_91694604_A_G chr7_91696208_C_T chr7_91742728_C_G chr7_91758422_A_C chr7_91781380_C_T chr7_91914218_A_G chr7_92021007_A_C chr7_92031948_A_G rs9886046 rs1004051 rs6955627 rs34864656 chr7_92889748_A_G rs11765782 chr7_93014243_C_T rs17165377 rs17165377 rs2301680 rs1544360 rs2157814 rs2677049 rs2677049 rs2677049 rs10464585 rs2724117 chr7_93468212_A_C rs2724112 chr7_93516148_C_T rs7788636 rs1014424 rs6945362 chr7_93678400_A_G rs9918668 chr7_93724608_C_T chr7_93756035_C_T rs10228755 rs10229085 rs10231052 rs411717 rs411717 chr7_94059236_A_G rs10268766 rs10268766 rs10243372 chr7_94207653_A_G chr7_94213972_A_T rs6965194 rs1012367 rs7777082

genotype difference Col_52_TS Col_33_IF Col_16_IF Col_52_IF Col_34_CB Col_33_IF Col_52_IF Col_12_IF Col_33_IF Col_52_CB Col_16_IF Col_33_IF Col_33_IF Col_16_TS Col_45_TS Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_38_CB Col_52_IF Col_34_TS Col_38_CB Col_33_CB Col_33_IF Col_52_CB Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_59_TS Col_33_IF Col_33_IF Col_08_CB Col_16_IF Col_12_CB Col_08_TS Col_16_TS Col_33_CB Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

281

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT TOP TOP BOT TOP BOT TOP BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT TOP TOP BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT TOP BOT

[T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [A/G] [C/G] [A/G] [A/G] [T/G] [A/G] [A/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/G] [A/G] [C/G] [T/G] [A/G] [A/G] [T/G] [T/G] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [G/C] [A/G] [A/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/G] [T/C] [A/G] [T/C] [A/C] [A/G] [T/A] [A/C] [T/G]

7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7

94903407 94921125 94923405 94924562 94927242 94927677 94944679 94987727 94989250 95041016 95057510 95069666 95085553 95091898 95171652 95363447 95373608 95565120 95565500 95725936 95864108 96013072 96013072 96407197 96465578 96465780 96470676 96616012 96649522 96660192 96698169 96860892 96886435 96886435 96916626 96916626 97114775 97264565 97281912 97346864 97351623 97385344 97385511 97386486 97414110 97422926 97595184 97595215 97595215 97627172 97719806 97719806 97774859 97784061 97790991 97889758 97924226 97933867 98002661 98005332

SC

M AN U TE D

AC C

EP

chr7_94903407_C_T kgp13590848 kgp13423058 kgp13795184 rs854550 rs854551 kgp13245454 rs17886036 rs17885558 rs12026 rs12534274 rs12535571 rs10237960 rs10953151 chr7_95171652_G_T chr7_95363447_C_T rs2618995 chr7_95565120_C_T rs319296 rs916758 rs6957975 rs2724028 rs2724028 chr7_96407197_C_T chr7_96465578_C_T chr7_96465780_A_G chr7_96470676_A_G rs6956369 rs12533469 chr7_96660192_A_G chr7_96698169_C_G chr7_96860892_A_C rs799605 rs799605 chr7_96916626_G_T chr7_96916626_G_T rs17168696 rs10242448 rs1558896 rs62496924 rs1229439 rs10486008 rs2017923 rs62499568 rs460 rs1229542 rs9692345 rs11983172 rs11983172 rs11762451 rs13221758 rs13221758 rs6977321 rs17435590 rs12666406 rs7794187 rs62479858 rs7785612 rs13246843 rs7806739

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_59_TS Col_33_IF Col_08_CB Col_12_CB Col_16_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_12_IF Col_33_IF Col_34_IF Col_33_IF Col_12_CB Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_34_IF Col_52_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_34_CB Col_34_TS Col_33_IF

RI PT


Marker ID

282

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP BOT BOT MINUS TOP TOP TOP TOP TOP BOT TOP TOP BOT BOT PLUS BOT BOT MINUS BOT TOP PLUS PLUS TOP BOT BOT BOT TOP MINUS MINUS TOP PLUS TOP BOT TOP TOP TOP BOT BOT BOT TOP BOT BOT BOT TOP TOP BOT BOT TOP BOT TOP TOP TOP BOT BOT TOP TOP BOT

[A/G] [A/G] [A/G] [A/G] [T/C] [T/A] [I/D] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/G] [T/C] [I/D] [T/C] [T/C] [I/D] [T/C] [A/G] [I/D] [I/D] [A/G] [T/C] [T/C] [T/C] [A/G] [D/I] [D/I] [A/G] [D/I] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/C] [T/C] [T/C] [C/G] [A/G] [T/C]

7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7

98005398 98005462 98005462 98010277 98057220 98242463 98270056 98282950 98324087 98429223 98432937 98441086 98448498 98474128 98474128 98500169 98505667 98578012 98636918 98644032 98691134 98703938 98802221 98916403 98916403 98937409 98953863 99019565 99160582 99181096 99184835 99184835 99185406 99292209 99304418 99336155 99365083 99401911 99401911 99448454 99493660 99536317 99792666 100017410 100675128 100675128 100782460 100818329 101591393 101736364 102344085 102446569 102538515 102584013 102684427 102722516 102948040 103003776 103017023 103072270

SC

M AN U TE D

AC C

EP

rs2107717 rs2107718 rs2107718 rs3779194 chr7_98057220_C_T rs56219605 rs78780958 rs13221723 rs62471627 rs59586120 rs73404920 rs62471977 rs4727421 rs7457148 rs7457148 rs3779190 rs79615950 rs61185996 rs73145624 rs219823 rs6150246 rs62472982 rs62473052 chr7_98916404_INDEL_T chr7_98916404_INDEL_T chr7_98937409_C_T rs17161692 rs77356530 chr7_99160582_C_T rs11772470 chr7_99184835_G_INDEL chr7_99184835_G_INDEL rs12333760 chr7_99292209_G_INDEL rs78763483 rs2687128 rs4646437 rs2687091 rs2687091 chr7_99448454_C_T chr7_99493660_A_G rs73156680 rs11762932 exm640654 exm643928 exm643928 rs1050955 chr7_100818329_C_T chr7_101591393_A_G rs16869529 chr7_102344085_C_T rs6969054 rs17135913 rs13242493 rs12113318 rs4729869 rs11489600 chr7_103003776_C_G rs62482412 rs1859785

genotype difference Col_52_IF Col_33_IF Col_52_IF Col_33_CB Col_52_TS Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_16_TS Col_33_IF Col_38_TS Col_08_TS Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_CB Col_33_CB Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_16_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_59_IF Col_52_CB Col_12_TS Col_33_IF Col_12_CB Col_33_IF Col_08_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_34_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF

RI PT


Marker ID

283

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP BOT TOP BOT TOP BOT

[T/C] [A/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/G] [T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/A] [T/A] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/A] [T/A] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/G] [T/G] [A/G] [T/G] [T/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/G] [A/C] [T/C]

7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7

103181016 103190675 103255144 103300835 103362484 103389085 103389085 103445791 103452494 103562551 103562551 103609900 103639012 103647344 103647344 103736800 103736800 103810359 103810359 103836980 103911676 103911676 103950675 103950675 103950675 103964909 103964909 104010267 104142500 104145122 104295232 104338022 104338022 104411976 105315630 105736971 105880915 106103177 106247144 106257186 106426538 106426538 106710766 107458561 107484437 107497790 107655604 107770624 107885637 107923410 108089035 108093223 108134380 108170370 108202792 108212174 108237706 108478172 108846669 108847086

SC

M AN U TE D

AC C

EP

rs2075044 chr7_103190675_A_C chr7_103255144_C_T rs2299355 rs496907 rs528528 rs528528 rs39329 chr7_103452494_G_T rs10277802 rs10277802 rs10245730 chr7_103639012_C_T chr7_103647344_A_G chr7_103647344_A_G rs71558667 rs71558667 rs12112576 rs12112576 rs10260238 rs10487197 rs10487197 rs17389409 rs17389409 rs17389409 rs17389556 rs17389556 chr7_104010267_C_T rs10258682 rs41035 rs10487222 chr7_104338022_A_G chr7_104338022_A_G rs4236575 rs711437 rs176489 rs13236748 rs10155932 rs11764334 rs41827 rs12670864 rs12670864 newrs3729869 rs7804147 rs4730276 rs10274614 chr7_107655604_A_G rs4730287 chr7_107885637_C_T chr7_107923410_A_G rs13245242 chr7_108093223_C_T chr7_108134380_A_G chr7_108170370_C_T rs40939 exm650692 chr7_108237706_C_T chr7_108478172_A_C rs2396072 chr7_108847086_C_T

genotype difference Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_16_IF Col_38_CB Col_12_CB Col_33_IF Col_52_CB Col_12_CB Col_52_IF Col_16_CB Col_52_IF Col_59_TS Col_38_IF Col_52_CB Col_52_IF Col_12_CB Col_12_CB Col_33_IF Col_12_IF Col_16_IF Col_33_IF Col_52_IF Col_33_IF Col_38_IF Col_33_IF Col_16_IF Col_12_CB Col_12_CB Col_33_IF Col_38_IF Col_52_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_16_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF

RI PT


Marker ID

284

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT TOP TOP BOT TOP TOP TOP TOP BOT BOT TOP TOP BOT TOP TOP BOT TOP

[T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [A/G] [A/G] [A/C] [A/C] [A/C] [T/C] [T/C] [T/G] [G/C] [T/C] [A/G] [A/G] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/C] [A/G] [T/C] [T/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G]

7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7

108854537 108987486 109053967 109247505 109247505 109247505 109350011 109388584 109722969 109736919 109752871 109752871 109752871 109752871 109829271 109842540 109877875 109900921 110002668 110002668 110118772 110123697 110232807 110329655 110340600 110363476 110437309 110445196 110511679 110591124 110617845 110678928 110714407 110778571 110879776 111402117 111473040 111558903 111633772 111680953 111722814 111723488 111782891 111807805 111830988 111850468 111958382 111982271 111982271 112082922 112737222 112752594 113058364 113130984 113216555 113222518 113302262 113322649 113481640 113534005

SC

M AN U TE D

AC C

EP

rs6952038 rs848866 rs2396099 rs1630684 rs1630684 rs1630684 rs10275927 rs6974557 rs13340481 rs1722034 chr7_109752871_C_T chr7_109752871_C_T chr7_109752871_C_T chr7_109752871_C_T rs11770896 rs1608837 rs9640729 rs7796325 rs10085413 rs10085413 rs12671160 rs1508184 rs7812132 rs6961889 chr7_110340600_C_G chr7_110363476_C_T chr7_110437309_C_T rs7807591 chr7_110511679_A_G rs10252992 rs17528429 rs10487300 rs12669471 rs10487304 rs37717 rs10235868 rs10238664 rs17158995 chr7_111633772_A_G rs10247033 rs2894634 rs7802845 rs6466401 corect_rs139362644 chr7_111830988_C_T kgp3420010 rs4727766 chr7_111982271_C_T chr7_111982271_C_T rs3109107 rs9656200 rs2253640 rs6943438 rs3922816 chr7_113216555_C_T rs2964930 rs10487510 rs9784924 chr7_113481640_C_T rs10227142

genotype difference Col_33_CB Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_08_TS Col_16_TS Col_33_TS Col_52_IF Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_33_IF Col_34_CB Col_38_TS Col_33_IF Col_33_IF Col_34_CB Col_12_CB Col_33_IF Col_16_IF Col_33_IF Col_33_CB Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_52_IF Col_33_IF Col_33_IF

RI PT


Marker ID

285

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP BOT TOP TOP BOT TOP BOT PLUS BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP BOT TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP TOP TOP PLUS PLUS PLUS BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT BOT BOT

[T/C] [T/C] [T/C] [A/G] [A/T] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [D/I] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [A/G] [T/C] [A/G] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/C] [T/G] [C/G] [A/G] [A/G] [A/G] [D/I] [D/I] [D/I] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C]

7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7

113973098 113984768 114018456 114110568 114314508 114341380 114443466 114793930 114861164 115029661 115089527 115291815 115508174 115667073 115667227 115701043 115701043 116055528 116118330 116357759 116528240 116827920 116928371 116998176 116998176 117149147 117286896 117599514 117919888 118216736 118232645 118238172 118426763 118426763 118468611 118475801 118475801 118475801 118515013 118634585 118645137 118744622 118925326 119153937 119388127 119388127 119388127 119388127 119399411 119602254 119602254 119833880 119941052 120092049 120405335 120571159 120720438 120812059 120812059 120812059

SC

M AN U TE D

AC C

EP

rs2694933 chr7_113984768_A_G kgp2908911 rs4727799 corect_rs117349755 chr7_114341380_A_G chr7_114443466_A_G rs17293743 chr7_114861164_A_G rs6960584 rs4644177 chr7_115291815_C_INDEL chr7_115508174_C_T chr7_115667073_A_G chr7_115667227_C_T chr7_115701043_A_G chr7_115701043_A_G rs17138675 rs926197 chr7_116357759_C_T rs4808 chr7_116827920_C_T rs4727847 rs10248393 rs10248393 rs1800076 chr7_117286896_A_G rs916784 kgp13427659 rs1510498 chr7_118232645_A_C A28559705 rs1200751 rs1200751 rs2699717 chr7_118475801_INDEL_TG chr7_118475801_INDEL_TG chr7_118475801_INDEL_TG rs7798483 rs7782688 rs4730907 chr7_118744622_A_G kgp7292018 chr7_119153937_C_T rs2402489 rs2402489 rs2402489 rs2402489 rs12706258 chr7_119602254_C_T chr7_119602254_C_T chr7_119833880_A_G chr7_119941052_A_G rs7805718 rs10239799 chr7_120571159_A_G chr7_120720438_C_T chr7_120812059_A_G chr7_120812059_A_G chr7_120812059_A_G

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_16_IF Col_16_CB Col_38_IF Col_52_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_38_IF Col_52_IF Col_59_TS Col_12_IF Col_33_IF Col_16_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_CB Col_34_CB Col_12_IF

RI PT


Marker ID

286

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT TOP BOT TOP TOP BOT TOP BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT TOP BOT BOT TOP BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP

[A/G] [A/C] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [G/C] [A/G] [T/C] [T/C] [T/C] [G/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [A/C] [T/C] [T/G] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [A/T] [A/G] [A/C] [A/C]

7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7

120825942 120869464 120952582 120988757 120988757 121109393 121109393 121113735 121438897 121544623 121545143 121937298 122048354 122088595 122136116 122157895 122185989 122185989 122186974 122195452 122238571 122264411 122303853 122317110 122431452 122431452 122431452 122567652 122674826 122678299 122679919 122766907 122798636 122858776 123056756 123268962 123336804 123336804 123585937 123622064 123701345 123712562 124207343 124234030 124489010 124548890 124789420 124799488 124818866 124831353 124910833 124941244 124944982 124996534 125111326 125240393 125458055 125461881 125492934 125492934

SC

M AN U TE D

AC C

EP

chr7_120825942_A_G chr7_120869464_G_T rs10231005 rs2536184 rs2536184 chr7_121109393_C_T chr7_121109393_C_T rs1881382 rs740962 rs17143879 rs12669706 rs11762051 chr7_122048354_C_T rs4727941 chr7_122136116_A_G chr7_122157895_A_G rs6978199 rs6978199 rs740812 rs6964649 rs4363139 rs961628 chr7_122303853_C_T chr7_122317110_C_T chr7_122431452_A_G chr7_122431452_A_G chr7_122431452_A_G rs9632696 rs11972945 rs17145311 rs13221935 rs2204292 rs2462152 rs7776703 chr7_123056756_C_G exm654234 rs10270793 rs10270793 rs1859402 chr7_123622064_C_T rs13224429 rs1860486 rs2402741 rs1524770 rs11972248 rs35399703 chr7_124789420_A_C chr7_124799488_A_G chr7_124818866_A_C chr7_124831353_A_G rs10279685 rs1427585 rs6965492 chr7_124996534_A_G rs6962166 rs4731254 corect_rs150430584 rs12706688 rs6948932 rs6948932

genotype difference Col_33_IF Col_16_CB Col_12_CB Col_52_IF Col_12_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_16_TS Col_38_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_38_IF Col_52_TS Col_33_IF Col_12_TS Col_33_IF Col_12_TS Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_08_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_59_TS

RI PT


Marker ID

287

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT TOP BOT TOP BOT TOP BOT BOT TOP MINUS TOP TOP BOT MINUS TOP BOT TOP BOT BOT TOP TOP BOT TOP TOP BOT BOT BOT TOP BOT

[T/C] [T/C] [T/C] [A/G] [A/G] [T/A] [A/T] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/G] [A/G] [T/C] [T/C] [T/C] [T/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/G] [T/C] [A/G] [T/C] [A/G] [T/C] [A/C] [T/C] [T/C] [A/G] [I/D] [A/G] [A/G] [T/G] [D/I] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/G] [T/C] [A/G] [T/C]

7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7

125577377 125667555 125700894 125961043 126006996 126023952 126027023 126472747 126552917 126885911 127008541 127008541 127008541 127008541 127108363 127416475 127526038 127772339 128150653 128410012 128773770 129010018 129077531 129200618 129342404 129613117 129895829 129990192 130084278 130084278 130316353 130342978 130349166 130430188 130438214 130457914 130583134 130630814 130658133 130665662 130666992 130668912 130668912 130766797 130874303 130901516 131051596 131092434 131100319 131100319 131100326 131100326 131720635 131783493 132001341 132017849 132373204 132533494 133118553 133338271

SC

M AN U

TE D

chr7_125577377_C_T rs17149212 rs16871607 rs485 rs17149630 rs6965007 corect_rs117734095 rs2157752 chr7_126552917_C_T rs7776557 rs11563633 rs11563633 rs11563633 rs11563633 rs1419407 rs11765620 rs3808088 rs322762 rs4371935 chr7_128410012_A_G chr7_128773770_A_G chr7_129010018_A_G rs587499 rs76111917 rs2402976 chr7_129613117_A_G chr7_129895829_A_G rs10247483 rs10488188 rs10488188 chr7_130316353_A_C rs11763462 rs10263009 chr7_130430188_C_T rs13234407 rs1562396 chr7_130583134_G_T chr7_130630814_C_T chr7_130658133_C_T chr7_130665662_C_T rs66491869 chr7_130668912_A_G chr7_130668912_A_G chr7_130766797_A_C chr7_130874303_AAAC_INDEL rs7798625 chr7_131051596_A_G chr7_131092434_C_T rs17165599 rs17165599 chr7_131100326_C_T chr7_131100326_C_T rs996278 chr7_131783493_A_G rs11763352 rs10263402 chr7_132373204_A_C chr7_132533494_C_T rs2059376 rs7800006

genotype difference Col_38_TS Col_16_TS Col_33_IF Col_52_TS Col_33_IF Col_45_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_IF Col_34_IF Col_38_CB Col_45_IF Col_34_CB Col_12_IF Col_33_IF Col_12_CB Col_38_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_12_TS Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_52_TS Col_12_CB Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_CB Col_33_IF Col_33_CB Col_33_IF

RI PT


Marker ID

288

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT TOP BOT BOT TOP BOT TOP BOT BOT BOT TOP BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP BOT TOP BOT BOT BOT TOP TOP BOT BOT BOT TOP BOT

[A/C] [A/C] [T/C] [G/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/G] [T/C] [T/G] [A/G] [T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [T/C] [A/G] [A/G] [A/C] [A/C] [A/G] [T/C] [A/C] [A/G] [A/G] [T/G] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/G] [T/C] [T/C] [A/C] [A/G] [T/G] [T/C] [T/C] [A/G] [T/G]

7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7

133385879 133440786 133821619 133988313 134132108 134179315 134296821 134454168 134457538 134472116 134552146 134556318 135045786 135323576 135529279 135577585 135733875 135896926 135906817 135933073 136067679 136124848 136375979 136419814 136421981 136563268 136582393 136588772 136652138 136733228 136874568 136990721 137003404 137016297 137208391 137534627 137721720 137939326 137962186 138074052 138346011 138400796 138853727 138874088 138997993 139077201 139077201 139077201 139617918 139620219 139837061 140102216 140120475 140558227 140769459 141246968 141414831 141653637 141658390 141875267

SC

M AN U TE D

AC C

EP

corect_rs186332853 rs6963221 rs13246630 rs2598291 chr7_134132108_C_T chr7_134179315_C_T rs7788959 chr7_134454168_A_G rs11975997 rs3800707 rs4732064 rs7781307 chr7_135045786_G_T chr7_135323576_A_G rs10262451 rs1982292 chr7_135733875_A_C rs834822 rs1426479 chr7_135933073_C_T rs10275448 chr7_136124848_A_G rs10954541 rs7809111 rs10249508 chr7_136563268_C_T rs10228048 chr7_136588772_G_T rs324588 rs324670 rs833016 rs12666148 rs322335 rs1431093 rs6964837 rs1125727 chr7_137721720_A_G chr7_137939326_C_T rs11763343 rs403760 rs11770967 rs999229 rs10085848 chr7_138874088_C_T chr7_138997993_A_G chr7_139077201_A_G chr7_139077201_A_G chr7_139077201_A_G chr7_139617918_C_T rs2284204 rs11983076 chr7_140102216_A_G chr7_140120475_C_T rs58801847 rs528957 chr7_141246968_A_C chr7_141414831_C_T rs7794708 chr7_141658390_C_T rs12532545

genotype difference Col_59_TS Col_33_IF Col_33_IF Col_38_IF Col_08_TS Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_52_IF Col_33_IF Col_16_TS Col_52_CB Col_33_TS Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_38_IF Col_52_IF Col_08_CB Col_33_IF Col_38_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF

RI PT


Marker ID

289

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT TOP BOT BOT BOT TOP TOP BOT TOP BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP BOT TOP TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT TOP TOP BOT TOP BOT TOP

[A/G] [A/G] [T/C] [T/G] [A/G] [T/C] [T/C] [T/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/G] [A/G] [T/C] [A/C] [A/C] [A/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/G] [A/C] [A/G] [A/T] [A/T] [A/G] [T/C] [T/C] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [A/C] [A/C] [A/C] [T/G] [T/C] [T/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/A] [A/G] [T/C] [A/C]

7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7

141896931 141896931 142104571 142165845 142198611 142274257 142492130 142545218 142649646 142835239 143183203 143204062 143613903 143741610 143767553 144098922 144220783 144305519 144305519 144306567 144306567 144306567 144318130 144319252 144367276 144486947 144487424 144501564 144554313 144558505 144601208 144621695 144622959 144639494 144763687 144811326 144888698 144925556 144945903 144971709 145286533 145783668 145783668 145783668 145883566 146054350 146112428 146172566 146317074 146323187 146547048 146559474 146571183 146571183 146586456 146682211 146734012 146753385 146759484 146790536

SC

M AN U TE D

AC C

EP

chr7_141896931_A_G chr7_141896931_A_G rs361433 chr7_142165845_G_T rs6976636 rs6464489 rs2367486 rs2063993 chr7_142649646_A_G rs9986765 rs940697 rs1917569 chr7_143613903_C_T rs4726665 rs1540893 chr7_144098922_A_G rs12703605 chr7_144305519_A_C chr7_144305519_A_C chr7_144306567_C_T chr7_144306567_C_T chr7_144306567_C_T chr7_144318130_C_T chr7_144319252_C_T chr7_144367276_A_G chr7_144486947_A_C chr7_144487424_A_C chr7_144501564_C_T rs76893969 chr7_144558505_A_T chr7_144601208_A_G rs2699467 rs2699473 rs1525463 rs1997088 rs605627 rs7799776 chr7_144925556_C_T rs7810304 rs2190073 rs10500154 chr7_145783668_A_C chr7_145783668_A_C chr7_145783668_A_C rs1464961 rs12703801 rs6978796 chr7_146172566_A_G rs347223 rs347220 rs6955130 rs4367451 rs12703845 rs12703845 rs7784949 rs12670868 chr7_146734012_A_T chr7_146753385_C_T rs6973868 chr7_146790536_A_C

genotype difference Col_33_IF Col_34_CB Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_CB Col_16_TS Col_34_CB Col_33_IF Col_34_TS Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_16_TS Col_38_CB Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_16_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_34_TS Col_52_IF Col_12_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_16_TS Col_52_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

290

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP BOT TOP BOT TOP BOT BOT BOT BOT TOP BOT PLUS BOT TOP BOT TOP TOP BOT TOP BOT TOP BOT TOP BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP BOT TOP BOT BOT

[A/G] [T/C] [T/C] [A/G] [T/G] [A/G] [T/G] [A/G] [T/G] [T/C] [T/C] [T/G] [A/C] [T/C] [D/I] [T/G] [A/G] [T/G] [A/C] [A/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [T/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [T/G] [A/C] [T/C] [A/T] [T/C] [A/C] [A/C] [A/C] [A/G] [T/G] [T/G] [A/G] [T/G] [A/G] [T/C] [T/C]

7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7

146879704 146913540 146935930 146941368 147054730 147129593 147133617 147165497 147192154 147200383 147305180 147436967 147459147 147494803 147498238 147549713 147623164 147635390 147663448 147666964 147704216 147909913 147980926 148042034 148069482 148106651 148450521 148600310 148620581 148640449 148642353 148642353 148642353 149097526 150955765 150988133 151050158 151172878 151172878 151185656 151226122 151680072 151847070 151921462 152014018 152162209 152192121 152650088 152800787 152873210 153197219 153279036 153285755 153304925 153367707 153561830 153596033 153652188 153672476 153709408

SC

M AN U TE D

AC C

EP

rs4282491 rs1603450 rs1390723 rs1496544 rs10500179 rs826645 rs2697453 rs17507650 rs6978820 rs10266867 rs11773848 rs10952708 rs10282687 rs851685 chr7_147498238_C_INDEL rs2011815 rs2538993 rs2708237 rs2204925 rs13225815 chr7_147704216_C_T rs10271935 rs10952748 corect_rs182835090 rs1637857 chr7_148106651_A_G rs243482 rs7790642 rs12531078 rs4727001 chr7_148642353_A_G chr7_148642353_A_G chr7_148642353_A_G rs6947354 chr7_150955765_A_G chr7_150988133_C_T rs367547 rs12671654 rs12671654 rs13224450 rs6951571 rs6960270 rs3800836 chr7_151921462_A_G chr7_152014018_G_T rs3087586 rs1107394 rs2109747 rs629598 rs4313080 rs4726301 chr7_153279036_A_C rs6942954 chr7_153304925_G_T rs13221692 rs12539925 rs10245002 rs10229774 chr7_153672476_C_T rs10085865

genotype difference Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_34_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_08_TS Col_38_TS Col_12_CB Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_34_IF Col_38_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_59_IF Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_16_TS Col_12_CB Col_33_IF Col_33_IF Col_52_TS

RI PT


Marker ID

291

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP BOT TOP TOP BOT TOP BOT TOP BOT BOT TOP TOP TOP BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT TOP BOT BOT TOP TOP BOT TOP TOP BOT BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP

[T/C] [T/C] [T/C] [A/G] [T/C] [A/C] [A/C] [T/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/C] [A/C] [T/C] [A/G] [T/C] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/C] [A/C] [T/C] [T/G] [T/G] [T/C] [A/C] [T/C] [T/C] [A/G] [A/G] [T/G] [A/G] [A/G] [T/C] [T/C] [C/G] [A/C] [A/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G]

7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 7 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

154620262 154647453 154733417 154820318 154935141 155086692 155086692 155103781 155258448 155625512 155664686 155929196 156048322 156056480 156093815 156093815 156456279 156484201 156584904 157058363 157110720 157400389 157400389 157546894 157748444 157876310 157876310 157876310 157876310 157964407 158299094 158521478 158785201 159070969 197042 314765 334288 401493 424466 425796 427913 449137 714416 814529 994839 1115647 1149028 1251756 1678408 1757720 1791433 1995258 2016053 2021421 2063158 2121846 2123928 2295755 2376531 2417678

SC

M AN U TE D

AC C

EP

rs9649875 rs11243323 chr7_154733417_A_G rs11765456 rs9642653 rs9690209 rs9690209 rs13223383 rs10233570 rs721347 rs6971211 rs6955791 rs9638077 rs9638080 chr7_156093815_A_C chr7_156093815_A_C rs6945589 rs4716650 rs10229091 rs1182414 rs10253147 rs10229026 rs10229026 chr7_157546894_A_G chr7_157748444_C_T chr7_157876310_A_G chr7_157876310_A_G chr7_157876310_A_G chr7_157876310_A_G chr7_157964407_C_T rs10256091 chr7_158521478_A_G chr7_158785201_C_T rs6947160 rs3750097 rs6558696 rs1979081 rs6651443 chr8_424466_A_C chr8_425796_G_T chr8_427913_C_T chr8_449137_A_C rs10091756 rs7823711 rs12675050 rs4355799 rs12547340 rs7817445 chr8_1678408_A_G chr8_1757720_C_T rs11136431 chr8_1995258_C_G rs3779853 rs2272720 rs6983960 rs10110395 rs2581579 rs897445 rs12545773 rs6996532

genotype difference Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_08_TS Col_38_IF Col_33_IF Col_38_TS Col_12_CB Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_12_CB Col_38_TS Col_52_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_33_CB Col_33_CB Col_33_CB Col_38_TS Col_45_IF Col_52_TS Col_33_IF Col_12_CB Col_33_IF Col_08_TS Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_52_CB Col_52_CB Col_52_IF Col_33_IF Col_59_CB Col_33_IF Col_12_CB Col_52_CB Col_16_IF

RI PT


Marker ID

292

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP BOT TOP TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT TOP BOT TOP TOP BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT TOP

[T/G] [A/C] [A/C] [T/C] [C/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/A] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [C/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/C] [A/G] [A/G] [A/G] [C/G] [T/C] [T/C] [T/C] [A/C] [A/G] [A/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [T/G] [A/C]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

2423004 2449499 2449499 2488278 2490537 2536024 2536024 2561906 2561906 2568679 2617471 2789796 2808265 2808265 2809792 2946196 2950798 2952985 2952985 2975781 3092375 3093985 3142401 3172298 3172962 3192247 3206462 3211485 3211485 3212595 3263500 3341598 3366303 3372977 3404802 3404802 3409744 3409744 3472110 3474590 3483933 3491435 3515619 3517267 3600743 3647890 3647890 3669538 3679504 3681995 3773842 3779090 3779090 3797879 3806885 3806885 3807861 3832465 3832465 3833598

SC

M AN U TE D

AC C

EP

rs7016232 rs1483809 rs1483809 rs6995938 chr8_2490537_C_G rs6997305 rs6997305 chr8_2561906_C_T chr8_2561906_C_T rs17063065 rs17833629 rs12682123 chr8_2808265_A_G chr8_2808265_A_G rs11782820 rs1870616 rs7818488 rs10503189 rs10503189 rs2045637 rs1442408 rs7819976 chr8_3142401_A_C rs924737 rs11136606 rs7843496 rs1822243 rs924732 rs924732 rs1096505 rs10097933 rs10112950 rs10090810 rs11783295 rs6995564 rs6995564 rs12056919 rs12056919 rs10112183 rs7840019 rs11781825 rs11992615 rs10105578 chr8_3517267_C_G rs10096790 rs2623679 rs2623679 rs73172246 rs7007070 rs7812367 rs2954621 rs11136679 rs11136679 rs2627525 rs11779200 rs11779200 rs11136684 rs1474319 rs1474319 rs11136689

genotype difference Col_12_CB Col_16_IF Col_52_IF Col_33_IF Col_33_IF Col_34_IF Col_52_IF Col_38_CB Col_52_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_59_CB Col_33_IF Col_12_CB Col_33_IF Col_16_IF Col_38_CB Col_34_IF Col_16_TS Col_33_IF Col_33_CB Col_16_IF Col_16_IF Col_16_IF Col_33_IF Col_16_IF Col_52_IF Col_33_IF Col_12_CB Col_52_IF Col_08_TS Col_38_IF Col_33_IF Col_34_TS Col_16_IF Col_38_TS Col_12_CB Col_52_IF Col_33_IF Col_52_IF Col_12_CB Col_12_CB Col_33_CB Col_33_CB Col_52_TS Col_33_IF Col_52_CB Col_12_CB Col_12_CB Col_08_CB Col_33_CB Col_08_TS Col_08_CB Col_33_CB Col_12_CB Col_33_IF Col_59_TS Col_33_IF

RI PT


Marker ID

293

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT TOP BOT TOP BOT TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP BOT BOT TOP BOT TOP TOP BOT TOP

[A/C] [A/C] [A/C] [A/C] [T/G] [T/C] [T/C] [T/C] [A/G] [A/T] [A/T] [T/G] [A/G] [A/G] [A/G] [C/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/G] [A/G] [A/G] [T/G] [T/C] [T/C] [G/C] [C/G] [T/C] [A/G] [T/G] [A/C] [A/C] [A/C] [T/G] [T/C] [T/C] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [A/G] [T/C] [A/G] [T/G] [T/C] [A/G] [T/C] [C/G] [C/G] [T/C] [A/G]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

3835151 3835166 3847042 3847042 3859936 3904006 3927366 3927366 3944529 3950160 3950160 3966989 3980781 3980781 4012166 4028203 4052031 4052031 4068969 4125100 4164975 4166522 4168964 4169706 4195287 4220542 4241132 4246903 4256637 4268880 4274769 4276270 4278122 4295445 4304647 4304647 4308969 4314917 4315838 4318924 4319207 4366666 4366666 4371051 4382286 4425179 4443076 4445174 4453705 4460277 4468542 4486561 4487895 4559317 4585866 4654394 4699024 4699024 4734764 4775412

SC

M AN U TE D

AC C

EP

chr8_3835151_A_C rs17068366 rs11783301 rs11783301 chr8_3859936_A_C rs17068729 rs10086129 rs10086129 rs17068867 chr8_3950160_A_T chr8_3950160_A_T chr8_3966989_G_T rs3891533 rs3891533 rs2407307 rs12156181 rs779132 rs779132 chr8_4068969_C_T rs17069790 rs11784834 rs10503250 rs10108639 rs9785155 rs10102768 rs11787410 rs1430447 rs11774916 rs11992667 rs17336085 rs11993264 rs11136742 rs10091211 rs10088937 rs1154068 rs1154068 rs1006583 rs1217680 rs1217677 rs1217672 chr8_4319207_G_T rs1985200 rs1985200 rs11994346 chr8_4382286_C_T chr8_4425179_C_T chr8_4443076_A_G rs2617076 rs17070727 rs11781113 rs2725047 rs13282923 chr8_4487895_A_C rs2897681 rs1031610 rs7010443 chr8_4699024_C_G chr8_4699024_C_G rs11782915 rs13248460

genotype difference Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_34_IF Col_33_IF Col_16_TS Col_33_IF Col_34_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_34_TS Col_33_IF Col_16_CB Col_52_IF Col_12_CB Col_16_IF Col_52_IF Col_33_CB Col_16_IF Col_52_CB Col_38_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_52_IF Col_16_TS Col_52_CB Col_12_CB Col_38_TS Col_52_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_38_CB Col_52_IF Col_38_CB Col_52_IF Col_33_CB Col_38_CB Col_16_IF Col_33_IF Col_59_TS Col_52_CB Col_52_CB Col_52_IF Col_33_IF Col_08_CB Col_08_TS Col_33_IF Col_52_TS Col_33_IF Col_38_TS

RI PT


Marker ID

294

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT TOP TOP BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP BOT TOP TOP BOT

[T/C] [T/C] [T/G] [T/G] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [A/C] [A/C] [T/C] [A/G] [G/C] [A/G] [A/G] [A/G] [T/A] [T/C] [A/T] [A/G] [A/C] [T/G] [A/G] [A/G] [A/C] [A/G] [T/C] [A/G] [A/G] [A/C] [T/C] [T/G] [A/C] [A/G] [T/C] [A/C] [A/G] [T/C]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

4810906 4810906 4811010 4811010 4811010 4815661 4815661 4816363 4832237 4832237 4881304 4923991 4951542 5000769 5010329 5010329 5090707 5177811 5214904 5231429 5265851 5351668 5380180 5444800 5451381 5451381 5509374 5533605 5535185 5545090 5545090 5545090 5563282 5581919 5664790 5676046 5677416 5677416 5681883 5751093 5759955 5780487 5782057 5792884 5810703 5964052 5968366 5968583 6002470 6026858 6026858 6097533 6114142 6125898 6155658 6179115 6209425 6215165 6285539 6355321

SC

M AN U TE D

AC C

EP

rs10448093 rs10448093 rs13274629 rs13274629 rs13274629 rs7000866 rs7000866 chr8_4816363_C_T rs11778280 rs11778280 rs10095864 chr8_4923991_A_G rs7014013 rs4875441 rs11775723 rs11775723 rs12679985 rs3919556 rs10107399 chr8_5231429_C_T rs4146469 rs974995 rs7843051 rs7815374 chr8_5451381_C_T chr8_5451381_C_T rs7827127 rs10503326 chr8_5535185_A_G rs7831044 rs7831044 rs7831044 rs1635657 chr8_5581919_A_G chr8_5664790_C_G rs10106213 rs12682166 rs12682166 rs73189737 rs2246733 chr8_5759955_A_T rs9792349 chr8_5782057_G_T rs7826510 rs2703304 rs7011696 rs11985779 chr8_5968583_A_G rs918924 rs17076166 rs17076166 rs4501597 rs6983190 chr8_6125898_A_C rs12679001 rs10110812 rs4840830 chr8_6215165_G_T rs2515564 rs2916718

genotype difference Col_16_IF Col_12_CB Col_16_IF Col_52_IF Col_12_IF Col_33_CB Col_52_IF Col_38_CB Col_16_IF Col_52_IF Col_33_IF Col_33_IF Col_12_TS Col_38_TS Col_16_IF Col_45_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_33_CB Col_52_CB Col_38_IF Col_16_IF Col_52_IF Col_33_IF Col_52_IF Col_33_IF Col_08_CB Col_16_IF Col_38_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_34_IF Col_52_IF Col_52_CB Col_52_CB Col_38_IF Col_16_TS Col_52_IF Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_34_IF Col_52_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_CB Col_08_TS

RI PT


Marker ID

295

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT TOP BOT TOP BOT BOT TOP BOT TOP BOT BOT TOP TOP BOT BOT TOP TOP MINUS BOT TOP TOP BOT BOT TOP BOT TOP BOT TOP TOP BOT BOT BOT TOP TOP BOT TOP TOP TOP TOP BOT TOP BOT TOP BOT BOT BOT TOP BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT TOP

[A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/G] [A/G] [T/C] [A/G] [G/C] [T/G] [A/G] [A/G] [T/A] [T/A] [A/G] [A/G] [I/D] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [G/C] [A/T] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [G/C] [A/G] [A/G] [A/G] [A/G] [T/C] [C/G] [T/G] [A/G] [T/C] [T/C] [T/C] [C/G] [T/C] [T/C] [T/C] [A/C] [A/G] [T/G] [A/G] [T/C] [T/C] [T/G] [A/G]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

6585864 6599270 6605662 6714699 6727082 6744499 6974050 8132754 8215349 8351068 8353587 8384647 8433584 8515205 8515205 8548117 8548117 8583109 8583109 8706235 8722378 8843878 8875885 8984302 8984302 9159895 9197847 9261356 9276702 9294503 9339264 9398118 9398118 9427048 9440910 9440910 9452246 9474249 9474249 9527707 9527707 9533138 9553101 9578982 9591958 9600917 9602744 9612911 9653130 9701144 9862430 9883177 9975212 10095328 10175545 10295378 10316170 10316170 10328677 10337449

SC

M AN U TE D

AC C

EP

rs2980684 exm679441 rs2912078 rs11777699 rs2741121 chr8_6744499_C_T rs7388463 rs793506 chr8_8215349_C_T rs2980748 rs2921004 chr8_8384647_C_G chr8_8433584_A_C rs2177254 rs2177254 chr8_8548117_A_T chr8_8548117_A_T rs777710 rs777710 chr8_8706236_INDEL_T rs10108954 chr8_8843878_C_T exm680619 rs10111820 rs10111820 chr8_9159895_A_G chr8_9197847_C_G chr8_9261356_A_T rs17730541 rs11997395 chr8_9339264_A_G chr8_9398118_A_G chr8_9398118_A_G rs6601333 chr8_9440910_C_T chr8_9440910_C_T rs56020632 rs56413432 rs56413432 rs7015700 rs7015700 rs4272381 rs76289377 rs13276086 rs76778523 rs9644708 rs13259379 rs77185681 rs59480703 chr8_9701144_C_T rs4517127 rs6987670 chr8_9975212_A_C rs2952238 rs17151731 rs11996714 rs1986358 rs1986358 rs7007193 rs4342552

genotype difference Col_33_IF Col_52_IF Col_16_IF Col_12_CB Col_16_CB Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_38_CB Col_52_IF Col_33_IF Col_38_IF Col_16_IF Col_33_IF Col_33_CB Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_34_IF Col_33_IF Col_16_TS Col_52_CB Col_12_CB Col_33_CB Col_33_IF Col_08_CB Col_33_CB Col_38_IF Col_34_IF Col_52_CB Col_34_TS Col_16_IF Col_52_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_12_TS Col_12_CB Col_52_CB Col_16_IF Col_33_IF Col_33_IF Col_34_TS Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_34_CB Col_33_IF Col_16_IF Col_33_CB Col_33_IF Col_33_TS

RI PT


Marker ID

296

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP TOP BOT TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT TOP BOT TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT TOP BOT TOP TOP

[T/C] [A/G] [A/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/G] [A/G] [A/C] [A/G] [G/C] [T/C] [A/G] [G/C] [T/C] [T/C] [A/C] [T/G] [A/G] [A/G] [A/G] [T/C] [T/A] [T/G] [T/G] [A/G] [A/C] [A/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [T/G] [T/C] [A/G] [T/C] [T/C] [A/C] [T/C] [A/C] [A/C]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

10464206 10526742 10537940 10606722 10606722 10628238 10647823 10656437 10680061 10680061 10683127 10683127 10690319 10691410 10693384 11116661 11143272 11165826 11278146 11349186 11382659 11458502 11542996 11611500 11623456 11662885 11818364 11860251 12009597 12514139 12733321 12772901 12892386 12930346 12973575 13062363 13091542 13091542 13185325 13194328 13195741 13205853 13215727 13229568 13391045 13406688 13527569 13531381 13542375 13673447 13674554 13674554 13696026 13719276 13741178 13766875 13785745 13829011 13832286 13895276

SC

M AN U TE D

AC C

EP

rs12542075 rs4368940 chr8_10537940_G_T rs60373308 rs60373308 chr8_10628238_A_G rs11250076 rs11250077 rs6994375 rs6994375 rs7840785 rs7840785 rs2292370 rs73531554 rs73209914 rs17728678 rs3808518 chr8_11165826_A_G rs11250135 rs13277113 rs2252797 chr8_11458502_A_G rs2409805 chr8_11611500_C_G chr8_11623456_C_T rs10098874 rs9644758 kgp518105 kgp9258611 kgp937628 rs2977171 rs2977124 rs10091877 chr8_12930346_G_T rs2410025 rs6995936 rs17188488 rs17188488 rs1671382 rs1729109 rs1454937 rs17091974 chr8_13215727_A_G chr8_13229568_A_G chr8_13391045_G_T rs7842394 rs11782494 rs17237541 chr8_13542375_C_T rs2410116 rs9325677 rs9325677 rs1157338 chr8_13719276_C_T rs11203543 rs4831250 rs1520752 rs28623326 rs1485534 chr8_13895276_G_T

genotype difference Col_33_CB Col_34_IF Col_33_IF Col_33_CB Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_12_CB Col_16_TS Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_34_CB Col_33_IF Col_52_CB Col_08_IF Col_33_IF Col_12_CB Col_52_IF Col_33_IF Col_12_CB Col_34_CB Col_12_CB Col_33_CB Col_08_TS Col_16_IF Col_08_TS Col_33_IF Col_34_TS Col_38_TS Col_12_CB Col_12_CB Col_33_CB Col_33_IF Col_34_CB Col_38_TS Col_34_TS Col_33_IF Col_33_CB Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_12_IF Col_16_IF Col_38_CB Col_33_IF Col_33_CB Col_38_TS Col_33_IF Col_38_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

297

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP

[T/C] [T/C] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [A/G] [A/G] [T/C] [T/A] [A/G] [T/C] [T/G] [T/C] [T/C] [T/G] [A/G] [A/G] [A/C] [T/C] [A/C] [T/C] [A/G] [A/C] [A/C] [G/C] [T/A] [A/G] [T/G] [G/C] [G/C] [T/C] [A/C] [T/C] [G/C] [A/C] [A/G] [A/G] [A/G] [T/G] [T/G] [T/C] [T/C] [T/C] [T/C] [A/C] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [G/C] [A/C]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

13912357 13924510 13955701 13956109 14046065 14088127 14091774 14113816 14119944 14119944 14139307 14141326 14144002 14152719 14159132 14203326 14252372 14308744 14389640 14389640 14433716 14471820 14566827 14585560 14612100 14614134 14676812 14746634 14775389 14775389 14902313 14936649 15000439 15007185 15013842 15019829 15035322 15067980 15154405 15239285 15251170 15253190 15255088 15255088 15258706 15258706 15376578 15381955 15395144 15395144 15409462 15461996 15461996 15477945 15482653 15604429 15604429 15611037 15677264 15748902

SC

M AN U TE D

AC C

EP

rs11203571 rs11779074 chr8_13955701_G_T rs1478039 chr8_14046065_A_G rs4637829 rs17118836 rs9886428 rs7014940 rs7014940 rs6530747 rs6999312 chr8_14144002_C_T rs7838948 chr8_14159132_A_T rs7000337 rs6988872 rs10089641 rs1461854 rs1461854 rs13274454 rs1355304 rs957607 rs2466921 rs2248500 rs894259 rs4831651 rs1480696 chr8_14775389_G_T chr8_14775389_G_T chr8_14902313_C_G rs73522889 chr8_15000439_C_T rs268439 chr8_15013842_C_G chr8_15019829_C_G rs750895 rs9325747 rs11995306 chr8_15239285_C_G rs2101809 corect_rs117990530 chr8_15255088_A_G chr8_15255088_A_G rs1495075 rs1495075 rs17121585 chr8_15381955_A_G rs11784308 rs11784308 rs10100797 rs7009035 rs7009035 rs11203714 rs1835141 chr8_15604429_A_G chr8_15604429_A_G chr8_15611037_A_G chr8_15677264_C_G rs2596577

genotype difference Col_52_IF Col_16_IF Col_38_IF Col_16_TS Col_33_IF Col_12_CB Col_52_IF Col_34_IF Col_33_IF Col_52_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_16_IF Col_33_IF Col_16_TS Col_52_IF Col_33_IF Col_12_CB Col_52_TS Col_33_IF Col_52_IF Col_38_CB Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_16_TS Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_16_IF Col_52_CB Col_34_TS Col_52_CB Col_38_CB Col_52_IF Col_33_IF Col_16_CB Col_52_IF Col_16_IF Col_34_IF Col_33_IF Col_16_IF Col_16_TS Col_33_CB Col_52_TS Col_16_IF Col_52_IF Col_38_TS Col_33_IF Col_16_IF Col_33_CB Col_16_TS Col_38_IF Col_08_TS

RI PT


Marker ID

298

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP BOT TOP BOT TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT BOT TOP

[A/C] [T/G] [A/C] [A/C] [T/C] [T/C] [T/C] [T/G] [T/G] [A/C] [T/C] [T/C] [T/C] [A/C] [G/C] [T/C] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/T] [T/G] [T/G] [A/G] [A/G] [T/C] [A/G] [T/G] [A/G] [A/G] [A/G] [A/C] [A/C] [T/C] [A/G] [A/G] [A/C] [A/C] [A/C] [T/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/G] [A/G]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

15748902 15771612 15815994 15853724 15872769 15872769 15952199 16037851 16037851 16039868 16087465 16090854 16159841 16175495 16253369 16299749 16336416 16406371 16435237 16512119 16592601 16817416 16826100 16831052 16867469 16867469 16868279 16868279 16904753 16957500 16975580 17020413 17021348 17035506 17035506 17052601 17161374 17166765 17168690 17331692 17374960 17400598 17418671 17442136 17555422 17555952 17581700 17730338 17739639 17739639 17739639 17836399 17891869 17918527 17981089 18015120 18015120 18046584 18072846 18079213

SC

M AN U TE D

AC C

EP

rs2596577 rs6987931 rs12549742 rs6983454 rs2898430 rs2898430 rs1038463 chr8_16037851_G_T chr8_16037851_G_T chr8_16039868_A_C chr8_16087465_C_T rs9643931 rs1429648 rs17582024 chr8_16253369_C_G chr8_16299749_C_T rs10110883 rs12681937 rs13259774 rs822286 rs13251770 rs823601 rs9918914 rs7835212 rs6985266 rs6985266 chr8_16868279_A_G chr8_16868279_A_G chr8_16904753_C_T rs17124087 rs2904647 chr8_17020413_A_G chr8_17021348_A_T chr8_17035506_A_C chr8_17035506_A_C rs10094988 chr8_17161374_C_T rs1548353 chr8_17168690_C_T rs2517120 rs2188020 chr8_17400598_A_G rs3780121 rs2720565 rs2979790 rs415088 chr8_17581700_C_T rs7815785 rs78484373 rs78484373 rs78484373 chr8_17836399_G_T rs17692377 rs1234367 rs17126237 rs4557740 rs4557740 rs17126336 rs17693103 kgp7847600

genotype difference Col_52_IF Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_52_CB Col_16_TS Col_33_IF Col_34_TS Col_33_IF Col_34_TS Col_52_IF Col_16_IF Col_33_IF Col_38_IF Col_59_TS Col_08_TS Col_33_IF Col_52_CB Col_59_TS Col_12_TS Col_52_CB Col_33_CB Col_33_IF Col_38_IF Col_45_IF Col_16_TS Col_52_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_12_TS Col_38_CB Col_59_TS Col_12_IF Col_33_IF Col_52_CB Col_52_IF Col_12_CB Col_34_TS Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_16_IF Col_12_IF Col_16_TS Col_33_CB Col_52_TS Col_33_IF Col_33_CB Col_12_CB Col_52_CB Col_16_TS Col_33_IF Col_45_IF Col_33_IF Col_33_IF

RI PT


Marker ID

299

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT TOP BOT TOP TOP BOT TOP TOP MINUS BOT TOP TOP TOP BOT TOP BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP BOT BOT TOP BOT TOP TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT

[T/G] [T/G] [A/G] [T/C] [T/C] [T/C] [T/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/C] [T/G] [A/G] [T/C] [A/G] [A/C] [T/C] [A/G] [A/G] [D/I] [T/C] [A/G] [A/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [A/G] [T/C] [A/G] [A/T] [A/T] [T/C] [A/G] [A/C] [A/T] [T/C] [T/C] [T/C] [T/C] [A/C] [A/G] [T/C] [A/G] [T/A] [T/C]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

18080747 18080747 18081010 18081129 18081129 18081829 18095335 18103095 18148015 18159185 18231934 18243113 18258351 18261647 18283339 18400819 18421010 18482596 18534285 18565844 18624828 18636126 18656889 18742049 18919857 18967822 19004562 19198620 19204945 19439646 19439646 19439646 19508835 19513321 19514868 19567921 19596369 19596369 19596369 19656648 19700244 19784574 19811967 19851940 19864488 19864488 20496840 20563929 20743401 21092467 21092961 21146323 21157621 21162980 21233872 21277933 21299092 21370386 21510700 21563222

SC

M AN U TE D

AC C

EP

kgp4376298 kgp4376298 kgp20200635 kgp3753812 rs1907951 rs9650592 rs4921883 rs4451337 rs13282737 rs6986036 rs62492969 rs7016785 kgp20336781 rs2410557 rs6989506 rs7013675 chr8_18421010_A_G rs2129703 rs10087403 rs17127078 rs1982800 rs335232 chr8_18656889_G_INDEL rs7843239 rs1027804 rs11779160 rs652975 chr8_19198620_A_G rs13271942 chr8_19439646_A_G chr8_19439646_A_G chr8_19439646_A_G chr8_19508835_C_T rs12543931 rs7828491 chr8_19567921_C_T chr8_19596369_C_T chr8_19596369_C_T chr8_19596369_C_T rs7008703 corect_rs115468458 rs3900537 rs256 chr8_19851940_C_T chr8_19864488_A_T chr8_19864488_A_T chr8_20496840_C_T rs17093001 rs6984780 chr8_21092467_A_T rs71513821 chr8_21146323_C_T rs10086856 rs10086198 rs2410685 rs9325883 rs13280180 rs11786869 chr8_21510700_A_T rs7813735

genotype difference Col_16_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_38_TS Col_52_IF Col_33_IF Col_33_CB Col_16_TS Col_33_IF Col_52_CB Col_52_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_16_IF Col_59_TS Col_12_TS Col_38_TS Col_33_IF Col_33_IF Col_52_CB Col_38_CB Col_52_IF Col_12_IF Col_38_CB Col_08_TS Col_33_IF Col_52_IF Col_16_TS Col_34_TS Col_38_IF Col_52_CB Col_12_CB Col_52_CB Col_08_TS Col_16_IF Col_33_CB Col_52_IF Col_38_CB Col_33_IF Col_33_CB Col_33_IF Col_34_TS Col_12_CB Col_12_CB

RI PT


Marker ID

300

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT TOP BOT BOT TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT PLUS TOP TOP TOP TOP BOT BOT BOT TOP

[A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/C] [A/G] [G/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/A] [T/G] [A/G] [C/G] [A/G] [T/C] [T/C] [T/A] [T/A] [A/G] [T/G] [A/T] [G/C] [T/G] [T/G] [T/C] [T/C] [T/C] [A/G] [T/G] [T/C] [T/C] [A/G] [T/C] [T/C] [I/D] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

21717529 21904212 22357598 22395309 22492143 22497681 22730082 22730082 22826384 22826384 22911073 22914891 23010298 23080049 23128469 23198732 23202918 23217420 23229334 23237547 23259377 23296683 23312394 23356940 23372038 23385167 23440612 23440655 23441791 23444387 23449184 23449405 23457977 23458354 23458354 23477243 23484361 23520043 23528404 23545558 23553455 23589105 23659511 23663200 23761051 23789259 23873739 23873739 23876353 23880997 23880997 23890132 23921785 23921785 23921785 23921785 23932243 24416733 24473215 24696669

SC

M AN U TE D

AC C

EP

rs12545347 rs1078363 rs2469749 rs1116084 rs7838146 rs6993093 chr8_22730082_A_G chr8_22730082_A_G chr8_22826384_A_G chr8_22826384_A_G rs12677679 rs10095594 rs7462795 chr8_23080049_A_G chr8_23128469_C_T rs11781891 chr8_23202918_A_G chr8_23217420_C_G chr8_23229334_C_T rs4493910 chr8_23259377_A_G corect_rs187478636 chr8_23312394_A_G chr8_23356940_C_T chr8_23372038_A_G chr8_23385167_C_T chr8_23440612_A_T chr8_23440655_A_C chr8_23441791_A_G chr8_23444387_C_G chr8_23449184_A_G chr8_23449405_C_T chr8_23457977_C_T chr8_23458354_A_T chr8_23458354_A_T chr8_23477243_A_G chr8_23484361_G_T chr8_23520043_A_T chr8_23528404_C_G chr8_23545558_G_T rs13267142 chr8_23589105_C_T rs310291 chr8_23663200_C_T chr8_23761051_A_G rs1705702 chr8_23873739_A_G chr8_23873739_A_G chr8_23876353_C_T chr8_23880997_C_T chr8_23880997_C_T chr8_23890132_INDEL_T chr8_23921785_A_G chr8_23921785_A_G chr8_23921785_A_G chr8_23921785_A_G rs7845836 rs13250765 rs17052249 rs196794

genotype difference Col_12_CB Col_34_IF Col_33_IF Col_33_IF Col_33_IF Col_16_CB Col_45_IF Col_52_IF Col_38_CB Col_52_IF Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_52_CB Col_12_CB Col_52_IF Col_52_CB Col_12_CB Col_52_CB Col_33_IF Col_52_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_59_TS Col_33_IF Col_12_CB Col_34_CB Col_34_IF Col_08_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_52_CB Col_38_CB Col_52_IF Col_33_IF Col_16_IF Col_38_CB Col_16_TS Col_38_CB Col_52_IF Col_59_TS Col_12_TS Col_52_IF Col_12_CB Col_52_IF Col_33_IF

RI PT


Marker ID

301

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP BOT BOT BOT TOP MINUS TOP BOT TOP BOT BOT TOP TOP BOT MINUS TOP BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT

[A/G] [A/C] [A/G] [A/G] [T/C] [T/C] [T/G] [A/C] [D/I] [A/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [I/D] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/C] [A/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/C] [T/G] [T/C] [T/C] [T/C]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

24778956 24791552 24819116 25480130 25557962 25574426 25633877 25754691 25778599 25869935 25875505 25896410 25910156 25982665 26142571 26142571 26160739 26234911 26269191 26280815 26308738 26308738 26511612 26530079 26545568 26569237 26578017 26652060 26720490 26728237 26786291 27159836 27220310 27244919 27328021 27441800 27539370 27564846 27590027 27664686 27680576 27681725 27827391 27885140 27957529 28022926 28031201 28165985 28269727 28269727 28414116 28598858 28643060 28651801 28651801 28735425 28954892 29157400 29157400 29197529

SC

M AN U TE D

AC C

EP

rs13251967 rs196839 rs2979682 chr8_25480130_A_G rs11997651 rs34000508 rs2278145 chr8_25754691_G_T chr8_25778599_G_INDEL chr8_25869935_A_C chr8_25875505_A_G rs17054793 chr8_25910156_C_T rs6557882 chr8_26142571_A_G chr8_26142571_A_G rs17055108 chr8_26234911_INDEL_T rs1042992 rs9694042 chr8_26308738_A_G chr8_26308738_A_G chr8_26511612_A_G rs13251131 chr8_26545568_C_T rs1122214 rs1036813 chr8_26652060_A_G rs580644 rs472585 rs6557957 rs11996459 rs17057043 rs17447286 rs2565065 rs12114305 rs559251 chr8_27564846_C_T rs2010776 rs4732756 rs727813 rs10087558 rs9650426 rs10097488 rs2290370 rs2015443 rs6558041 rs2614071 chr8_28269727_G_T chr8_28269727_G_T chr8_28414116_C_T chr8_28598858_A_G rs241189 rs17522554 rs17522554 chr8_28735425_A_C rs7844537 chr8_29157400_C_T chr8_29157400_C_T chr8_29197529_C_T

genotype difference Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_34_IF Col_34_CB Col_33_IF Col_33_CB Col_38_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_16_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_34_TS Col_33_CB Col_52_TS Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_16_TS Col_33_CB Col_33_IF Col_34_TS Col_33_IF Col_33_IF Col_34_CB Col_38_IF Col_34_CB Col_33_CB Col_33_TS Col_52_IF Col_12_CB Col_34_TS Col_16_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_12_TS Col_16_TS Col_33_IF Col_33_CB

RI PT


Marker ID

302

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT TOP PLUS BOT TOP PLUS TOP MINUS TOP TOP TOP TOP BOT BOT TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT TOP TOP BOT TOP BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT TOP BOT BOT TOP BOT

[T/C] [T/C] [T/C] [T/C] [A/C] [D/I] [T/G] [C/G] [I/D] [A/G] [D/I] [A/C] [A/C] [A/G] [A/C] [T/C] [T/C] [A/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/C] [A/G] [A/G] [T/G] [T/G] [T/C] [T/G] [A/T] [A/C] [T/G] [A/C] [T/G] [T/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

29253809 29261164 29270995 29274101 29297370 29298748 29316044 29316250 29333488 29345678 29415638 29443591 29443591 29469284 29509616 29521682 29547505 29548276 29550043 29564694 29671418 29672701 29746894 29835370 29866059 29977824 30202711 30221351 30286061 30536793 30911313 30959370 30990005 31135931 31267653 31280717 31465928 31465928 31469479 31474141 31539942 31588524 31959943 31967858 31998924 32084242 32177114 32197182 32234759 32234759 32234759 32234759 32234759 32289625 32401561 32412359 32443090 32487729 32524451 32535579

SC

M AN U

TE D

chr8_29253809_A_G rs643542 chr8_29270995_C_T rs13278512 chr8_29297370_A_C chr8_29298748_INDEL_TAACT chr8_29316044_G_T chr8_29316250_C_G chr8_29333489_INDEL_T chr8_29345678_A_G chr8_29415638_G_INDEL rs4732972 rs4732972 chr8_29469284_A_G chr8_29509616_A_C chr8_29521682_C_T chr8_29547505_A_G rs60988909 chr8_29550043_A_G chr8_29564694_A_G chr8_29671418_A_G chr8_29672701_A_G chr8_29746894_C_T chr8_29835370_C_T chr8_29866059_A_G chr8_29977824_A_C rs6993943 rs7000773 rs62502001 kgp20234423 chr8_30911313_A_G chr8_30959370_A_C chr8_30990005_A_T rs10110117 chr8_31267653_A_C rs6983355 kgp11240886 kgp11240886 rs4513929 rs35753505 rs12677942 chr8_31588524_A_G rs1542517 rs77670127 rs11777708 chr8_32084242_C_T rs10156318 rs1685117 rs10216782 rs10216782 rs10216782 rs10216782 rs10216782 chr8_32289625_G_T rs6468119 rs2439312 rs2466062 chr8_32487729_C_T rs2919392 rs2466084

genotype difference Col_45_TS Col_33_IF Col_16_IF Col_33_CB Col_33_IF Col_52_IF Col_38_IF Col_16_TS Col_33_IF Col_52_CB Col_33_CB Col_16_TS Col_38_TS Col_33_IF Col_33_CB Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_45_TS Col_33_IF Col_52_CB Col_12_IF Col_52_IF Col_33_IF Col_16_CB Col_38_TS Col_34_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_08_TS Col_16_TS Col_52_IF Col_59_TS Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_52_CB

RI PT


Marker ID

303

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT TOP TOP MINUS MINUS BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP TOP BOT TOP BOT BOT

[A/G] [T/C] [C/G] [T/G] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/C] [A/G] [A/G] [T/C] [T/C] [C/G] [T/C] [T/C] [T/G] [A/G] [A/G] [I/D] [I/D] [T/C] [A/T] [A/T] [A/C] [A/G] [T/C] [T/G] [A/C] [A/G] [A/G] [A/G] [T/G] [T/C] [A/G] [T/C] [T/G] [A/G] [A/G] [T/C] [A/G] [A/C] [A/T] [T/A] [T/C] [A/C] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [A/C] [T/C] [A/G] [T/G] [T/G]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

32624387 32748779 32760113 33005939 33005939 33115544 33115544 33116943 33116943 33133775 33907352 34022494 34136771 34236992 34236992 34381884 34490717 34730035 34808188 35574879 36034017 36410252 36410252 36441350 36489327 36489327 36686343 36690323 36758946 36786379 36811203 36846109 36862356 37030919 37120864 38091918 38133701 38178928 38319349 38407075 38683557 38709553 39202937 39224968 39397228 39681872 39777529 39831647 39831647 39862881 39864479 39938945 40024606 40024606 40041393 40065457 40084203 40314789 40413080 40429030

SC

M AN U TE D

AC C

EP

rs6992642 rs4557662 chr8_32760113_C_G rs16880419 rs16880419 rs7843085 rs7843085 rs13253577 rs13253577 rs7833088 rs6468220 rs16881601 chr8_34136771_C_T rs2609653 rs2609653 chr8_34381884_C_G chr8_34490717_C_T chr8_34730035_A_G rs11996585 chr8_35574879_A_G chr8_36034017_C_T chr8_36410253_A_INDEL chr8_36410253_A_INDEL chr8_36441350_C_T chr8_36489327_A_T chr8_36489327_A_T rs16885468 rs13439887 chr8_36758946_C_T rs17400167 chr8_36811203_A_C rs7816345 chr8_36862356_C_T rs7005136 chr8_37120864_A_C exm696250 chr8_38133701_A_G chr8_38178928_A_G chr8_38319349_G_T rs4733918 chr8_38683557_A_G rs1135990 chr8_39202937_A_G rs6474131 chr8_39397228_A_T chr8_39681872_A_T rs7820268 rs2543061 rs2543061 rs10109853 rs2909333 rs13275833 rs6474228 rs6474228 chr8_40041393_A_C rs10086086 rs7822183 rs4549753 chr8_40413080_G_T rs7829042

genotype difference Col_33_IF Col_33_CB Col_52_IF Col_08_TS Col_33_CB Col_38_CB Col_59_CB Col_33_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_38_TS Col_33_IF Col_16_TS Col_34_TS Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_52_CB Col_33_CB Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_16_TS Col_33_IF Col_12_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_12_CB Col_52_CB Col_12_CB Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_52_IF Col_52_CB Col_33_IF Col_52_IF

RI PT


Marker ID

304

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP BOT MINUS BOT PLUS BOT BOT BOT TOP TOP BOT TOP BOT TOP BOT BOT BOT BOT TOP BOT TOP TOP BOT TOP TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT TOP

[T/G] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [I/D] [T/C] [D/I] [T/C] [T/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/G] [A/G] [T/C] [T/G] [T/G] [T/A] [A/G] [T/C] [A/G] [A/C] [T/C] [A/G] [A/C] [T/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [T/C] [C/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/T] [A/T] [T/G] [A/G]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

40429030 40517786 40555742 40569004 40895774 40988523 40996160 41303896 41303896 41324400 41758460 41764793 42021296 42103378 42351311 43009195 43107776 43135313 43148478 43169441 43473748 43690577 43692822 46944913 48037052 48515523 48832977 49015537 49062233 49186089 49808593 49957895 50027790 50054112 50187902 50243196 50330842 50523731 50581476 50905369 50927333 50943469 50977672 51049598 51084731 51161011 51164313 51164313 51230812 51443564 51468715 51486840 51550063 51697870 51697870 51808390 51858762 51858762 51907056 51937531

SC

M AN U

TE D

rs7829042 chr8_40517786_G_T rs4496956 rs10089331 rs7011811 rs7827040 rs11996523 rs7018403 rs7018403 rs11986663 chr8_41758460_A_G chr8_41764793_C_T chr8_42021296_C_T chr8_42103378_A_G rs6988483 chr8_43009196_INDEL_T rs1825011 chr8_43135313_INDEL_TACTC rs76109318 rs16891810 chr8_43473748_A_G chr8_43690577_C_T chr8_43692822_A_G rs1357818 kgp10764327 rs4608108 rs12334811 rs28457765 chr8_49062233_G_T corect_rs139141632 chr8_49808593_A_T rs7835336 rs710894 rs1828494 rs11995494 rs13254483 rs1379936 rs2132526 rs7824171 chr8_50905369_A_G rs1484813 rs12543077 rs203946 rs11987882 rs4873128 chr8_51161011_A_G rs4383986 rs4383986 rs12541772 rs218876 chr8_51468715_C_G rs1481474 chr8_51550063_C_T corect_rs113697539 corect_rs113697539 corect_rs117470764 chr8_51858762_A_T chr8_51858762_A_T rs7818008 chr8_51937531_C_T

genotype difference Col_12_IF Col_33_IF Col_59_TS Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_16_TS Col_52_IF Col_16_TS Col_33_CB Col_16_TS Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_38_CB Col_33_IF Col_52_CB Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_52_IF Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_34_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_38_TS Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_16_IF Col_38_CB Col_52_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF

RI PT


Marker ID

305

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT MINUS TOP TOP BOT TOP BOT BOT BOT BOT TOP TOP BOT TOP BOT TOP BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP BOT TOP TOP BOT TOP TOP BOT TOP TOP

[T/C] [T/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/G] [A/G] [T/C] [A/G] [T/C] [T/C] [D/I] [A/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/C] [T/C] [A/G] [T/C] [T/C] [T/G] [T/G] [A/G] [A/G] [A/G] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [C/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

51945886 51974368 51996075 52086686 52222569 52253034 52297656 52338934 52655519 52917469 53145161 53313496 53335677 53447256 53449548 53501285 53555069 53605442 53875701 54035873 54130678 54496270 54651305 54822319 54858494 54863001 54866491 55056861 55326450 55326450 55434007 55449840 55523753 55776912 56064068 56064834 56133320 56170306 56338790 56413467 56492754 56509383 56514919 56757808 56874017 56924362 56995675 57352136 57585856 57640438 57893223 57952770 57969572 58051471 58305969 58461249 58677060 58799068 58835639 58889557

SC

M AN U TE D

AC C

EP

chr8_51945886_C_T rs11990832 rs4873166 chr8_52086686_A_G chr8_52222569_A_G rs16916015 rs10504117 rs2392900 rs4242472 rs2554465 rs7844701 rs1427469 rs716583 rs1440798 rs4873659 rs2360279 rs2305427 rs7002395 rs527238 rs67970939 rs6473795 rs4873263 rs2376011 rs7824575 rs11783652 chr8_54863001_A_G rs6981243 rs10100207 rs12542212 rs12542212 rs11782075 rs7009744 rs369240 rs768122 chr8_56064068_C_T rs7836267 rs4341145 rs7002941 chr8_56338790_A_C rs2622571 rs4236995 rs4738298 rs10109697 rs12155521 rs2719267 rs2719236 rs4641033 rs13262975 rs2317630 chr8_57640438_A_C chr8_57893223_C_G rs4738563 rs1442121 rs10958522 rs6651295 rs1451142 chr8_58677060_C_T rs7464304 rs930319 rs6987258

genotype difference Col_12_CB Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_38_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_38_TS Col_33_IF Col_16_TS Col_34_IF Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_16_TS Col_12_CB Col_34_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_38_IF Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_16_TS Col_33_IF Col_33_IF

RI PT


Marker ID

306

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP BOT BOT BOT TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP BOT TOP BOT TOP BOT BOT BOT TOP TOP TOP BOT TOP TOP BOT BOT MINUS TOP BOT BOT BOT BOT TOP

[A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [T/C] [T/G] [A/G] [T/C] [T/C] [T/C] [A/C] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [C/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/G] [A/G] [A/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [A/G] [A/T] [T/C] [A/G] [T/G] [A/G] [T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/C] [A/G] [T/C] [T/C] [I/D] [A/G] [T/C] [T/C] [T/G] [T/A] [A/G]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

59150985 59171724 59196091 59254904 59410853 59498190 59501863 59622995 59631013 59632135 59632135 59632135 59646515 59692275 59845715 59954605 59954605 59980776 60093954 60190044 60461459 60518266 60537819 60740826 61036683 61046885 61117903 61373296 61458307 61512060 61568210 61764076 61935250 61935250 61947573 62099814 62127463 62404028 62405397 62493835 62670356 62694154 62697358 62773778 62838152 62891832 62892296 62924308 62969408 62970874 63336135 63481760 63491015 63519076 63531664 63574725 63615730 63634678 63643498 63669841

SC

M AN U TE D

AC C

EP

rs17198545 rs16923230 rs12115045 rs7820691 kgp20265025 rs12677290 chr8_59501863_A_G corect_rs147174041 chr8_59631013_A_G rs10091613 rs10091613 rs10091613 rs6471748 rs7815285 rs16924281 chr8_59954605_A_G chr8_59954605_A_G chr8_59980776_C_T rs3122694 rs7001107 chr8_60461459_C_G chr8_60518266_A_G chr8_60537819_C_T chr8_60740826_A_G rs2611367 chr8_61046885_C_T rs7841174 chr8_61373296_G_T chr8_61458307_A_G rs10957150 rs623917 rs4342642 chr8_61935250_A_G chr8_61935250_A_G rs1962862 rs11785638 rs1808033 rs1968990 rs4738899 rs1574196 chr8_62670356_G_T rs17802118 rs7824375 rs7000025 rs7824027 rs12682418 rs12545751 rs12675420 rs10957210 chr8_62970874_G_T chr8_63336135_C_T rs11787352 rs11784165 chr8_63519077_A_INDEL rs16929298 chr8_63574725_C_T chr8_63615730_C_T chr8_63634678_A_C chr8_63643498_A_T chr8_63669841_C_T

genotype difference Col_33_IF Col_38_TS Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_45_IF Col_52_TS Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_38_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_16_TS Col_52_CB Col_33_CB Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_34_TS Col_12_CB Col_33_IF

RI PT


Marker ID

307

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT TOP BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP BOT

[T/C] [T/C] [A/G] [A/G] [C/G] [C/G] [A/G] [A/G] [T/C] [T/G] [A/C] [A/C] [T/G] [T/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/C] [T/C] [T/C] [A/G] [T/C] [T/G] [T/C] [A/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [C/G] [C/G] [A/C] [A/C] [T/C] [T/C] [A/G] [C/G] [A/G] [G/C] [T/G] [T/C] [T/C] [T/C] [T/C] [A/C] [A/G] [A/C] [T/C] [A/G] [A/G] [T/C]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

63725209 63874975 64042539 64042539 64088264 64088264 64406139 64442985 64636395 64753633 64764550 64764550 65186616 65186616 65235506 65402084 65509256 65528764 65634220 65708857 66025862 66079805 66102313 66222686 66449457 66596320 66679221 66686087 66711501 67218257 67840116 68231676 68676568 68727993 68753913 68813274 68964940 69041728 69041919 69041919 69057145 69066793 69155129 69186276 69196430 69209693 69271567 69320064 69322475 69323052 69323052 69323052 69470800 69513803 69647914 69677480 69678500 69681165 69735094 69767956

SC

M AN U TE D

AC C

EP

chr8_63725209_C_T rs1350058 rs12115089 rs12115089 chr8_64088264_C_G chr8_64088264_C_G chr8_64406139_A_G chr8_64442985_A_G rs11994082 rs10504367 chr8_64764550_A_C chr8_64764550_A_C rs2356665 rs2356665 rs10957308 rs3862072 kgp28849642 chr8_65528764_A_G rs4327887 chr8_65708857_A_C chr8_66025862_A_G rs4582599 rs13253048 rs13278674 rs6981589 rs6991669 chr8_66679221_A_C rs2063685 rs11783534 rs4737782 rs7837333 chr8_68231676_C_T rs16933648 rs10087150 chr8_68753913_A_G rs6472354 rs3812454 chr8_69041728_A_G chr8_69041919_C_G chr8_69041919_C_G rs13251311 rs1434781 rs1997035 rs12681097 rs12542353 rs12155829 rs1880535 chr8_69320064_C_G rs7013706 chr8_69323052_A_G chr8_69323052_A_G chr8_69323052_A_G rs9692812 rs1369231 rs4737915 chr8_69677480_G_T rs11987041 rs6472420 rs2958330 kgp20564167

genotype difference Col_34_CB Col_33_IF Col_33_IF Col_52_IF Col_34_CB Col_12_CB Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_52_TS Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_08_CB Col_33_IF Col_12_CB Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_38_TS Col_52_TS Col_38_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF

RI PT


Marker ID

308

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP TOP TOP TOP PLUS BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT TOP BOT TOP BOT

[A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [I/D] [T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [T/A] [T/C] [T/C] [T/G] [A/G] [T/G] [T/C] [T/G] [T/C] [A/C] [A/G] [T/G] [T/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [A/C] [A/G] [T/G] [A/G] [T/C] [T/C] [T/G] [T/G] [A/G] [G/C] [A/G] [T/C]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

69831858 69831858 69998647 69998647 69998647 70006121 70007938 70019444 70143771 70186364 70203292 70414309 70414309 70463628 70745171 71005911 71060154 71334489 71340989 71370748 71538686 71544990 71563212 71663110 71963897 72035333 72116724 72345405 72345405 72375328 72416866 72616615 72710510 72731717 72858966 72925434 72959152 73023295 73231564 73240030 73248631 73351215 73472871 73503886 73519816 73549542 73549542 73549542 73683526 73709303 73731212 73815083 73939623 74232313 74303529 74413889 74507018 74683401 74861484 74975532

SC

M AN U TE D

AC C

EP

chr8_69831858_C_T chr8_69831858_C_T rs11995588 rs11995588 rs11995588 chr8_70006121_A_G rs629535 chr8_70019444_A_INDEL rs13275450 rs10089248 chr8_70203292_C_T rs6992749 rs6992749 rs10504451 rs3750268 rs10504466 chr8_71060154_A_T rs7823221 rs16937001 chr8_71370748_G_T rs13280965 rs16937164 corect_rs117409576 rs4581087 chr8_71963897_A_G chr8_72035333_G_T rs10957540 rs4434652 rs4434652 rs12675477 chr8_72416866_A_G chr8_72616615_C_T rs6472619 rs7009696 rs12114832 rs894886 rs6982184 rs16938030 rs13275862 rs7825542 chr8_73248631_A_G rs7006111 rs349346 rs16938246 rs17762432 chr8_73549542_A_G chr8_73549542_A_G chr8_73549542_A_G chr8_73683526_G_T chr8_73709303_A_G rs2919404 rs6472714 rs6982126 chr8_74232313_C_T rs4738342 chr8_74413889_G_T rs905539 chr8_74683401_C_G rs7830335 rs1392125

genotype difference Col_16_TS Col_33_IF Col_16_TS Col_38_TS Col_12_IF Col_33_IF Col_52_IF Col_16_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_45_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_33_CB Col_33_IF Col_12_CB Col_38_TS Col_33_IF Col_12_IF Col_12_CB Col_12_CB Col_38_CB Col_33_IF Col_33_CB Col_45_CB Col_12_IF Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF

RI PT


Marker ID

309

IlmnStrand

SNP

Chr

MapInfo

PLUS PLUS PLUS PLUS TOP TOP BOT BOT BOT BOT TOP BOT MINUS BOT BOT BOT BOT BOT TOP PLUS TOP BOT TOP TOP BOT BOT BOT BOT TOP BOT MINUS TOP MINUS TOP BOT BOT TOP TOP BOT PLUS BOT TOP BOT TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT BOT

[I/D] [I/D] [I/D] [I/D] [A/G] [A/C] [T/C] [T/C] [T/C] [T/G] [A/G] [T/C] [I/D] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [D/I] [A/T] [T/C] [A/T] [A/T] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [D/I] [A/G] [I/D] [A/G] [T/C] [T/C] [A/T] [A/G] [T/G] [D/I] [T/C] [A/G] [T/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/C] [A/G] [T/C] [T/C] [T/C]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

75351830 75351830 75351830 75351830 75377173 75395361 75563920 75563920 75563920 75580419 75657127 75691260 75741279 75752084 75752084 75757172 75767414 75774987 75803536 75841388 75889291 75889417 75894914 75894914 75900388 75906641 75934347 75946378 75952221 75988624 75989176 75995106 75995996 76000165 76003013 76009527 76028808 76033604 76041070 76059784 76098704 76108666 76134023 76140370 76140663 76148994 76198239 76205205 76205205 76219270 76219270 76247288 76248748 76255681 76282062 76307872 76322345 76328331 76328331 76330610

SC

M AN U TE D

AC C

EP

chr8_75351831_INDEL_T chr8_75351831_INDEL_T chr8_75351831_INDEL_T chr8_75351831_INDEL_T rs10088057 rs10104370 chr8_75563920_C_T chr8_75563920_C_T chr8_75563920_C_T rs16938934 rs13268614 rs7812753 rs68139375 chr8_75752084_A_G chr8_75752084_A_G chr8_75757172_C_T chr8_75767414_C_T rs11774767 rs1560784 chr8_75841388_C_INDEL chr8_75889291_A_T chr8_75889417_A_G chr8_75894914_A_T chr8_75894914_A_T rs4472488 chr8_75906641_C_T chr8_75934347_C_T chr8_75946378_C_T chr8_75952221_C_T chr8_75988624_A_C chr8_75989176_C_INDEL chr8_75995106_A_G rs33943086 rs1378613 chr8_76003013_A_G rs6981492 chr8_76028808_A_T chr8_76033604_A_G chr8_76041070_A_C chr8_76059784_G_INDEL chr8_76098704_A_G chr8_76108666_A_G rs1995957 rs16939045 chr8_76140663_C_T rs16939047 rs7018058 chr8_76205205_C_T chr8_76205205_C_T chr8_76219270_C_T chr8_76219270_C_T chr8_76247288_C_T chr8_76248748_C_T chr8_76255681_C_T rs16939063 chr8_76307872_G_T rs1460250 chr8_76328331_A_G chr8_76328331_A_G chr8_76330610_A_G

genotype difference Col_38_CB Col_45_TS Col_52_TS Col_12_IF Col_34_CB Col_52_CB Col_16_TS Col_38_TS Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_CB Col_52_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_38_CB Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_16_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_38_IF Col_52_IF Col_16_IF Col_52_TS Col_52_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_38_IF Col_33_IF

RI PT


Marker ID

310

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT PLUS TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT PLUS BOT BOT PLUS BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT MINUS MINUS BOT BOT TOP TOP BOT BOT TOP TOP BOT TOP TOP TOP BOT TOP

[T/C] [A/G] [T/C] [T/C] [T/C] [T/G] [T/C] [G/C] [T/G] [T/G] [D/I] [A/G] [A/G] [A/G] [A/G] [A/T] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/G] [T/A] [T/C] [T/G] [G/C] [T/A] [A/G] [T/G] [D/I] [T/C] [T/C] [D/I] [T/C] [T/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [D/I] [D/I] [T/C] [T/C] [A/G] [A/G] [T/A] [T/C] [A/G] [A/G] [T/G] [A/C] [A/C] [A/G] [T/C] [A/G]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

76330610 76332258 76337691 76343885 76344924 76346190 76352196 76371416 76381804 76383737 76386325 76386803 76388113 76389173 76389346 76391584 76395091 76396971 76398927 76399376 76399565 76401202 76403004 76403235 76406349 76406392 76413206 76413778 76414456 76417878 76471508 76482448 76522680 76524708 76560680 76598878 76606362 76625353 76625353 76632003 76642180 76688321 76688321 76688321 76690049 76690049 76715328 76724602 76743851 76743851 76749407 76804524 76827190 76832808 76833499 76878627 76878627 76881491 76901094 76910713

SC

M AN U TE D

AC C

EP

chr8_76330610_A_G chr8_76332258_C_T chr8_76337691_A_G chr8_76343885_C_T chr8_76344924_C_T chr8_76346190_G_T chr8_76352196_A_G chr8_76371416_C_G chr8_76381804_A_C chr8_76383737_G_T rs35502003 chr8_76386803_C_T chr8_76388113_C_T chr8_76389173_A_G rs2037095 chr8_76391584_A_T chr8_76395091_A_G chr8_76396971_C_T chr8_76398927_A_G chr8_76399376_C_T chr8_76399565_A_G chr8_76401202_A_G rs7002984 chr8_76403235_A_T chr8_76406349_C_T chr8_76406392_A_C chr8_76413206_C_G rs2977970 chr8_76414456_A_G chr8_76417878_A_C chr8_76471508_G_INDEL chr8_76482448_A_G chr8_76522680_A_G chr8_76524708_G_INDEL chr8_76560680_C_T chr8_76598878_A_C chr8_76606362_C_T rs6472929 rs6472929 chr8_76632003_A_G chr8_76642180_C_T chr8_76688321_C_T chr8_76688321_C_T chr8_76688321_C_T chr8_76690049_ATG_INDEL chr8_76690049_ATG_INDEL chr8_76715328_A_G chr8_76724602_A_G rs4585728 rs4585728 chr8_76749407_A_T rs1462436 chr8_76827190_C_T chr8_76832808_C_T chr8_76833499_G_T chr8_76878627_A_C chr8_76878627_A_C rs10504601 chr8_76901094_C_T chr8_76910713_A_G

genotype difference Col_38_TS Col_12_IF Col_33_IF Col_33_IF Col_33_CB Col_34_CB Col_33_IF Col_52_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_59_TS Col_45_IF Col_33_IF Col_33_IF Col_33_IF Col_08_CB Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_34_IF Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_08_TS Col_33_TS Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_12_CB Col_12_CB

RI PT


Marker ID

311

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP

[T/A] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/T] [A/T] [A/T] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/G] [A/C] [A/G] [A/G] [T/C] [T/C] [T/G] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/A] [T/G] [A/G] [A/G] [A/C] [A/G]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

76915110 77052260 77052260 77228222 77236201 77284322 77297117 77326204 77344381 77390201 77492915 77492915 77526501 77671877 77695388 77876363 77876363 77896845 78040531 78042456 78042456 78170272 78178830 78282382 78373108 78511219 78580826 78580826 78580826 78637869 78644605 78818556 78827238 78873842 78897147 78941331 78953446 78956658 78981447 79000607 79031935 79206119 79206119 79254910 79254910 79334466 79343367 79526456 79575846 79620354 79644437 79723108 79723108 79758241 79820875 79846184 80020679 80145056 80279515 80423136

SC

M AN U TE D

AC C

EP

chr8_76915110_A_T rs10112191 rs10112191 rs1405348 rs1405351 rs28502445 rs12680480 rs10441573 chr8_77344381_A_G chr8_77390201_A_G rs11997355 rs11997355 rs1433962 rs6472983 rs6985531 rs4278125 rs4278125 rs10106087 rs16939429 rs11990859 rs11990859 rs10101496 chr8_78178830_A_G chr8_78282382_A_G chr8_78373108_C_T rs395261 chr8_78580826_A_T chr8_78580826_A_T chr8_78580826_A_T rs1022374 rs1519349 rs17479559 chr8_78827238_C_T rs13269418 rs880091 rs7004112 chr8_78953446_A_C rs2219968 chr8_78981447_A_G rs2448962 rs13278866 rs76158229 rs76158229 rs1017341 rs1017341 rs7010579 rs13254983 rs6473109 corect_rs141861728 rs7010897 rs1545228 rs2587156 rs2587156 rs4739111 rs2587150 rs4739148 chr8_80020679_A_G rs1227666 rs11985579 rs10092479

genotype difference Col_16_IF Col_33_CB Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_CB Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_34_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_34_CB Col_38_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_38_CB Col_12_TS Col_12_CB Col_12_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB

RI PT


Marker ID

312

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT BOT TOP TOP TOP TOP MINUS TOP BOT BOT BOT TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT

[A/C] [A/C] [T/C] [A/G] [A/G] [A/T] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [T/G] [T/A] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/A] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/C] [A/G] [I/D] [A/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [A/C] [A/C] [T/C] [T/G] [T/G] [T/G] [T/C]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

80498998 80498998 80972451 81004921 81299603 81308150 81375457 81397268 81445148 81887806 81940988 82033862 82246092 82262285 82335354 82390760 82392849 82392849 82392849 82396919 82443204 82458615 82458615 82556146 82625042 82697625 82722134 82725651 82752291 82775001 82890913 82929261 82937296 82937296 82942569 82961957 83100820 83297154 83297154 83297154 83299295 83299295 83326590 83424234 83590728 83667051 84025585 84031172 84031172 84155214 84183958 84219847 84279884 84279884 84279884 84334585 84442025 84442025 84616700 84616797

SC

M AN U TE D

AC C

EP

rs1157435 rs1157435 rs7837150 rs75091333 rs7003011 rs7000782 chr8_81375457_C_T rs10095139 chr8_81445148_C_T chr8_81887806_C_T chr8_81940988_A_C rs10504732 rs12155567 chr8_82262285_A_T rs7012897 rs1054135 rs8192688 rs8192688 rs8192688 rs7826463 chr8_82443204_A_T chr8_82458615_A_G chr8_82458615_A_G chr8_82556146_A_G chr8_82625042_A_G chr8_82697625_A_G chr8_82722134_A_G chr8_82725651_A_C rs12056632 chr8_82775001_A_INDEL chr8_82890913_A_C rs11985393 rs16909815 rs16909815 rs12682120 rs998249 chr8_83100820_C_T rs74667855 rs74667855 rs74667855 rs13277937 rs13277937 rs7016611 rs7829925 rs4237098 chr8_83667051_A_G rs6998971 rs7828914 rs7828914 rs10106717 chr8_84183958_A_G rs785964 rs952017 rs952017 rs952017 rs13265809 rs1374606 rs1374606 rs4379441 rs73295091

genotype difference Col_34_IF Col_12_IF Col_33_IF Col_33_CB Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_38_TS Col_52_CB Col_34_CB Col_12_IF Col_33_CB Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_52_IF Col_33_IF Col_12_CB Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_38_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_38_IF Col_12_CB Col_33_IF Col_33_IF Col_34_TS Col_33_IF Col_33_IF

RI PT


Marker ID

313

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP BOT BOT TOP TOP BOT BOT TOP TOP BOT TOP TOP TOP BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT TOP TOP TOP BOT TOP BOT PLUS TOP BOT BOT TOP BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT MINUS

[T/G] [T/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/T] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/G] [T/C] [A/C] [A/C] [A/C] [T/C] [A/G] [T/G] [D/I] [A/T] [T/C] [T/C] [A/C] [T/C] [T/G] [T/G] [T/G] [A/C] [A/G] [T/C] [A/C] [A/C] [A/C] [T/G] [T/G] [T/G] [T/C] [I/D]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

84617129 84617129 84618780 84663561 84695361 84700648 84730967 84732202 84772442 84890104 84924780 84933615 84965972 85147690 85509648 85521634 85716274 86026201 86108409 86129778 86268313 86278678 86511775 86548761 86548761 87019982 87019982 87155151 87163761 87390810 87503598 87540872 87615964 87617600 87633245 87633245 87807203 87813597 87833711 87863563 88020110 88255119 88480902 88500608 88574929 88580427 88934441 89050342 89095141 89268543 89310568 89327738 89415843 89514775 89680709 89722076 89722076 89722076 89799516 89879156

SC

M AN U TE D

AC C

EP

A113519992 A113519992 rs10958166 chr8_84663561_C_T chr8_84695361_C_T chr8_84700648_C_T rs6984686 rs4132243 rs4590440 rs7820311 rs16912386 chr8_84933615_A_G chr8_84965972_A_G rs7840633 rs1681355 rs11985284 rs1014915 chr8_86026201_A_G chr8_86108409_C_T chr8_86129778_A_G kgp4357834 chr8_86278678_G_T rs6981582 kgp12436430 kgp12436430 rs76640295 rs76640295 exm708299 exm708316 rs28504305 corect_rs118071370 rs10956871 rs4961202 chr8_87617600_A_G chr8_87633245_G_T chr8_87633245_G_T rs11786304 rs7018237 rs10808349 chr8_87863563_G_T chr8_88020110_G_INDEL chr8_88255119_A_T rs428838 chr8_88500608_A_G chr8_88574929_A_C corect_rs190729132 rs1006364 chr8_89050342_A_C rs11782395 rs6994019 rs10100297 rs10504846 rs13278603 rs6469448 chr8_89680709_A_C chr8_89722076_A_C chr8_89722076_A_C chr8_89722076_A_C rs1909271 chr8_89879157_INDEL_T

genotype difference Col_08_IF Col_38_CB Col_12_CB Col_52_IF Col_52_TS Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_16_CB Col_38_IF Col_38_CB Col_12_CB Col_33_IF Col_33_IF Col_12_IF Col_52_CB Col_33_IF Col_12_CB Col_52_CB Col_16_TS Col_52_IF Col_34_TS Col_33_CB Col_33_IF Col_33_IF Col_52_TS Col_38_IF Col_12_CB Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_16_IF Col_38_TS Col_08_TS Col_34_IF Col_38_CB Col_33_IF Col_16_CB

RI PT


Marker ID

314

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT TOP BOT TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP TOP BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP BOT TOP TOP BOT TOP BOT TOP BOT TOP BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT TOP TOP BOT PLUS PLUS TOP MINUS

[A/G] [A/C] [T/C] [T/G] [A/G] [T/G] [A/C] [A/G] [A/G] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/C] [A/G] [T/C] [A/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/C] [A/C] [T/C] [A/C] [T/C] [A/G] [T/G] [A/G] [T/C] [T/C] [T/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [A/G] [T/C] [D/I] [D/I] [A/G] [D/I]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

90105157 90300401 90601100 90613278 90629430 90678123 90708328 90804165 90982814 90983460 90983475 90992240 90993150 90993640 91035913 91238566 91343774 91343774 91434040 91464365 91968527 91989355 92055426 92137446 92398290 92409138 92461563 92651782 92699100 92909899 92940952 92940952 92940952 92940952 92941606 93088828 93088828 93141987 93216034 93279099 93352921 93424621 93426059 93627954 93721099 93784397 93831343 94017751 94032622 94192318 94286326 94648740 95078963 95205117 95224027 95234716 95384398 95384398 95419698 95744376

SC

M AN U TE D

AC C

EP

rs1240069 rs13274960 rs11780016 rs827725 rs656153 rs12216864 chr8_90708328_A_C rs39509 chr8_90982814_A_G newrs34767364 chr8_90983475_A_C chr8_90992240_C_T chr8_90993150_C_T chr8_90993640_C_T rs7000324 rs12682044 rs12542044 rs12542044 rs730679 rs7008126 rs1060583 chr8_91989355_A_C rs7820781 rs11778758 rs10102673 rs4734035 chr8_92461563_C_T chr8_92651782_C_T chr8_92699100_C_T chr8_92909899_A_G chr8_92940952_A_G chr8_92940952_A_G chr8_92940952_A_G chr8_92940952_A_G chr8_92941606_C_T rs7461004 rs7461004 rs12056584 rs7817028 rs967226 chr8_93352921_C_T rs9297909 rs4735174 chr8_93627954_C_T chr8_93721099_A_G corect_rs181776870 rs7009343 rs6471356 rs279978 rs1374629 rs10091769 rs13274827 rs2978151 rs10956904 chr8_95224027_A_G rs2445704 chr8_95384398_C_INDEL chr8_95384398_C_INDEL rs2291439 chr8_95744376_C_INDEL

genotype difference Col_33_IF Col_52_IF Col_38_IF Col_33_IF Col_33_IF Col_12_CB Col_38_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_38_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_52_CB Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_34_CB Col_38_IF Col_52_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_38_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_52_CB Col_16_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_38_IF Col_52_TS Col_16_IF

RI PT


Marker ID

315

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT TOP BOT BOT TOP BOT TOP TOP TOP BOT MINUS TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT TOP BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT

[T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/G] [T/G] [T/C] [A/C] [T/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [I/D] [A/G] [A/G] [T/C] [T/C] [T/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [G/C] [G/C]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

95783824 95784262 95798269 95879035 95888307 95970233 96049339 96233653 96233653 96389854 96446999 96467671 96510732 96518204 96518204 96555479 96563049 96563049 96576196 96594239 96620404 96625550 96959841 97007094 97065955 97065955 97219690 97386841 97833936 97995627 98399988 98586824 98710543 98787983 98827531 98860712 99137153 99305363 99379259 99846642 99988050 100141089 100167804 100187501 100432976 100583364 101016286 101026725 101174426 101222499 101283085 101676572 101816789 101833267 101944666 102156943 102156943 102162717 102316271 102316271

SC

M AN U TE D

AC C

EP

chr8_95783824_A_G chr8_95784262_A_G chr8_95798269_C_T rs16917102 rs1129152 chr8_95970233_C_T rs2678827 chr8_96233653_A_G chr8_96233653_A_G chr8_96389854_C_T rs1873745 rs1532658 chr8_96510732_A_G rs12676175 rs12676175 rs3104999 rs3134212 rs3134212 rs3104988 rs4735376 rs3104899 rs3134211 chr8_96959841_C_T chr8_97007094_A_G rs11780482 rs11780482 rs11991704 rs2244711 rs11779519 chr8_97995627_C_T rs7840010 rs1471463 rs2513973 chr8_98787983_A_G rs7818775 chr8_98860713_A_INDEL rs10808358 rs7461545 rs7831552 kgp10585267 kgp9784258 rs7461275 chr8_100167804_A_G rs80054403 rs3103705 rs12548482 exm712716 rs13276275 rs16898015 rs2514680 rs7837658 rs7831729 rs7844324 chr8_101833267_A_G chr8_101944666_A_G chr8_102156943_A_G chr8_102156943_A_G rs10112963 chr8_102316271_C_G chr8_102316271_C_G

genotype difference Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_12_IF Col_16_TS Col_38_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_16_TS Col_38_CB Col_33_IF Col_33_CB Col_45_TS Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_16_TS Col_38_TS

RI PT


Marker ID

316

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT TOP BOT BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT TOP TOP TOP TOP TOP BOT TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT TOP BOT TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT

[A/G] [T/G] [T/C] [T/G] [T/C] [T/G] [T/A] [A/C] [A/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/G] [A/G] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/G] [T/C]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

102539468 102637195 102672924 102741806 103058601 103168980 103251506 103266951 103266951 103308876 103462346 103615388 103634942 103656997 103658945 103665513 103733478 103967694 103967694 104008681 104040970 104062733 104083651 104097396 104156603 104171886 104183205 104324662 104515794 104664986 104936546 105155544 105177359 105405674 105444761 105471132 105471132 105890308 106040818 106106951 106130379 106223874 106234642 106308150 106425918 106467055 106468592 106482105 106583124 106665439 106685521 106697518 106719773 106943245 106995886 107162795 107278277 107328133 107372260 107424062

SC

M AN U TE D

AC C

EP

chr8_102539468_A_G chr8_102637195_G_T chr8_102672924_A_G rs9987401 rs6991144 corect_rs144978357 chr8_103251506_A_T rs13255846 rs13255846 rs16869360 chr8_103462346_A_G chr8_103615388_C_T rs2511669 chr8_103656997_C_T rs2511718 chr8_103665513_C_T chr8_103733478_A_G rs4075572 rs4075572 rs628793 rs7013362 rs2458290 rs2453994 rs2047375 rs2515190 rs6468861 rs10955312 rs827535 kgp2765857 chr8_104664986_A_G rs13259052 chr8_105155544_A_G chr8_105177359_G_T rs1513025 chr8_105444761_A_G rs6468929 rs6468929 rs13275783 rs16872216 rs17192765 rs2613122 chr8_106223874_C_T rs6468988 corect_rs142213210 chr8_106425918_A_G chr8_106467055_C_T rs7822979 rs6983550 rs4734879 rs11985933 chr8_106685521_A_G chr8_106697518_A_C rs6980689 rs1353449 rs12542361 rs11776357 rs2938305 rs1472698 rs13277825 rs10109171

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_TS Col_33_IF Col_34_CB Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_34_CB Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF

RI PT


Marker ID

317

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP MINUS BOT BOT BOT BOT TOP TOP TOP MINUS BOT BOT BOT BOT BOT TOP BOT TOP BOT TOP TOP BOT TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP

[T/C] [T/C] [T/C] [A/C] [T/C] [A/G] [A/C] [A/G] [T/C] [T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [A/G] [A/G] [I/D] [T/G] [T/C] [G/C] [G/C] [A/C] [A/G] [A/C] [D/I] [T/C] [T/C] [T/C] [T/C] [T/G] [A/C] [T/C] [A/C] [T/C] [A/G] [A/G] [T/G] [A/C] [A/G] [A/C] [A/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

107486045 107486045 107589239 107979407 108200687 108202969 108240629 108278139 108313063 108334162 108346648 108383325 108518274 108698283 108809266 108974658 109039417 109087192 109243959 109291233 109323205 109347847 109450111 109480386 109496689 109496689 109498656 109658960 109680768 109778160 109782511 109857400 110044673 110044673 110281480 110437424 110437443 110453028 110454337 110516533 110516533 110566177 110568613 110594148 110625469 110765282 110982522 111116619 111117738 111158893 111316902 111539679 111762448 111846111 111876342 111920236 112062191 112062191 112062191 112205676

SC

M AN U TE D

AC C

EP

rs2510817 rs2510817 chr8_107589239_C_T rs7818910 chr8_108200687_A_G rs1954741 rs10099794 kgp364928 chr8_108313063_C_T chr8_108334162_G_T rs11774043 rs2445365 rs1433174 rs6469131 rs1353303 rs656624 chr8_109039417_A_G rs17405875 chr8_109243959_A_C rs1975804 rs11989920 chr8_109347848_INDEL_T rs35203457 chr8_109480386_A_G chr8_109496689_C_G chr8_109496689_C_G rs10111934 chr8_109658960_C_T rs1497630 chr8_109778160_AAG_INDEL rs6469203 rs13253194 chr8_110044673_C_T chr8_110044673_C_T rs2125513 corect_rs117675722 exm715595 chr8_110453028_A_C exm715665 chr8_110516533_C_T chr8_110516533_C_T chr8_110566177_G_T chr8_110568613_G_T rs2844235 rs7831266 rs2350101 rs4735145 rs16880373 rs4734220 rs715731 rs6469302 rs11993254 rs11985456 rs1489365 rs923433 rs16881346 rs10099529 rs10099529 rs10099529 rs7843740

genotype difference Col_33_CB Col_12_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_34_CB Col_34_CB Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_52_CB Col_12_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_16_IF Col_33_IF Col_34_TS Col_12_CB

RI PT


Marker ID

318

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT TOP TOP BOT BOT BOT TOP PLUS TOP BOT BOT BOT TOP BOT TOP BOT BOT TOP BOT TOP TOP BOT TOP TOP TOP BOT BOT TOP BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT TOP TOP TOP BOT TOP BOT BOT

[A/G] [A/G] [T/C] [T/C] [T/C] [A/T] [T/C] [A/G] [A/G] [T/G] [A/G] [A/G] [T/C] [T/C] [T/G] [A/G] [I/D] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [C/G] [A/G] [T/C] [A/G] [T/C] [A/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

112335650 112404802 112548351 112548351 112548351 112583622 112608658 112899800 112899800 113241088 113420776 113432766 113571200 113638880 113671986 113683162 113883049 113955195 114029421 114121133 114194727 114199799 114307340 114360363 114377740 114391143 114528445 114582092 114740737 114740737 114814714 114848963 114892901 114892901 114915810 114918152 114924899 114930114 114974132 115005081 115197418 115212262 115229759 115240172 115240172 115240172 115325647 115332025 115476659 115506842 115718372 115800717 115846097 115909561 116003403 116047933 116176124 116262065 116340526 116431304

SC

M AN U TE D

AC C

EP

rs10955574 rs1573937 rs2717188 rs2717188 rs2717188 chr8_112583622_A_T rs10088527 kgp8948438 kgp8948438 rs1592624 chr8_113420776_C_T rs10094970 chr8_113571200_A_G rs7822475 rs4876480 chr8_113683162_C_T chr8_113883050_A_INDEL rs13270310 rs964764 chr8_114121133_C_T rs17680534 rs12675523 rs77524125 rs76697837 chr8_114377740_C_T chr8_114391143_A_G rs9886503 chr8_114582092_C_T rs10109202 rs10109202 rs10101872 rs7011798 rs7833314 rs7833314 rs966210 rs2458071 rs7842617 chr8_114930114_C_T rs11784189 rs10098737 rs16885546 chr8_115212262_A_G rs16885580 chr8_115240172_C_T chr8_115240172_C_T chr8_115240172_C_T chr8_115325647_C_T chr8_115332025_C_T rs17714375 rs10955711 chr8_115718372_A_G rs16886394 chr8_115846097_A_G rs13438839 rs12546832 chr8_116047933_C_T rs777801 rs17657793 chr8_116340526_C_T chr8_116431304_C_T

genotype difference Col_33_IF Col_33_IF Col_16_IF Col_52_IF Col_12_CB Col_33_IF Col_45_TS Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_CB Col_33_IF Col_33_IF Col_34_IF Col_38_CB Col_33_IF Col_33_TS Col_08_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_12_IF Col_16_IF Col_33_IF Col_16_IF Col_38_TS Col_52_IF Col_52_CB Col_16_TS Col_33_IF Col_33_IF Col_34_TS Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

319

IlmnStrand

SNP

Chr

MapInfo

BOT MINUS TOP BOT BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT TOP BOT BOT TOP BOT BOT BOT TOP TOP TOP BOT TOP BOT BOT BOT BOT TOP BOT TOP TOP BOT TOP TOP BOT TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT

[T/C] [D/I] [A/G] [T/C] [T/C] [T/C] [A/T] [T/C] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [T/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [T/G] [T/C] [A/G] [A/G] [A/G] [T/G] [T/C]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

116451357 116556098 116608055 116659731 116677409 116677409 116720406 116755207 116795541 116853664 116882650 116967356 116995459 117006880 117136748 117146997 117218624 117265106 117278055 117278055 117307039 117382213 117411472 117415285 117432569 117446543 117475196 117528023 117528023 117528023 117544678 117643722 117708939 117720250 117720250 117791502 117805397 117814033 117836620 117836620 117873811 117948986 118028297 118030799 118057538 118065775 118185025 118235272 118235272 118235272 118325941 118359997 118366317 118366317 118578241 118676625 118687239 118710620 119020964 119056349

SC

M AN U TE D

AC C

EP

kgp59718 chr8_116556098_G_INDEL chr8_116608055_A_G chr8_116659731_C_T chr8_116677409_A_G chr8_116677409_A_G rs800536 rs1040331 rs2960157 rs800577 chr8_116882650_A_G rs10216416 rs12155585 chr8_117006880_A_G rs62511271 chr8_117146997_C_T chr8_117218624_A_G rs799855 rs13269404 rs13269404 rs13278740 rs74431026 rs10156307 rs11986435 rs7839483 rs10098155 rs4345586 rs74998465 rs74998465 rs74998465 rs74671043 chr8_117712903_A_G rs72681701 rs77268189 rs77268189 rs979867 chr8_117805397_A_G rs11783824 rs11988430 rs11988430 rs2289937 rs958637 rs11781136 rs78193895 rs11780215 chr8_118065775_C_T rs3802177 chr8_118235272_C_T chr8_118235272_C_T rs2649098 rs1695693 rs1603941 rs7843259 rs7843259 chr8_118578241_C_T rs10955823 rs1508558 rs218023 chr8_119020964_A_C corect_rs150607538

genotype difference Col_38_TS Col_33_IF Col_12_CB Col_33_IF Col_38_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_12_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_12_CB Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_52_CB Col_52_CB Col_52_TS Col_34_TS Col_33_IF Col_52_CB Col_52_CB Col_16_TS Col_08_TS Col_08_TS Col_16_TS Col_52_TS Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_33_CB Col_33_IF Col_34_TS Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_38_CB Col_52_IF Col_33_IF Col_12_CB Col_38_TS Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

320

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT TOP BOT TOP TOP BOT TOP BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT TOP TOP

[T/C] [T/G] [T/C] [T/G] [T/C] [T/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/G] [T/G] [T/C] [A/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/G] [A/G] [A/G] [A/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/G] [T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [C/G] [A/G] [T/C] [T/G] [A/G] [T/C] [A/G] [A/G]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

119163143 119192827 119681175 119777586 119959657 120118021 120127586 120356892 120421113 120592815 120774755 120909236 121320682 121398874 121398874 121773161 121868551 121893978 121907688 121914565 121938422 121947406 122117842 122238834 122375165 122551370 122781252 122825394 122826342 122890163 122892013 122917182 123135434 123358387 123505014 123555635 123696613 123808821 124080340 124107382 124127595 124141313 124296434 124296434 124351634 124397272 124486739 124568095 124711210 124801954 124801954 124980708 125129490 125268800 125504124 125854702 126094499 126207277 126266244 126303847

SC

M AN U TE D

AC C

EP

rs4876796 chr8_119192827_G_T rs73323018 rs1493937 rs3134063 rs11987106 rs11994775 rs2447176 rs56082222 rs7832704 exm717581 rs7814126 rs7006555 rs10101508 rs10101508 chr8_121773161_A_G rs4871137 rs12681019 rs6469961 rs7830584 rs7826823 rs12680036 rs13275987 rs9297638 rs6415475 rs6470005 rs76801391 rs12677882 rs6981911 rs11775964 rs1397346 rs6470049 rs16896731 rs2023122 rs7820388 rs2948640 rs11774246 rs11777048 rs4871342 rs11785137 rs952656 exm718648 rs16898214 rs16898214 chr8_124351634_A_G chr8_124397272_C_T chr8_124486739_C_T chr8_124568095_C_T rs1080109 chr8_124801954_A_G chr8_124801954_A_G rs17270769 chr8_125129490_C_G rs17361004 rs4457314 rs10956218 rs2891636 rs10089963 chr8_126266244_A_G rs7007866

genotype difference Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_34_CB Col_38_CB Col_12_CB Col_12_TS Col_16_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_CB Col_52_CB Col_16_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_16_TS Col_12_CB Col_12_CB Col_33_IF Col_12_IF Col_33_IF Col_33_IF

RI PT


Marker ID

321

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP BOT TOP BOT TOP TOP BOT TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP BOT PLUS BOT BOT BOT MINUS TOP TOP BOT TOP TOP TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP BOT BOT TOP BOT

[T/G] [A/C] [A/C] [T/C] [A/C] [T/C] [A/G] [A/C] [T/C] [A/G] [A/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/G] [A/G] [A/G] [A/C] [A/G] [A/G] [A/C] [A/G] [T/C] [D/I] [G/C] [G/C] [T/C] [I/D] [A/C] [A/C] [T/C] [A/G] [A/C] [A/G] [C/G] [T/C] [A/G] [A/G] [A/G] [T/G] [T/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/A] [T/C] [A/G] [T/C]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

126311265 126688445 126688445 126802894 126830728 126959274 127018815 127050415 127240653 127277326 127304374 127386194 127452155 127457081 127528089 127553160 127558785 127561349 127601803 127617519 127675166 127740617 127783480 127794387 127824978 127867579 127880738 127895694 127903766 127910007 127918733 127919093 127919093 127932940 127959123 127979691 127979691 127980684 128001464 128013376 128014415 128017316 128025212 128027957 128070900 128070900 128071137 128071137 128077146 128084097 128091382 128091382 128091656 128100977 128105672 128107101 128107644 128108726 128131809 128163803

SC

M AN U TE D

AC C

EP

rs10956238 rs1159477 rs1159477 chr8_126802894_C_T chr8_126830728_A_C rs1602511 rs6998016 rs1552706 rs7845993 rs10090081 rs10099760 rs11783521 rs77018768 rs2735974 rs4871714 rs76773391 rs72720147 chr8_127561349_C_T rs16901561 chr8_127617519_C_T rs10090062 rs77297193 rs6470471 rs79771358 rs72722244 rs6989445 rs6993575 chr8_127895694_G_T rs6470479 chr8_127910007_A_G rs11280305 rs67721449 rs67721449 rs11774049 chr8_127959124_INDEL_T rs1400460 rs1400460 rs980426 chr8_128001464_A_G rs4871005 rs73351621 rs4871006 rs73351641 rs10481163 rs34241583 rs34241583 rs59116317 rs59116317 chr8_128077146_A_G rs6993569 chr8_128091382_A_G chr8_128091382_A_G chr8_128091656_C_T chr8_128100977_C_T rs57775023 rs16901948 rs7005144 rs35365584 chr8_128131809_A_G rs79085576

genotype difference Col_33_IF Col_33_CB Col_52_IF Col_33_IF Col_33_CB Col_33_IF Col_38_CB Col_33_IF Col_12_CB Col_12_CB Col_38_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_12_TS Col_33_IF Col_33_IF Col_38_CB Col_52_IF Col_33_IF Col_33_CB Col_33_IF Col_38_CB Col_33_IF Col_34_TS Col_12_CB Col_16_TS Col_34_TS Col_33_CB Col_38_IF Col_33_IF Col_38_TS Col_08_TS Col_12_IF Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB

RI PT


Marker ID

322

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT TOP TOP TOP TOP BOT BOT TOP BOT TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP BOT PLUS PLUS TOP BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT

[T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [T/C] [A/C] [T/C] [T/C] [T/A] [A/C] [A/G] [A/G] [A/G] [T/G] [T/G] [A/G] [G/C] [A/G] [C/G] [G/C] [T/C] [T/C] [A/G] [G/C] [G/C] [T/C] [G/C] [A/G] [A/G] [A/C] [A/C] [T/C] [A/G] [T/C] [I/D] [I/D] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/G] [G/C] [T/C] [T/G] [A/C] [T/G] [T/C] [T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

128165677 128165677 128198564 128198564 128198564 128202473 128203117 128207871 128212680 128281542 128281644 128285583 128289859 128309965 128313360 128314081 128334992 128338594 128338693 128338702 128338760 128341103 128343341 128354080 128360681 128374117 128379409 128379409 128386556 128391537 128399100 128399100 128456348 128465771 128479537 128492412 128496412 128502438 128502438 128504497 128507995 128530616 128531873 128532137 128547721 128563299 128609107 128622837 128646163 128659852 128660780 128661221 128704261 128711742 128794013 128800947 128805020 128858148 128870983 128958771

SC

M AN U TE D

AC C

EP

chr8_128165677_C_T chr8_128165677_C_T rs12678349 rs12678349 rs12678349 rs74960914 rs76844358 chr8_128207871_C_T rs2466039 rs76895997 rs283732 chr8_128285583_A_T rs283711 rs283720 rs283727 rs16902085 rs373701 rs430693 rs684254 rs1395287 rs631845 rs1668875 rs35603878 rs17465052 rs75222633 rs978683 rs7845452 rs7845452 rs2121631 rs750816 rs4871021 rs4871021 rs28623168 rs7836468 rs3999775 rs62513982 rs11995378 rs34944705 rs34944705 rs17766217 rs1374626 rs13255059 rs11988857 rs10090154 rs4871812 rs6415495 rs13254710 rs7004497 rs13269551 rs4518625 rs62515769 rs11781983 rs34801007 rs17772814 rs7015957 chr8_128800947_A_G chr8_128805020_A_G rs13257071 rs55789181 rs12548939

genotype difference Col_38_CB Col_52_IF Col_33_TS Col_34_CB Col_38_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_08_IF Col_12_CB Col_33_IF Col_33_IF Col_38_CB Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_08_CB Col_45_IF Col_12_CB Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_34_TS Col_45_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB

RI PT


Marker ID

323

IlmnStrand

SNP

Chr

MapInfo

TOP PLUS BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP MINUS MINUS TOP BOT TOP BOT TOP TOP BOT BOT TOP BOT TOP TOP BOT TOP BOT BOT TOP MINUS BOT BOT BOT TOP TOP PLUS PLUS BOT BOT BOT

[A/G] [D/I] [T/C] [T/G] [T/G] [T/G] [T/G] [T/G] [A/G] [A/G] [T/C] [A/G] [A/C] [A/C] [T/A] [A/G] [A/G] [T/A] [T/A] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/G] [T/G] [T/G] [T/G] [A/G] [I/D] [I/D] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/T] [A/T] [T/C] [A/G] [T/C] [T/G] [A/G] [D/I] [T/C] [T/C] [T/C] [A/C] [A/G] [D/I] [D/I] [T/C] [T/C] [T/C]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

128971861 129031022 129050119 129050802 129116533 129158945 129185951 129203312 129210179 129229645 129230447 129283324 129287410 129289556 129312273 129325061 129347758 129400250 129400250 129432083 129434177 129437858 129437858 129457084 129462446 129473862 129492753 129496745 129503291 129506822 129510896 129510896 129517554 129525114 129533646 129555724 129556774 129557523 129557952 129587014 129590818 129609286 129631979 129631979 129651723 129653811 129662795 129691246 129713179 129737497 129738118 129798618 129798618 129835913 129988219 129990272 129990272 129999102 130032394 130181882

SC

M AN U TE D

AC C

EP

rs66561647 rs35528283 rs3927165 rs56101529 chr8_129116533_A_C rs759648 rs6470605 rs992241 rs72722780 rs7829149 rs2977041 rs4733853 chr8_129287410_A_C rs2049824 rs73710618 rs35426326 chr8_129347758_A_G rs62528379 rs62528379 rs4733606 chr8_129434177_C_T rs11774026 rs11774026 rs11782254 rs17230104 rs73707481 rs6470634 rs79695834 rs6470636 rs77683961 chr8_129510897_INDEL_T chr8_129510897_INDEL_T rs17231948 rs1356332 rs1516982 chr8_129555724_C_T chr8_129556774_A_G rs6982966 rs73374987 rs12543298 rs7817270 rs78367170 rs80330889 rs80330889 rs28641511 rs77244365 corect_rs113060582 rs4236736 chr8_129713179_A_G rs61091381 rs1432019 rs74943733 rs74943733 rs13249298 rs6990893 chr8_129990272_C_INDEL chr8_129990272_C_INDEL rs7833100 rs4305862 rs7823113

genotype difference Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_16_TS Col_33_IF Col_34_IF Col_38_IF Col_52_TS Col_33_IF Col_16_TS Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_38_TS Col_12_IF Col_38_TS Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_45_TS Col_33_IF Col_33_IF Col_12_CB Col_34_CB Col_33_CB Col_38_TS Col_52_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_12_CB Col_52_IF Col_33_IF

RI PT


Marker ID

324

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP BOT TOP TOP TOP TOP BOT TOP BOT TOP TOP BOT TOP TOP BOT TOP TOP TOP BOT BOT TOP BOT TOP TOP BOT TOP BOT TOP TOP BOT TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP BOT TOP BOT BOT BOT

[T/C] [A/C] [A/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/G] [A/G] [T/C] [A/C] [A/C] [T/G] [A/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/G] [A/G] [T/G] [T/G] [T/G] [T/G] [A/C] [T/C] [A/C] [A/C] [A/G] [T/C] [T/G] [A/G] [T/C] [T/G] [T/C] [A/G] [A/G] [T/C] [T/G] [A/C] [A/C] [A/C] [T/C] [A/G] [T/G] [T/G] [T/G]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8

130238780 130249423 130249423 130252108 130486168 130499223 130570669 130702811 130727016 130742744 130788548 130856138 130868061 131278618 131290664 131391018 131509646 131745204 131799767 131859737 132095593 132132160 132202889 132311479 132441579 132692795 132746158 132841734 132862920 132967191 133299910 133374331 133434644 133569397 133805463 133805889 133805889 133824377 134300177 134353632 134457060 134502322 134923229 134938386 134974025 135106207 135219276 135430016 135542084 135573657 135744460 135894058 136193650 136539132 136563532 136570502 136807014 136817274 136817274 136839229

SC

M AN U TE D

AC C

EP

chr8_130238780_A_G chr8_130249423_G_T chr8_130249423_G_T chr8_130252108_A_G rs1835847 rs16904090 rs6470739 rs16904143 rs10956489 rs3885952 rs4733741 rs412941 rs2306528 rs10505549 rs4733571 chr8_131391018_C_T rs11781952 rs2917062 rs12680002 exm720987 rs3897955 rs10096906 rs11991267 rs4380914 rs2217438 rs1420497 rs6470996 rs7828128 rs6999964 rs16904558 chr8_133299910_C_T rs6984395 chr8_133434644_C_T rs4621788 rs1469263 chr8_133805889_G_T chr8_133805889_G_T chr8_133824377_A_C rs72731586 rs6986484 corect_rs113059565 rs16904932 chr8_134923229_C_T rs11994154 rs1350337 rs7012570 rs1596960 chr8_135430016_C_T rs1550582 rs6993032 rs4909630 rs4909820 rs10156288 rs16905387 rs10095429 rs2317280 rs12676004 rs9644463 rs9644463 rs4288409

genotype difference Col_33_IF Col_33_CB Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_38_CB Col_33_IF Col_16_TS Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_12_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_16_TS Col_33_CB Col_33_IF Col_33_IF Col_52_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_34_CB Col_33_CB

RI PT


Marker ID

325

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP TOP BOT TOP TOP TOP TOP TOP BOT BOT TOP BOT TOP BOT BOT TOP BOT BOT TOP TOP BOT TOP TOP BOT BOT TOP BOT TOP BOT TOP BOT TOP BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP BOT TOP

[A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/G] [A/G] [T/C] [A/G] [T/C] [T/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/G] [T/C] [A/G] [A/C] [A/C] [T/C] [A/G]

8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 8 9 9 9 9 9 9 9

136878098 136970475 136986585 137302684 137437173 137492260 137742872 137798133 137892090 137943303 137991169 138040743 138055195 138263180 138302115 138553664 138655102 138702381 138769527 138844863 139012047 139012477 139089126 139374614 139380869 139390139 139406905 139474271 139773909 139883488 139959738 139964213 140241181 140297210 140326655 140658801 141018901 141675931 142137704 142327998 142509050 142949616 143195007 143403693 143550768 143808951 143999146 143999146 144201854 144694067 144846831 144994064 145976785 224227 422157 489837 564836 564836 666389 675419

SC

M AN U TE D

AC C

EP

rs7826824 rs2922362 rs2122055 rs13272404 chr8_137437173_C_T rs875367 rs2262343 rs2582465 chr8_137892090_A_C rs1846525 rs7845945 rs9324441 rs10096383 rs7818464 chr8_138302115_A_G rs7824808 chr8_138655102_C_T rs4389979 rs6981722 rs979289 chr8_139012047_A_G chr8_139012477_A_G rs10109789 rs4909779 rs16908962 rs4909781 chr8_139406905_C_T chr8_139474271_C_T chr8_139773909_C_T rs13265526 chr8_139959738_A_G rs10091597 rs2001907 chr8_140297210_C_T chr8_140326655_A_G rs3780051 rs12549400 rs13273096 rs6988905 rs878422 rs7015884 rs4917236 rs4917314 rs13266463 chr8_143550768_A_G rs2585138 rs5281 rs5281 rs12680363 rs4873809 rs7462131 exm729295 chr8_145976785_C_T chr9_224227_A_C rs10217719 chr9_489837_C_T rs16919733 rs16919733 rs10975653 rs4742220

genotype difference Col_33_CB Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_52_TS Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_52_TS Col_38_TS Col_52_TS Col_12_CB Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF

RI PT


Marker ID

326

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT TOP TOP BOT TOP BOT BOT TOP BOT BOT TOP TOP TOP BOT TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP

[A/G] [A/C] [T/C] [T/C] [T/C] [A/C] [A/G] [T/C] [A/G] [T/C] [T/A] [A/G] [T/C] [T/C] [A/C] [A/C] [A/G] [T/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/C] [T/C] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/G] [T/G] [T/C] [G/C] [A/G] [A/G] [A/G] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [A/G] [T/C] [G/C] [T/G] [T/G] [T/C] [T/C] [A/G] [A/C]

9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9

781115 791067 897949 985543 989581 1074166 1090919 1282293 1342763 1385087 1399674 1413700 1472542 1481609 1486723 1532009 1568941 1739568 1745174 1819445 1969329 1999277 2046105 2052014 2177391 2231044 2239429 2386103 2431272 2435209 2447910 2472026 2485202 2492466 2539495 2548556 2644468 2644468 2651909 2678276 3096561 3096561 3121992 3176796 3184967 3338367 3338367 3338367 3553108 3649190 3743938 3758867 3779306 3839926 4083665 4326480 4327662 4393348 4399253 4410854

SC

M AN U TE D

AC C

EP

rs10976526 rs10758904 rs7859987 chr9_985543_C_T chr9_989581_C_T chr9_1074166_A_C rs10738192 rs10960773 rs2226014 rs10961225 rs6474795 rs10119492 chr9_1472542_A_G rs12343051 rs7859959 chr9_1532009_G_T rs771662 rs9298771 rs12344952 rs72683709 chr9_1969329_C_T rs10119055 chr9_2046105_C_T rs7036529 rs9298820 chr9_2231044_A_G rs4741657 chr9_2386103_C_T rs1155008 rs2889293 rs10757471 rs7041090 rs2026344 rs4741717 rs482376 rs10812227 chr9_2644468_A_C chr9_2644468_A_C exm735987 chr9_2678276_C_G rs12377888 rs12377888 rs2078432 rs10813628 rs7875874 chr9_3338367_A_G chr9_3338367_A_G chr9_3338367_A_G chr9_3553108_A_G rs1537524 rs10511454 rs2183689 chr9_3779306_C_T chr9_3839926_C_G rs6476804 rs35994634 rs73641427 chr9_4393348_C_T rs79284250 rs4237157

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_16_TS Col_12_CB Col_52_IF Col_33_IF Col_45_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_38_IF Col_33_IF Col_33_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_38_CB Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_12_CB Col_12_CB Col_33_IF

RI PT


Marker ID

327

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT TOP BOT TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT TOP

[T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [T/C] [A/G] [A/G] [A/C] [A/C] [A/C] [T/C] [A/C] [T/G] [A/G] [T/C] [T/G] [T/G] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [A/C] [A/G] [T/C] [T/C] [A/G] [A/C] [T/C] [T/C] [A/G] [A/G] [A/C] [A/G] [A/G] [T/C] [A/C] [T/C] [T/G] [T/C] [T/G] [A/G]

9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9

4629595 4640212 4699811 4767341 5003338 5044690 5072846 5127910 5162710 5191468 5248742 5267043 5299385 5360293 5394099 5603531 5914410 5943777 5944012 5977002 5977002 5977002 6026472 6030699 6033278 6033278 6064103 6064103 6064103 6071843 6072597 6123293 6123293 6127851 6166653 6166769 6187395 6192209 6201163 6201163 6219176 6248408 6277389 6325345 6328947 6448171 6461911 6461911 6467042 6467042 6475424 6512321 6512321 6522752 6579050 6643578 6658900 6662235 6695397 6695472

SC

M AN U TE D

AC C

EP

rs4742027 rs4742035 rs3852397 rs420470 rs4372063 chr9_5044690_C_T rs10974947 rs12000101 rs12003883 rs7037554 rs6476953 rs1575284 rs10975043 rs2181146 rs7046325 chr9_5603531_A_C rs78571901 rs76203901 rs10815315 rs74818622 rs74818622 rs74818622 rs7852538 rs459718 rs12378118 rs12378118 rs10815347 rs10815347 rs10815347 rs7872100 rs343476 rs79537590 rs79537590 rs340912 rs2079 rs76396502 rs13296741 rs77773750 rs1929995 rs1929995 rs2066362 rs76864631 rs7853322 rs10491835 rs3847262 rs12346381 rs13284998 rs13284998 chr9_6467042_C_T chr9_6467042_C_T rs41281761 rs79773517 rs79773517 rs79624467 rs72695517 rs13300114 rs12552845 rs71505823 rs1094038 rs1094039

genotype difference Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_CB Col_52_IF Col_12_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_08_TS Col_52_TS Col_12_IF Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_34_CB Col_12_CB Col_16_IF Col_52_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

328

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT TOP BOT TOP BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP BOT TOP TOP TOP BOT TOP BOT BOT TOP TOP BOT TOP BOT TOP TOP BOT BOT TOP BOT TOP

[T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/C] [A/C] [A/G] [T/G] [T/G] [T/C] [A/C] [T/G] [A/C] [T/C] [T/C] [T/C] [A/G] [A/C] [T/G] [T/G] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/C] [T/A] [T/G] [T/G] [A/G] [T/C] [A/C] [C/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/C]

9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9

6741468 6750556 6764284 6769653 6786734 6809288 6809288 6816068 6816068 6849046 6858086 6858086 6892588 7000595 7022554 7030268 7032962 7051826 7152237 7164061 7415340 7448841 7485142 7505902 7612143 7633155 7636050 7682063 7684244 7720636 7822486 7822486 7907459 8114588 8130987 8156271 8220286 8270830 8270830 8312169 8404095 8432653 8536034 8559333 8603606 8659757 8746568 8746568 8805462 8817060 8900641 8922467 8936967 8962482 8975175 8980814 8985580 9161898 9164473 9169458

SC

M AN U TE D

AC C

EP

rs13286776 rs10117618 rs72699620 rs2990658 rs7031834 rs11999429 rs11999429 rs75179106 rs75179106 rs4742268 rs7022399 rs7022399 chr9_6892588_A_G rs2792240 rs7852014 rs10758821 rs10283547 rs7019027 rs10758837 rs10815532 rs2997544 rs16926115 rs10976314 rs1986733 rs10976450 rs7867163 rs10976463 rs10976498 rs328847 rs842296 rs2184034 rs2184034 rs10815712 rs10758936 rs1578117 rs1361315 chr9_8220286_A_T rs10815816 rs10815816 rs1155271 rs7042145 chr9_8432653_A_C chr9_8536034_C_G chr9_8559333_A_G rs9792461 rs1028018 rs7869843 rs7869843 rs4562389 rs1434273 rs7856948 rs10977362 rs10759020 chr9_8962482_A_G chr9_8975175_C_T rs1433536 chr9_8985580_A_G rs2890854 rs1445206 rs10977545

genotype difference Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_38_TS Col_12_CB Col_38_TS Col_12_IF Col_12_CB Col_33_CB Col_59_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_45_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_08_IF Col_33_CB Col_52_IF Col_12_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_33_CB Col_12_CB Col_45_TS Col_16_TS Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_45_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF

RI PT


Marker ID

329

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT TOP TOP

[A/C] [G/C] [T/C] [A/C] [T/C] [T/G] [A/C] [A/G] [T/C] [T/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [C/G] [T/C] [T/G] [T/G] [T/G] [G/C] [T/G] [T/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [A/C] [A/G] [A/G] [C/G] [T/C] [A/C] [A/G]

9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9

9169458 9348295 9425605 9518199 9584358 9602686 9685304 9709405 9718066 9748364 9790222 9804718 9816063 9824421 9896971 9899274 9909726 9909795 9910656 9914428 9962204 9962204 10044092 10044092 10126652 10145099 10215130 10240428 10298970 10309897 10309897 10355941 10357348 10463261 10481205 10490935 10582246 10603845 10603845 10603845 10616364 10620453 10620453 10649660 10686202 10692461 10736580 10752338 10883851 10987504 10991139 11003497 11034658 11034658 11070804 11075271 11134149 11305052 11374073 11403465

SC

M AN U TE D

AC C

EP

rs10977545 rs9408762 rs3858066 rs828836 rs76320270 rs1326772 rs7856030 rs10733553 rs10511528 chr9_9748364_G_T rs1174590 chr9_9804718_C_T rs2761741 chr9_9824421_C_T rs10491914 rs10117851 rs10759101 rs10978079 chr9_9910656_C_T rs10978083 rs7860014 rs7860014 rs291267 rs291267 chr9_10126652_A_C rs9721595 rs2475324 rs1570267 rs10809063 rs589991 rs589991 rs10125156 rs9298656 rs10124165 chr9_10481205_C_T chr9_10490935_C_G rs1322280 rs985563 rs985563 rs985563 chr9_10616364_C_G rs7863685 rs7863685 rs2208707 rs10511552 rs10756099 rs10959258 rs1831295 chr9_10883851_A_G chr9_10987504_C_T rs1330261 chr9_11003497_A_G rs1155586 rs1155586 rs6474617 rs6474620 chr9_11134149_C_G rs11496296 rs16927457 rs10738232

genotype difference Col_12_CB Col_33_IF Col_16_TS Col_52_IF Col_33_IF Col_12_CB Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_45_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_52_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_08_TS Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_16_TS Col_52_IF Col_12_CB Col_16_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_52_CB Col_38_IF Col_34_CB Col_52_IF Col_52_IF Col_38_TS Col_52_IF Col_52_IF Col_33_IF Col_33_CB

RI PT


Marker ID

330

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP TOP BOT TOP BOT BOT TOP BOT BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT MINUS TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP BOT TOP BOT TOP

[T/C] [A/G] [A/G] [C/G] [A/C] [T/G] [A/G] [T/C] [T/A] [A/G] [T/G] [T/G] [T/G] [A/G] [A/G] [A/C] [A/G] [T/C] [A/G] [A/G] [A/C] [T/C] [T/G] [T/C] [T/C] [T/G] [A/G] [T/C] [T/C] [T/G] [T/C] [A/C] [A/T] [A/T] [A/T] [A/G] [A/C] [A/G] [C/G] [T/C] [I/D] [A/G] [T/C] [T/C] [T/C] [A/G] [T/G] [T/C] [T/G] [T/G] [T/C] [A/C] [A/G] [A/G] [T/C] [A/G] [T/G] [A/G] [T/C] [A/G]

9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9

11419021 11462576 11503439 11580201 11586357 11612878 11818115 11832362 11975502 11988769 12007142 12007142 12058197 12237417 12274795 12295161 12297444 12305664 12318093 12401666 12476727 12522037 12570945 12594030 12616058 12651413 12674124 12701460 12706985 12709305 12712157 12752521 12771076 12771076 12771076 12897342 12907902 13027530 13048420 13158958 13193032 13269740 13398587 13539278 13600898 13639416 13736965 13763734 13825565 13825565 13879604 13888493 13904860 13956009 13982696 14011919 14043162 14044839 14144224 14187523

SC

M AN U TE D

AC C

EP

chr9_11419021_C_T chr9_11462576_C_T chr9_11503439_C_T chr9_11580201_C_G rs10959970 chr9_11612878_G_T rs10960270 chr9_11832362_C_T chr9_11975502_A_T rs10960417 chr9_12007142_G_T chr9_12007142_G_T rs10960455 rs1339284 chr9_12274795_C_T chr9_12295161_G_T rs7031915 rs7043787 rs7040701 rs10756369 rs7045858 rs791681 rs1325149 rs1359442 chr9_12616058_C_T rs1408795 rs16929340 chr9_12701460_A_G chr9_12706985_A_G rs683 rs1137134 chr9_12752521_G_T chr9_12771076_A_T chr9_12771076_A_T chr9_12771076_A_T rs2183864 chr9_12907902_A_C rs10809876 chr9_13048420_C_G rs1331670 chr9_13193032_INDEL_TT rs10809924 rs12339589 rs12004672 rs1590408 rs16930601 rs717605 rs10756497 rs11788150 rs11788150 chr9_13879604_A_G rs62533703 rs10961296 chr9_13956009_A_G chr9_13982696_C_T chr9_14011919_A_G rs10756524 chr9_14044839_A_G chr9_14144224_A_G rs4375095

genotype difference Col_52_CB Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_12_CB Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_12_TS Col_34_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_16_TS Col_16_TS Col_12_CB Col_33_IF Col_33_IF Col_38_CB Col_34_IF Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_16_TS Col_33_IF

RI PT


Marker ID

331

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP BOT TOP BOT TOP BOT BOT TOP TOP TOP BOT TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP PLUS BOT BOT TOP TOP MINUS BOT BOT TOP BOT TOP PLUS TOP BOT BOT

[T/C] [T/C] [A/C] [T/G] [T/G] [T/G] [A/G] [T/C] [T/C] [T/G] [T/G] [T/C] [T/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/C] [T/C] [A/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/A] [G/C] [A/G] [A/G] [A/G] [T/C] [G/C] [A/G] [D/I] [T/C] [T/G] [A/G] [A/G] [D/I] [T/G] [T/G] [A/G] [T/G] [A/G] [I/D] [A/G] [T/A] [T/C]

9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9

14197498 14204068 14208724 14267601 14411037 14411037 14529623 14578662 14589900 14592180 14592180 14651283 14657139 14662319 14680251 14718918 14771575 14783623 14789400 14880667 14993419 15013915 15044787 15175098 15201410 15602101 15620625 15620625 15895539 15917289 15922137 15923770 16081994 16158047 16384212 16482083 16496452 16603483 16631262 16641492 16641492 16641492 16667568 16720420 16770229 16807721 16836573 16843013 16865291 16911400 16926895 16941719 16948004 16971165 16975940 16992655 16993940 16997535 17000713 17000855

SC

M AN U TE D

AC C

EP

rs10738355 chr9_14204068_C_T rs10961424 rs7846889 rs7024044 rs7024044 chr9_14529623_C_T chr9_14578662_A_G rs76530000 rs2225163 rs2225163 rs11790280 chr9_14657139_A_C chr9_14662319_C_T rs41265298 chr9_14718918_C_T rs954116 rs12683551 rs10810242 rs7862716 rs4548277 chr9_15013915_A_G chr9_15044787_C_T chr9_15175098_A_G rs517928 rs2055772 rs276434 rs276434 rs1169478 corect_rs2026659 rs1328285 rs3008683 chr9_16081994_A_G chr9_16158047_A_G rs4620378 rs4961719 chr9_16496452_A_G chr9_16603483_A_T chr9_16631262_C_G chr9_16641492_C_T chr9_16641492_C_T chr9_16641492_C_T chr9_16667568_C_T chr9_16720420_C_G chr9_16770229_C_T chr9_16807721_ATTG_INDEL chr9_16836573_A_G chr9_16843013_A_C chr9_16865291_A_G chr9_16911400_A_G chr9_16926895_C_INDEL chr9_16941719_G_T rs6475098 rs4961513 chr9_16975940_G_T chr9_16992655_A_G chr9_16993940_INDEL_TTTC rs406268 chr9_17000713_A_T chr9_17000855_A_G

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_TS Col_34_IF Col_08_IF Col_33_IF Col_33_IF Col_16_IF Col_38_CB Col_33_IF Col_59_TS Col_33_IF Col_12_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_CB Col_38_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_38_CB Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_34_IF Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_52_CB Col_33_IF

RI PT


Marker ID

332

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP BOT BOT TOP BOT BOT TOP BOT BOT BOT TOP TOP BOT BOT BOT MINUS BOT TOP BOT TOP BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT

[T/C] [T/G] [T/G] [A/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [T/C] [A/G] [A/G] [A/G] [T/C] [C/G] [C/G] [C/G] [T/C] [A/G] [A/G] [A/C] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [T/C] [T/C] [A/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/C] [A/G] [T/G] [T/C] [T/A] [D/I] [T/C] [A/C] [T/C] [A/C] [T/G] [T/G] [A/C] [A/C] [A/C] [T/A] [T/G] [A/G] [T/C] [T/C]

9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9

17011259 17011766 17015692 17017284 17040820 17133559 17233530 17233530 17278937 17307204 17339585 17417026 17436268 17451026 17451026 17451026 17454075 17455278 17455278 17455278 17463615 17502032 17502032 17524038 17726844 17864925 17864925 17985166 18032367 18106940 18144165 18187805 18295768 18296065 18372052 18446117 18570330 18617804 18631044 18631044 18641667 18757343 18781154 18888920 19014501 19048459 19068579 19234830 19357166 19713500 19729664 19847234 19877230 20123538 20153762 20157173 20259528 20274450 20444191 20464018

SC

M AN U TE D

AC C

EP

chr9_17011259_C_T chr9_17011766_G_T rs13299954 rs381306 chr9_17040820_A_G rs398527 rs4458955 rs4458955 chr9_17278937_A_G rs1759458 rs3824393 rs2593396 chr9_17436268_A_G rs16935651 rs16935651 rs16935651 chr9_17454075_C_T rs79299346 rs79299346 rs79299346 rs10756881 rs2248126 rs2248126 rs7350278 rs10756904 chr9_17864925_C_T chr9_17864925_C_T rs2772695 rs10963401 rs1411799 rs4133880 rs7032289 rs2891122 rs10124717 rs2809862 rs13297951 chr9_18570330_C_T rs1889006 rs10963684 rs10963684 rs776754 chr9_18757343_A_G rs1549988 rs3780223 chr9_19014501_A_T chr9_19048459_G_INDEL chr9_19068579_C_T rs4977291 newrs61613662 rs12000054 rs1182653 rs713168 rs1327404 rs10811319 rs994975 rs78009504 rs7018634 chr9_20274450_C_T chr9_20444191_C_T rs4977256

genotype difference Col_33_IF Col_52_IF Col_12_TS Col_38_CB Col_33_IF Col_33_CB Col_16_TS Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_59_TS Col_08_TS Col_16_IF Col_52_IF Col_33_IF Col_38_CB Col_59_TS Col_12_TS Col_52_IF Col_33_IF Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_12_IF Col_52_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_59_TS Col_33_IF Col_12_CB Col_38_CB Col_38_IF Col_45_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF

RI PT


Marker ID

333

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT TOP BOT BOT TOP BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP MINUS TOP BOT BOT BOT TOP TOP

[T/C] [T/G] [T/C] [A/C] [A/T] [T/C] [A/G] [T/C] [T/G] [T/C] [T/C] [T/C] [T/G] [A/G] [T/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/G] [T/G] [A/C] [G/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [C/G] [A/C] [T/G] [A/G] [A/G] [T/A] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [D/I] [C/G] [T/C] [T/C] [T/C] [A/C] [A/G]

9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9

20508503 20538090 20617114 20641181 20675477 20756547 20764870 20782100 20817421 20910537 20910537 21115002 21150650 21196356 21214877 21306241 21398147 21398147 21587473 21589041 21599220 21620510 21626573 21645258 21653648 21674425 21674667 21674949 21675281 21679764 21679764 21681118 21701534 21702102 21703289 21720998 21720998 21730410 21730410 21748320 21774167 21815166 21861558 21862549 21874553 21907748 21937687 21937687 21944544 21955460 21955460 21956230 21956230 21962025 21971989 21981583 21991923 22027402 22028406 22030027

SC

M AN U TE D

AC C

EP

rs10964583 chr9_20538090_G_T rs10811376 rs2383141 chr9_20675477_A_T rs1475660 rs10511687 rs7027599 chr9_20817421_A_C rs12375887 rs12375887 rs1364614 rs7855438 rs2007448 rs2015345 rs12156640 rs10757218 rs10757218 rs79681365 rs2123340 rs62562999 rs10123003 rs754819 rs62559782 rs4978127 rs10965097 rs1377194 rs1869203 rs12554697 rs7866521 rs7866521 rs73435650 rs10811585 rs10965104 rs10811587 rs13301346 rs13301346 rs10965117 rs10965117 rs17833407 rs10811612 rs2039971 rs4129862 rs1134870 rs34452617 rs78657768 rs62556523 rs62556523 rs10965193 rs12335859 rs12335859 chr9_21956230_C_T chr9_21956230_C_T chr9_21962025_G_INDEL rs3731246 rs4074785 rs2811710 rs599452 rs62560774 rs4977753

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_16_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_34_TS Col_12_IF Col_33_IF Col_52_IF Col_12_TS Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_16_CB Col_52_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_52_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_34_IF Col_12_CB Col_33_IF Col_34_CB Col_45_IF Col_12_TS Col_16_IF Col_59_TS

RI PT


Marker ID

334

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP TOP BOT TOP TOP BOT BOT BOT TOP BOT BOT BOT TOP BOT TOP TOP TOP BOT TOP TOP TOP MINUS TOP TOP BOT BOT BOT TOP TOP TOP TOP BOT TOP BOT TOP TOP BOT BOT BOT TOP TOP PLUS BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP BOT

[A/G] [T/C] [G/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/C] [G/C] [T/C] [T/C] [A/G] [T/G] [A/G] [A/C] [A/G] [G/C] [A/G] [A/G] [A/G] [I/D] [A/G] [A/C] [T/G] [T/C] [T/C] [A/G] [A/C] [A/G] [A/G] [G/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/G] [T/C] [A/G] [A/C] [D/I] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C]

9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9

22036367 22071750 22072040 22072598 22078305 22086826 22114495 22116046 22116071 22119195 22124630 22125347 22125503 22125913 22129579 22140712 22151412 22158307 22161828 22168128 22175188 22176961 22185052 22321957 22364232 22365565 22365772 22395038 22404211 22404211 22417778 22429909 22430804 22430804 22442781 22454028 22528039 22554601 22557527 22616426 22638731 22725295 22765106 22784110 22868215 22883068 22985856 22985856 23022607 23081882 23171045 23185901 23216803 23274023 23274023 23307377 23307377 23569870 23665940 23687455

SC

M AN U

TE D

rs1556515 rs4451405 rs12555547 rs75774796 rs7855660 rs66478960 chr9_22114495_A_G rs1537374 rs1537375 rs1333045 rs10757279 rs1333048 rs1333049 rs1333050 rs7020996 rs80310229 rs7047414 chr9_22158307_C_T rs10965267 rs7863846 rs10965279 rs10757292 rs72646635 rs4977774 rs76841012 chr9_22365565_A_G chr9_22365772_G_T rs9695540 rs72695396 rs72695396 rs7847145 rs603582 rs16906084 rs16906084 rs10757327 rs1329399 rs59126944 rs1158382 rs1112389 rs2065846 rs79603714 rs688581 rs4607705 chr9_22784110_A_C chr9_22868215_CTTAT_INDEL chr9_22883068_C_T rs10811813 rs10811813 corect_rs141691689 rs12352937 rs7869437 rs10122753 rs10965704 rs7022904 rs7022904 rs1544161 rs1544161 rs17698074 rs10733391 rs2116227

genotype difference Col_38_TS Col_38_CB Col_33_CB Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_38_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_38_IF Col_52_IF Col_33_IF Col_33_IF Col_52_CB Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_34_IF Col_38_TS Col_52_CB Col_52_IF Col_33_IF Col_16_IF Col_16_IF Col_45_IF Col_52_IF Col_33_IF Col_45_IF Col_33_IF Col_52_CB Col_52_TS

RI PT


Marker ID

335

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT BOT PLUS PLUS PLUS BOT TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT TOP BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP BOT TOP

[T/C] [A/G] [T/G] [T/C] [T/C] [I/D] [I/D] [I/D] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/C] [T/C] [T/C] [A/G] [T/C] [A/T] [A/T] [A/G] [A/G] [A/G] [A/G] [A/T] [T/G] [T/C] [T/C] [T/C] [G/C] [T/C] [T/C] [T/C] [A/C] [T/C] [T/G] [T/C] [G/C] [T/C] [A/C] [T/C] [T/G] [A/G] [T/C] [A/G] [A/G] [A/C] [A/C] [T/C] [T/C] [A/G] [T/C] [A/G]

9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9

23842612 23935686 24066817 24075368 24146436 24151895 24151895 24151895 24275529 24573717 24598119 24742988 24837092 24837608 24895412 24895412 24895412 24902466 24976322 25176251 25241316 25301621 25301621 25308896 25325895 25398993 25398993 25444412 25519176 25522087 25593671 25632147 25643882 25656011 25735449 25748799 25796860 25815700 25944009 26019897 26059028 26100957 26155894 26194166 26208857 26353965 26376870 26381874 26417755 26643035 26649956 26725702 26869480 26919607 26919607 26998047 27044587 27248177 27274428 27446846

SC

M AN U TE D

AC C

EP

rs10811978 chr9_23935686_C_T rs7031162 rs12379069 rs2298620 chr9_24151896_INDEL_T chr9_24151896_INDEL_T chr9_24151896_INDEL_T chr9_24275529_G_T rs2149913 kgp8782925 chr9_24742988_A_G rs9406825 rs7867489 rs7045754 rs7045754 rs7045754 rs7022130 rs7038176 rs7034635 rs10738708 rs74894647 rs74894647 chr9_25308896_A_G rs1372872 chr9_25398993_A_T chr9_25398993_A_T chr9_25444412_A_G rs10966940 rs10966943 chr9_25593671_C_T corect_rs192195502 rs4512475 rs7047552 chr9_25735449_C_T rs1231353 chr9_25796860_C_G rs989053 rs10812327 rs16910056 rs957252 rs7854360 rs10119966 rs2787180 rs4978053 chr9_26353965_A_G chr9_26376870_A_C rs2769970 chr9_26417755_A_C rs11794586 rs10511783 rs10511779 chr9_26869480_A_G rs10120342 rs10120342 exm744032 chr9_27044587_A_G rs7042745 rs13288748 chr9_27446846_A_G

genotype difference Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_45_CB Col_52_CB Col_16_TS Col_33_IF Col_33_IF Col_38_CB Col_12_IF Col_52_IF Col_16_IF Col_52_TS Col_59_TS Col_33_CB Col_52_IF Col_33_IF Col_33_CB Col_45_IF Col_12_IF Col_33_IF Col_52_IF Col_16_TS Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_CB Col_52_CB Col_34_CB Col_12_IF Col_33_IF Col_33_IF Col_16_CB Col_33_IF Col_33_IF

RI PT


Marker ID

336

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT TOP TOP BOT PLUS MINUS MINUS MINUS BOT BOT TOP BOT BOT TOP BOT TOP TOP TOP BOT TOP TOP BOT TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT PLUS PLUS BOT BOT BOT BOT TOP BOT BOT TOP BOT TOP BOT TOP BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT TOP

[T/C] [A/C] [T/C] [A/C] [A/G] [T/C] [D/I] [D/I] [D/I] [D/I] [T/C] [T/C] [C/G] [T/C] [T/C] [A/C] [T/C] [C/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/G] [T/G] [T/C] [A/G] [A/G] [A/G] [T/G] [T/C] [D/I] [D/I] [T/C] [T/C] [T/G] [T/G] [A/G] [T/C] [T/C] [A/G] [G/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/G] [A/T] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/C]

9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9

27508687 27620642 27621563 27688290 27820493 27874679 27938315 27942356 27942356 27942356 27969440 28081747 28161123 28276698 28299438 28329088 28360213 28377552 28391471 28395330 28405415 28427129 28520208 28529410 28571014 28594068 28598399 28609758 28710505 28720007 28754535 28827591 29218907 29336679 29426437 29426437 29516586 29516586 29516728 29516728 29520544 29556577 29591047 29597380 29752349 29753393 29785304 29823067 29874745 29936198 30019155 30068009 30156111 30187798 30187798 30212447 30212447 30297393 30297393 30338229

SC

M AN U TE D

AC C

EP

rs2166128 rs10812622 rs10968015 rs2150021 chr9_27820493_A_G rs6476027 chr9_27938315_G_INDEL chr9_27942356_CC_INDEL chr9_27942356_CC_INDEL chr9_27942356_CC_INDEL rs12683422 chr9_28081747_C_T chr9_28161123_C_G rs13301122 rs7855717 rs1999423 rs3843937 rs7850516 rs62559513 rs62555168 rs10968565 chr9_28427129_C_T rs10757754 rs12551829 rs10812846 chr9_28594068_C_T rs7861525 rs10968671 rs1347790 rs16913556 rs321738 rs824270 rs1010587 rs4529540 chr9_29426437_G_INDEL chr9_29426437_G_INDEL rs571210 rs571210 rs11536732 rs11536732 rs603216 rs10813121 rs510290 chr9_29597380_A_G chr9_29752349_C_G rs4437734 rs10969376 rs12352814 rs4567127 chr9_29936198_C_T rs10511841 rs2360145 corect_rs117819748 rs7868434 rs7868434 rs2769635 rs2769635 rs10124607 rs10124607 rs10125259

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_52_IF Col_12_TS Col_52_IF Col_33_IF Col_33_IF Col_08_IF Col_12_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_45_TS Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_38_IF Col_52_IF Col_38_IF Col_12_IF Col_16_IF Col_52_CB Col_34_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_CB Col_38_TS Col_33_IF Col_33_IF Col_38_CB Col_59_TS Col_16_IF Col_52_IF Col_16_IF Col_52_IF Col_12_IF

RI PT


Marker ID

337

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT TOP BOT TOP BOT BOT TOP BOT BOT PLUS TOP TOP BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP TOP BOT TOP TOP TOP BOT PLUS TOP TOP TOP TOP TOP TOP TOP BOT

[T/C] [T/G] [A/C] [A/G] [A/G] [A/G] [T/A] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/C] [T/C] [T/C] [I/D] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/C] [A/C] [A/G] [T/C] [T/C] [A/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/G] [A/G] [A/G] [A/G] [T/C] [I/D] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C]

9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9

30443903 30555391 30672465 30743422 30840471 30840471 31100781 31101278 31146393 31151599 31196322 31219767 31248679 31261646 31261646 31307968 31327640 31327640 31345826 31394025 31394025 31424013 31479215 31482981 31482981 31482981 31629777 31631227 31631227 31674177 31674177 31729270 31822916 31939690 31939690 32018100 32082616 32094230 32176938 32211402 32305904 32465092 33525447 33610559 34210872 34237480 34841463 35690310 35694831 35983405 35988418 36085083 36151164 36741046 36962064 37017666 37050148 37050148 37254690 37344646

SC

M AN U TE D

AC C

EP

rs3853275 rs10117990 chr9_30672465_G_T rs12350524 rs10969885 rs10969885 corect_rs117677886 rs6476261 rs10813477 rs62569854 rs28412770 rs62570036 rs7025164 rs10122688 rs10122688 rs10758050 chr9_31327640_C_T chr9_31327640_C_T chr9_31345827_INDEL_T rs7857709 rs7857709 rs7866477 rs10970378 kgp5604009 kgp5604009 kgp5604009 chr9_31629777_A_G chr9_31631227_C_T chr9_31631227_C_T rs10970476 rs10970476 rs288901 rs7026194 rs78434992 rs78434992 rs10511893 rs7038038 rs10738877 rs10970826 rs7853053 rs1331231 chr9_32465092_C_T rs4120127 rs2142063 rs4319185 rs17258448 chr9_34841463_A_C rs2756892 chr9_35694831_C_T rs10814308 rs12004566 chr9_36085084_A_INDEL chr9_36151164_A_G rs4255220 rs7858508 rs2381595 rs1536876 rs1536876 rs10758428 chr9_37344646_A_G

genotype difference Col_33_IF Col_52_IF Col_33_IF Col_52_CB Col_16_CB Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_IF Col_33_CB Col_38_TS Col_12_CB Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_08_CB Col_33_IF Col_52_CB Col_33_IF Col_38_CB Col_52_IF Col_38_CB Col_52_IF Col_52_IF Col_33_IF Col_16_CB Col_33_CB Col_08_CB Col_52_IF Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_12_TS Col_33_IF Col_34_IF Col_38_CB Col_33_IF

RI PT


Marker ID

338

IlmnStrand

SNP

Chr

MapInfo

TOP MINUS TOP TOP TOP TOP BOT TOP TOP TOP BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP PLUS TOP BOT BOT TOP PLUS TOP TOP TOP BOT TOP TOP BOT

[A/G] [D/I] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/A] [T/C] [T/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/G] [T/G] [T/C] [A/C] [T/C] [A/T] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [I/D] [A/G] [T/C] [T/G] [A/G] [D/I] [A/G] [A/G] [A/G] [T/A] [A/G] [A/G] [T/C]

9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9

37704049 37780831 38260952 38531889 39019085 39098698 39151736 71129950 71168318 71241448 71473803 71926960 71968655 71975767 72064749 72303882 72728822 73187099 73265303 73420493 73446373 73490866 73512430 73574860 73605030 73697886 73697886 73717875 73753420 73768548 73855904 73864425 73910917 73920359 74011326 74011326 74011326 74043711 74067610 74101337 74157998 74175647 74179834 74193332 74208282 74245141 74392687 74502209 74840668 74858118 74878937 74954788 74977418 75012258 75349586 75516062 75517433 75529941 75529941 75533324

SC

M AN U TE D

AC C

EP

chr9_37704049_C_T indel.104378 rs2810760 rs2993156 kgp8446498 rs4961901 kgp1910919 rs265087 chr9_71168318_C_T chr9_71241448_C_T rs7863342 chr9_71926960_A_G chr9_71968655_A_G chr9_71975767_A_G chr9_72064749_C_T rs10867916 rs4744977 rs10435958 rs10114661 rs7873697 rs10081686 rs10746857 chr9_73512430_C_T rs945688 rs80311729 rs13285838 rs13285838 rs11142691 rs7046666 rs17056365 rs17616057 chr9_73864425_C_T chr9_73910917_C_T rs7023772 rs75344618 rs75344618 rs75344618 chr9_74043711_A_G rs12002628 rs10869028 rs10124132 rs2309983 rs10124877 corect_rs116894075 rs12353518 chr9_74245141_A_G rs4745122 chr9_74502210_A_INDEL chr9_74840668_A_G rs4130866 rs10869157 chr9_74954788_C_T chr9_74977418_ACCT_INDEL rs3012511 rs2589632 rs8187998 rs8187993 chr9_75529941_A_G chr9_75529941_A_G rs610529

genotype difference Col_38_TS Col_12_TS Col_33_IF Col_12_CB Col_38_TS Col_33_IF Col_59_TS Col_33_IF Col_34_CB Col_33_IF Col_08_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_34_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_34_TS Col_52_IF Col_33_IF Col_33_CB Col_52_CB Col_52_IF Col_33_IF Col_33_IF Col_34_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_16_IF Col_52_IF Col_33_IF

RI PT


Marker ID

339

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT TOP BOT BOT BOT TOP BOT TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT TOP BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT TOP TOP TOP

[A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/C] [A/G] [T/C] [T/G] [A/C] [A/G] [T/C] [A/G] [T/C] [T/G] [T/C] [A/G] [T/A] [A/G] [T/C] [T/G] [T/C] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [A/C] [A/G] [T/G] [A/C] [T/G] [T/C] [T/C] [A/G] [A/C] [T/C] [T/C] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G]

9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9

75559818 75706106 75713777 75764783 75808568 75808568 75819755 75828707 75956329 75956329 75956329 76115072 76129530 76185813 76242155 76350903 76669299 76715482 76793127 76845371 76949180 77138246 77222473 77544226 77629945 77633445 77670524 77697226 77770054 77809042 77830570 77992822 78117331 78118063 78163305 78315752 78397226 78489484 78564312 78594340 78741027 78746781 78899083 78987645 78994056 79065299 79272580 79385980 79469334 79469334 79518215 79561569 79702675 79740345 79783751 79866051 79938036 79959197 79975562 80017018

SC

M AN U TE D

AC C

EP

rs647880 rs2153769 corect_rs111688343 corect_rs112765295 chr9_75808568_C_T chr9_75808568_C_T rs13290663 rs4237258 rs954227 rs954227 rs954227 chr9_76115072_A_G chr9_76129530_G_T rs12339193 rs1398307 rs12003936 rs2046913 rs11143787 rs2045191 rs4745304 rs10491923 rs1018584 chr9_77222473_C_T chr9_77544226_A_G corect_rs141654978 corect_rs145070808 chr9_77670524_A_G chr9_77697226_A_C rs773024 rs10781268 rs12550903 rs12004565 rs17642823 rs549347 rs10116662 rs7044203 rs1359716 rs1544181 chr9_78564312_A_G chr9_78594340_A_G rs7037905 rs10746992 rs9314843 rs2490572 rs7038009 rs11144905 rs7018789 rs627587 rs6560555 rs6560555 rs7035057 rs10217550 rs10781417 chr9_79740345_C_T rs12156556 rs2377903 chr9_79938036_C_T exm756744 newrs183316143 rs12347526

genotype difference Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_16_TS Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_12_IF Col_33_IF Col_33_IF Col_08_IF Col_33_IF Col_16_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_CB Col_33_CB Col_38_CB Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_08_TS Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

340

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP BOT TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT BOT TOP

[T/G] [A/C] [T/G] [A/G] [A/G] [T/G] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [A/G] [T/C] [T/C] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [A/G] [T/C] [A/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/T] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/G] [T/G] [T/C] [A/G]

9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9

80169725 80221466 80485900 80613593 80676022 80767173 80767173 81119846 81256580 81624484 81720399 81725579 81725579 81974200 82042491 82070230 82130861 82472582 82536663 82616777 82622367 82631510 82654332 82851561 82932712 82956688 83024270 83048003 83197939 83429265 83513137 83514230 83726045 83909232 83915924 83998998 83998998 84070398 84092317 84092317 84195189 84323900 84723491 85176052 85332687 85458060 85460747 85495503 85520702 85527035 85557505 85590972 85591540 85679078 85860018 85997734 86097564 86109124 86368660 86381814

SC

M AN U TE D

AC C

EP

chr9_80169725_G_T rs1953330 rs1410555 rs1075369 chr9_80676022_C_T rs10870056 rs10870056 rs10867212 chr9_81256580_A_G chr9_81624484_A_G chr9_81720399_A_G rs10780291 rs10780291 rs7859622 rs12554999 chr9_82070230_A_G rs1417080 rs6559507 rs10746608 rs10746614 chr9_82622367_C_T chr9_82631510_A_G rs1410502 rs17082971 rs915004 rs10746630 rs991677 rs11138659 rs10780435 rs10735555 rs7025679 rs9314695 rs3927559 rs13298109 rs11139132 chr9_83998998_C_T chr9_83998998_C_T rs11139263 chr9_84092317_C_T chr9_84092317_C_T rs4877217 rs4877223 chr9_84723491_A_G chr9_85176052_A_G rs581729 rs2224524 corect_rs181264674 chr9_85495503_A_G rs34825839 rs11139868 rs7032152 rs2999948 chr9_85591540_C_T chr9_85679078_C_T rs1048223 chr9_85997734_C_T rs35580298 rs11140121 rs7047907 rs11140240

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_59_TS Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_12_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_52_IF Col_38_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_38_TS Col_45_IF Col_33_IF Col_33_TS Col_33_IF Col_16_TS Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_38_CB Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF

RI PT


Marker ID

341

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT TOP TOP BOT TOP BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT PLUS BOT BOT TOP BOT TOP TOP BOT BOT BOT BOT

[A/G] [T/C] [T/C] [A/G] [T/G] [T/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/G] [T/C] [A/G] [A/G] [A/G] [T/G] [T/C] [A/G] [A/C] [A/G] [T/C] [A/G] [A/C] [T/C] [T/C] [T/A] [T/A] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/C] [A/T] [T/C] [A/G] [T/C] [T/C] [A/G] [A/C] [A/G] [A/G] [T/C] [T/C] [T/G] [T/G] [T/C] [I/D] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/A] [T/C] [T/C] [T/C]

9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9

86617265 86721929 86777126 86789462 86800108 86960060 87160854 87266352 87302196 87703126 88194182 88204998 88234954 88250850 88276068 88277116 88700060 89134211 89207149 89308609 89843781 89858267 90004710 90308000 90455686 90455686 90722851 90722851 90765354 90834581 91260562 91264206 91377672 91491196 91908783 91931058 92803759 92907960 92943286 92946648 92962076 93095891 93130383 93231161 93377901 93382438 93561450 93561614 93774385 93792599 94214002 94764233 94901424 95228663 95586719 95586719 95628285 95865842 96117348 96126075

SC

M AN U TE D

AC C

EP

rs1982151 rs6559768 chr9_86777126_C_T rs2245980 chr9_86800108_G_T rs10780664 rs7859601 rs1187333 rs1619120 rs11140851 rs7857819 rs4645620 rs618242 rs11141048 chr9_88276068_C_T rs7031647 rs10868366 rs11141419 rs7048627 rs10780781 rs10113878 rs10122994 kgp2290036 rs3128489 rs7045334 rs7045334 chr9_90722851_A_T chr9_90722851_A_T rs11142135 rs2578247 rs17054265 chr9_91264206_A_G rs7867153 chr9_91491196_C_T rs1556046 chr9_91931058_A_T rs7049060 rs10820953 chr9_92943286_A_G rs10761166 rs2114518 rs1777045 rs12004191 rs1426507 rs1017753 rs690232 rs290991 rs10821507 rs296646 chr9_93792600_A_INDEL rs1412470 rs7045602 corect_rs116619618 rs41278695 rs1972214 rs1972214 chr9_95628285_A_T chr9_95865842_A_G rs10761216 rs4744227

genotype difference Col_33_IF Col_12_CB Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_16_TS Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_CB Col_33_IF Col_52_IF Col_12_CB Col_16_CB Col_34_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_16_TS Col_52_CB Col_33_IF Col_16_IF Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_34_CB Col_33_IF Col_08_TS Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB

RI PT


Marker ID

342

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP BOT TOP BOT BOT BOT TOP TOP BOT TOP BOT TOP BOT TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT TOP BOT TOP TOP BOT BOT BOT TOP TOP

[A/C] [A/C] [A/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/C] [A/G] [A/T] [A/T] [A/G] [T/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/C] [A/G] [T/G] [A/G] [A/G] [A/G] [A/C] [T/C] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/C] [T/C] [A/G] [A/G] [T/G] [A/G] [T/C] [A/G] [A/G] [T/G] [T/C] [T/C] [A/G] [A/G]

9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9

96188018 96188018 96322902 96469123 96524226 96600298 96617463 96742731 96742731 97065291 97280338 97337073 97337073 97407889 97438115 97642419 98126554 98293208 98368445 98439240 98635675 98858762 99584367 99727079 99883513 99899313 100005128 100194825 100233189 100428977 100467594 100482976 100911422 101113241 101629751 101644649 101914387 102053888 102076986 102298666 102400263 102575680 102886948 102911706 102939193 103286335 103459867 103462854 103495889 103517896 103534788 103603201 103717654 103751098 103751098 103872326 103909159 103923185 103996861 103996861

SC

M AN U TE D

AC C

EP

chr9_96188018_A_C chr9_96188018_A_C chr9_96322902_A_C chr9_96469123_A_G rs10761266 rs4344139 rs10821238 chr9_96742731_C_T chr9_96742731_C_T rs10993156 chr9_97280338_C_T chr9_97337073_A_T chr9_97337073_A_T rs10761350 chr9_97438115_G_T chr9_97642419_A_G chr9_98126554_C_T rs16909955 chr9_98368445_C_T rs354276 rs12004422 chr9_98858762_C_T chr9_99584367_C_T kgp9076500 rs13283681 rs4743059 rs11791310 rs11999505 rs4742693 rs10116536 rs2808672 rs953199 rs2795491 rs471722 rs10819389 chr9_101644649_C_T rs334349 chr9_102053888_G_T corect_rs142271404 kgp10074168 rs10819689 rs13295822 rs846761 rs1415927 rs10988996 chr9_103286335_A_G rs7875828 chr9_103462854_A_G rs10989231 rs10739802 chr9_103534788_G_T rs10512274 rs607449 rs73656415 rs73656415 rs716157 chr9_103909159_C_T rs438403 chr9_103996861_C_T chr9_103996861_C_T

genotype difference Col_33_IF Col_34_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_38_TS Col_08_TS Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_34_TS Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_16_TS Col_52_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_52_TS Col_12_CB Col_38_TS Col_45_IF Col_33_IF Col_33_IF Col_45_IF Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_12_CB

RI PT


Marker ID

343

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT TOP TOP TOP TOP BOT BOT TOP BOT TOP BOT BOT BOT TOP TOP BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT BOT TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT TOP PLUS TOP BOT

[A/G] [A/G] [T/C] [A/C] [A/G] [A/T] [A/G] [T/G] [T/C] [A/G] [T/C] [A/C] [T/G] [T/G] [G/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/A] [T/C] [A/G] [A/C] [T/C] [A/G] [A/C] [A/C] [T/G] [T/G] [A/G] [A/G] [A/G] [T/G] [A/G] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [A/C] [T/G] [T/G] [A/G] [A/G] [A/G] [A/C] [T/C] [A/G] [I/D] [A/G] [T/G]

9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9

104093835 104093835 104103751 104126546 104202803 104377532 104378479 104534755 104555051 104588732 104662585 104705253 104725073 104725073 104740269 104759787 104766075 104902874 104904454 104947395 105063781 105117488 105160834 105173809 105478651 105485375 105692778 105780536 105788456 105797832 105823914 105983538 106052433 106052433 106106390 106235615 106259980 106287146 106335903 106337200 106505693 106530763 106610918 106611898 106705796 106705796 106721804 106745856 106798942 106887143 106887143 106921023 106944031 106956123 107213767 107227109 107246760 107279271 107279558 107471996

SC

M AN U TE D

AC C

EP

chr9_104093835_A_G chr9_104093835_A_G rs78430487 rs1341762 rs479600 chr9_104377532_A_T rs10117679 rs7874128 rs10989623 rs2786715 rs823920 rs1418236 corect_rs139492976 corect_rs139492976 rs3012583 rs10124808 rs2995190 rs1932152 rs10760846 rs9918994 rs2417336 rs7038470 chr9_105160834_C_T chr9_105173809_A_G chr9_105478651_C_T rs1602690 chr9_105692778_A_T chr9_105780536_C_T rs10121525 chr9_105797832_G_T chr9_105823914_A_G rs7044631 rs12337792 rs12337792 chr9_106106390_G_T rs1936739 rs79668944 rs10760969 rs1577902 rs1577905 rs1659546 rs10990941 rs13298450 rs3930054 rs10991004 rs10991004 rs10512321 rs34962315 rs12115654 chr9_106887143_A_C chr9_106887143_A_C rs6479223 rs966390 rs1507506 chr9_107213767_A_C rs902788 rs1916678 chr9_107279271_AAG_INDEL rs2900371 chr9_107471996_G_T

genotype difference Col_38_IF Col_12_IF Col_38_TS Col_52_TS Col_12_TS Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_59_TS Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_08_IF Col_16_IF Col_16_TS Col_52_CB Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_59_TS Col_33_IF Col_33_CB Col_52_IF Col_52_TS Col_33_CB Col_52_IF Col_33_IF Col_33_CB Col_33_CB Col_33_IF Col_12_TS Col_33_IF Col_59_TS Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_45_IF Col_33_IF

RI PT


Marker ID

344

IlmnStrand

SNP

Chr

MapInfo

BOT MINUS BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT PLUS BOT MINUS BOT BOT BOT BOT PLUS TOP BOT BOT BOT TOP TOP TOP MINUS TOP TOP TOP TOP

[T/C] [I/D] [T/C] [T/C] [A/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/G] [T/G] [T/G] [T/G] [A/G] [A/G] [A/G] [A/G] [A/T] [A/C] [A/C] [A/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [C/G] [T/C] [T/C] [T/C] [A/G] [A/C] [A/G] [T/C] [T/C] [A/C] [T/G] [T/C] [D/I] [T/C] [D/I] [T/G] [T/C] [T/C] [T/C] [D/I] [A/C] [T/C] [T/G] [G/C] [A/G] [A/G] [A/C] [I/D] [A/G] [A/G] [A/G] [A/T]

9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9

107515201 107515286 107522553 107543891 107546254 107664301 107715878 108083485 108324930 108468129 108474679 108523710 108523710 108523710 108568610 108568610 108568610 108898935 108912412 108920220 108927068 108927068 108979480 108982379 108982379 108998114 109018525 109060830 109065436 109067561 109073701 109233625 109238625 109312922 109382361 109478483 109478483 109492294 109581132 109618643 109851907 109954812 109967686 109971491 109971764 110004992 110070414 110084925 110131397 110155358 110156151 110169470 110178494 110178494 110195347 110247031 110269746 110269746 110269746 110275852

SC

M AN U TE D

AC C

EP

chr9_107515201_C_T chr9_107515286_AA_INDEL chr9_107522553_A_G kgp18592074 kgp27308822 chr9_107664301_C_T rs2472519 rs12349416 rs12337780 rs3817141 rs10739211 rs10465120 rs10465120 rs10465120 rs77710670 rs77710670 rs77710670 rs1400438 chr9_108912412_A_T chr9_108920220_G_T rs7028916 rs7028916 chr9_108979480_A_G chr9_108982379_C_T chr9_108982379_C_T chr9_108998114_C_T rs2417688 chr9_109060830_C_T chr9_109065436_C_G chr9_109067561_A_G chr9_109073701_C_T rs10512345 chr9_109238625_C_T rs7865489 chr9_109382361_A_G rs12004286 rs12004286 rs2498861 rs4742675 rs7850188 chr9_109851907_AG_INDEL rs1519039 rs35215408 rs2680198 rs56114549 rs11793096 rs78986470 rs35450630 rs1538985 rs817829 rs817828 rs7867845 rs61517820 rs61517820 rs12684050 chr9_110247032_INDEL_T rs35961224 rs35961224 rs35961224 rs10816524

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_52_IF Col_45_IF Col_52_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_CB Col_33_IF Col_34_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_12_IF Col_33_IF Col_33_IF Col_45_IF Col_34_TS Col_12_CB Col_52_CB Col_33_IF Col_16_TS Col_33_CB Col_33_IF Col_33_IF Col_08_TS Col_16_TS Col_38_TS Col_12_CB

RI PT


Marker ID

345

IlmnStrand

SNP

Chr

MapInfo

TOP PLUS BOT BOT TOP BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT BOT MINUS TOP BOT TOP TOP BOT TOP BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT MINUS BOT TOP BOT BOT TOP BOT BOT PLUS TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP

[A/G] [I/D] [T/C] [T/C] [A/G] [T/C] [A/G] [T/A] [A/G] [T/C] [T/C] [T/C] [T/C] [T/A] [T/A] [T/A] [D/I] [A/G] [G/C] [C/G] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [C/G] [T/C] [T/C] [G/C] [G/C] [D/I] [T/A] [A/G] [G/C] [T/C] [A/G] [T/G] [T/C] [D/I] [A/G] [G/C] [A/G] [T/G] [T/G] [T/G] [T/G] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G]

9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9

110397107 110596497 110630326 110659609 110665147 110673927 110677097 110724527 110733922 110757887 110760144 110761002 110775973 110778052 110778052 110778052 110806645 110808571 110873282 110885947 110886052 110887106 110888260 110896141 110896230 110896340 110898048 110899191 110906677 110906677 110906677 110911169 110916360 110939948 110940360 110940360 110972062 110972062 110976036 111002153 111004738 111012582 111047463 111053642 111068483 111085785 111096658 111142265 111197612 111206208 111216762 111216762 111216762 111216762 111241335 111282554 111288037 111377537 111385834 111415355

SC

M AN U TE D

AC C

EP

rs7864185 chr9_110596498_INDEL_T chr9_110630326_C_T rs12001354 rs35840735 rs34334172 rs4978649 rs10979134 rs632845 rs10979157 chr9_110760144_A_G rs12342578 rs62568532 chr9_110778052_A_T chr9_110778052_A_T chr9_110778052_A_T chr9_110806645_C_INDEL rs10816621 chr9_110873282_C_G rs519679 rs520613 rs648354 rs472483 chr9_110896141_C_T chr9_110896230_C_T rs516327 chr9_110898048_G_T rs12379962 rs651829 rs651829 rs651829 rs28496063 chr9_110916360_A_C c9_pos109979769 rs1412427 rs1412427 rs485572 rs485572 rs67970244 chr9_111002153_A_T chr9_111004738_A_G chr9_111012582_C_G rs7852572 rs10979303 rs1323384 rs74793433 rs71888571 rs1323719 chr9_111197612_C_G chr9_111206208_C_T rs73513986 rs73513986 rs73513986 rs73513986 rs10816673 rs7863118 rs7865368 rs9299156 rs16913355 rs10125548

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_38_TS Col_12_IF Col_12_TS Col_33_IF Col_33_IF Col_52_IF Col_38_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_45_IF Col_33_IF Col_12_CB Col_33_CB Col_38_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_12_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_16_TS Col_33_IF Col_38_IF Col_52_IF Col_38_TS Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_38_IF

RI PT


Marker ID

346

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP BOT TOP TOP BOT BOT BOT TOP TOP TOP MINUS PLUS TOP PLUS TOP BOT PLUS TOP BOT BOT BOT BOT BOT BOT TOP BOT TOP BOT TOP BOT TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP TOP BOT TOP BOT BOT MINUS TOP TOP TOP TOP TOP BOT

[A/G] [T/C] [A/G] [T/G] [A/G] [A/C] [T/C] [T/C] [T/C] [A/C] [A/C] [A/G] [D/I] [D/I] [A/C] [D/I] [A/G] [T/A] [D/I] [A/G] [T/A] [T/A] [T/A] [T/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/C] [T/G] [A/G] [T/C] [T/G] [A/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [A/C] [T/C] [A/G] [A/G] [A/G] [A/C] [T/C] [A/C] [T/C] [T/C] [I/D] [A/C] [A/G] [A/G] [A/C] [A/G] [T/C]

9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9

111493295 111498383 111539177 111560315 111561773 111637304 111640631 111643477 111646983 111705135 111705135 111715207 111739641 111777517 111782531 111832931 111841492 111849346 111851177 111854246 111972671 111972671 111972671 112165546 112381955 112688022 112791184 113109179 113153159 113193574 113273768 113398561 113463246 113476105 113499263 113631618 113699673 113751324 113885415 113885415 113885415 113957534 114196046 114196046 114374729 114489887 114489887 114607816 114612458 114621854 114641291 114696600 114837337 114844398 115042805 115075046 115103266 115178029 115202068 115260748

SC

M AN U TE D

AC C

EP

rs7854632 rs1934460 rs2153356 rs10816724 rs10123192 rs2027433 rs10435834 chr9_111643477_A_G rs4978374 chr9_111705135_G_T chr9_111705135_G_T rs838834 rs71863443 rs16401 rs7776 chr9_111832931_ATG_INDEL rs59756486 chr9_111849346_A_T rs60610447 rs523340 rs12684047 rs12684047 rs12684047 rs10816807 rs7049166 chr9_112688022_A_G rs260188 rs7854688 rs7847265 rs6477769 rs10980418 rs4978951 rs4498626 rs4297099 chr9_113499263_A_C rs516187 chr9_113699673_A_G rs12551377 rs10980780 rs10980780 rs10980780 rs7046956 chr9_114196046_A_C chr9_114196046_A_C rs16916245 rs953536 rs953536 rs4979054 rs12376643 rs10981126 rs7043162 rs62570280 rs10116017 chr9_114844399_A_INDEL rs10481666 chr9_115075046_A_G rs10817319 rs10739349 rs10759563 chr9_115260748_A_G

genotype difference Col_33_IF Col_33_CB Col_16_TS Col_52_CB Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_34_IF Col_52_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_12_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_16_TS Col_34_IF Col_12_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_34_TS Col_34_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_52_IF Col_45_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

347

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT TOP BOT TOP BOT TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP BOT TOP BOT TOP TOP TOP

[A/G] [G/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [G/C] [T/C] [T/G] [T/C] [T/C] [T/C] [A/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/A] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/A] [A/G] [T/G] [C/G] [A/G] [A/G]

9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9

115348961 115364494 115446426 115632898 115678033 115698346 115733682 115775168 115781111 115788728 115790227 115942559 116005783 116028857 116031938 116448765 116542848 116684240 116867054 116867054 116913794 117114168 117208985 117387673 117523018 118156112 118194134 118348955 118401861 118401861 118401861 118401861 118485528 118539497 118554432 118619303 118634305 118634305 118794692 119153208 119249361 119249361 119307773 119487445 119533737 119633968 119792047 119826990 119826990 119854198 119897489 120110190 120216660 120240163 120371406 120389465 120418118 120505417 120636801 120669106

SC

M AN U TE D

AC C

EP

chr9_115348961_C_T chr9_115364494_C_G rs2173196 rs16917417 rs1925081 rs747066 chr9_115733682_A_G rs1570756 rs2418246 rs1411601 rs16917698 chr9_115942559_G_T rs10817465 chr9_116028857_A_G chr9_116031938_C_T chr9_116448765_A_C chr9_116542848_C_T rs4979298 rs7029198 rs7029198 chr9_116913794_A_G rs10982177 rs10982222 rs6478094 rs12683136 rs3893062 rs10982742 rs10982832 corect_rs117423190 corect_rs117423190 corect_rs117423190 corect_rs117423190 chr9_118485528_C_T chr9_118539497_A_G chr9_118554432_A_G rs10982959 rs10759828 rs10759828 chr9_118794692_C_T chr9_119153208_C_T rs16933586 rs16933586 rs10983229 rs10983326 rs1441750 chr9_119633968_C_T rs7857238 rs7848547 rs7848547 rs12339142 chr9_119897489_C_T rs12552082 rs4837254 rs10983670 chr9_120371406_A_T rs1155928 rs913615 rs10818077 rs908198 rs7872095

genotype difference Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_38_TS Col_34_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_52_TS Col_33_IF Col_16_TS Col_33_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_38_TS Col_33_IF Col_12_CB Col_34_CB Col_38_TS Col_59_CB Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_38_TS Col_34_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_16_IF

RI PT


Marker ID

348

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT MINUS BOT TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT BOT PLUS BOT BOT BOT BOT BOT TOP MINUS MINUS MINUS TOP TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT TOP BOT TOP BOT BOT TOP BOT MINUS MINUS MINUS BOT

[A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [D/I] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/C] [A/C] [A/G] [A/G] [A/G] [T/G] [T/C] [D/I] [T/A] [T/C] [T/C] [G/C] [G/C] [C/G] [I/D] [I/D] [I/D] [A/G] [A/G] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/G] [A/G] [T/C] [T/G] [A/G] [T/C] [I/D] [I/D] [I/D] [T/C]

9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9

120757370 120869313 121001298 121021081 121051225 121076460 121084449 121321501 121481298 121577481 121708207 121956076 122150396 122150732 122152609 122152609 122333870 123075135 123374639 123914874 123941122 123955765 123955765 123957298 124113221 124192482 124227602 124273679 124327288 124356943 124395111 124395111 124424189 124424189 124645830 124678801 124678801 124678801 124683690 124683690 124896878 124906635 124945035 125339689 125364208 125920376 125975397 126383362 126768025 126885146 126914307 127720397 127961771 127985775 128406040 128535065 128664359 128664359 128664359 128740896

SC

M AN U

TE D

rs2245960 rs2806110 chr9_121001298_C_T chr9_121021081_A_G chr9_121051225_A_G rs12552250 rs4604517 chr9_121321501_A_G rs12235164 rs7025578 chr9_121708207_AAAAG_INDEL rs230089 rs7848896 chr9_122150732_A_G chr9_122152609_C_T chr9_122152609_C_T rs77377742 rs2159994 rs2416760 rs9408926 chr9_123941122_A_G chr9_123955765_A_C chr9_123955765_A_C chr9_123957298_A_G chr9_124113221_C_T rs306777 chr9_124227602_A_C chr9_124273679_C_T chr9_124327288_G_INDEL chr9_124356943_A_T chr9_124395111_A_G chr9_124395111_A_G chr9_124424189_C_G chr9_124424189_C_G chr9_124645830_C_G chr9_124678802_A_INDEL chr9_124678802_A_INDEL chr9_124678802_A_INDEL chr9_124683690_C_T chr9_124683690_C_T chr9_124896878_A_C chr9_124906635_C_T rs11789115 chr9_125339689_C_T rs10985729 rs803736 rs7026688 chr9_126383362_C_T chr9_126768025_A_G rs1576011 rs2767770 rs10986490 rs828095 rs393721 rs1250733 chr9_128535065_C_T chr9_128664360_INDEL_T chr9_128664360_INDEL_T chr9_128664360_INDEL_T rs10987069

genotype difference Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_CB Col_52_CB Col_33_CB Col_52_IF Col_16_TS Col_38_TS Col_33_CB Col_38_CB Col_45_IF Col_12_TS Col_33_CB Col_12_TS Col_33_IF Col_33_IF Col_33_TS Col_08_CB Col_12_CB Col_33_IF Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_52_CB Col_38_CB Col_33_IF Col_33_IF Col_38_CB Col_52_IF Col_12_IF Col_33_IF

RI PT


Marker ID

349

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT TOP TOP TOP BOT TOP MINUS TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP

[T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [D/I] [A/C] [A/C] [A/C] [T/C] [T/G] [T/G] [T/C] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/G] [T/C] [T/G] [T/G] [T/C] [A/G] [T/C] [T/C] [A/C]

9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 9 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

128883849 128983878 129015546 129807559 129807559 129826261 130265117 130286428 130566458 130945298 132072646 132340037 132478092 132478092 132771351 132882141 132923772 132993162 133011232 133832469 134437086 134437086 134813428 134890430 135204531 135837360 135837360 135837360 135888407 135981295 135981295 136141870 136865879 137107901 137107901 137373598 137373598 137864163 138093796 138281474 138503416 139101073 139101073 139101073 140926501 377161 413010 602716 1116671 1192011 1595155 1663908 1669110 1726719 1775550 1939074 1957364 1959367 1963068 2015854

SC

M AN U TE D

AC C

EP

rs7858074 rs2809423 chr9_129015546_A_G rs7864425 rs7864425 chr9_129826261_A_G exm782804 rs1891732 chr9_130566458_A_G rs10987911 rs7867597 rs4837389 rs11791419 rs11791419 rs2417192 rs7851530 rs10760659 chr9_132993162_A_G chr9_133011232_A_G chr9_133832469_A_G rs4740280 rs4740280 rs4579576 rs4363310 chr9_135204531_AG_INDEL chr9_135837360_G_T chr9_135837360_G_T chr9_135837360_G_T chr9_135888407_A_G chr9_135981295_A_C chr9_135981295_A_C rs2519093 rs460126 chr9_137107901_A_G chr9_137107901_A_G rs7033608 rs7033608 rs7025292 rs1891995 chr9_138281474_C_T chr9_138503416_C_T chr9_139101073_A_G chr9_139101073_A_G chr9_139101073_A_G chr9_140926501_C_T rs7070654 rs9787422 chr10_602716_A_G rs2387217 rs7078278 chr10_1595155_C_T rs7077892 rs12572078 rs11250727 rs884860 rs76350925 chr10_1957364_A_G rs10903596 rs11592109 rs3763685

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_38_TS Col_08_TS Col_33_CB Col_12_CB Col_33_CB Col_33_IF Col_16_TS Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_TS Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_34_TS Col_52_CB Col_33_IF Col_16_TS Col_38_TS Col_52_IF Col_12_CB Col_16_TS Col_33_CB Col_33_CB Col_12_CB Col_33_CB Col_33_CB Col_33_IF Col_12_CB Col_38_IF Col_52_CB Col_12_CB Col_33_CB Col_33_IF Col_33_CB Col_33_CB Col_34_CB Col_33_IF Col_33_IF Col_52_TS Col_34_TS Col_33_IF Col_16_TS Col_52_IF Col_33_IF Col_38_TS Col_33_IF Col_52_IF

RI PT


Marker ID

350

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT TOP BOT TOP TOP BOT TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT TOP BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP

[T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G] [G/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/G] [A/G] [A/T] [T/C] [T/G] [T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/T] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

2067049 2086923 2248384 2330043 2393152 2511754 2511754 2524962 2537042 2559338 2662611 2711041 2749234 2794309 2794309 2794309 2798314 2823334 2994480 3077299 3155428 3204682 3290827 3600741 3792738 3853031 3882497 3948928 4121705 4146461 4220308 4249881 4273085 4297181 4301143 4322833 4368217 4444195 4450357 4469292 4527345 4611369 4628616 4659197 4680910 4680910 4682964 4769379 4790595 4798756 4811925 4817166 4889730 4897820 4897820 4901798 4909968 4909968 4982478 4982478

SC

M AN U TE D

AC C

EP

rs7911388 rs10794839 chr10_2248384_A_G chr10_2330043_A_G rs10508230 rs1388723 rs1388723 chr10_2524962_A_G rs2452199 rs1388722 rs11598665 rs7893477 rs7909413 rs4881019 rs4881019 rs4881019 rs12762797 rs2388505 corect_rs117629053 rs10903938 rs3816701 rs5017749 chr10_3290827_A_G rs7068219 chr10_3792738_C_T rs4881220 rs11252133 chr10_3948928_A_G rs7341996 chr10_4146461_A_G rs17350653 rs7900699 chr10_4273085_A_G chr10_4297181_C_G rs2065089 rs1923397 chr10_4368217_A_G rs10751968 rs993175 rs1679434 chr10_4527345_C_T rs7088922 rs1498274 rs1039197 rs313445 rs313445 chr10_4682964_A_C rs2397839 chr10_4790595_A_G rs12357812 chr10_4811925_C_T chr10_4817166_A_G rs12767539 chr10_4897820_A_G chr10_4897820_A_G rs4359096 rs10795206 rs10795206 rs7094041 rs7094041

genotype difference Col_12_CB Col_33_IF Col_12_CB Col_38_TS Col_33_IF Col_38_CB Col_12_CB Col_33_IF Col_52_CB Col_12_CB Col_33_CB Col_33_IF Col_12_IF Col_16_TS Col_38_TS Col_12_CB Col_38_TS Col_52_IF Col_33_IF Col_52_CB Col_52_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_33_IF Col_12_CB Col_16_IF Col_52_IF Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_CB Col_52_CB Col_34_TS Col_33_CB Col_38_CB Col_12_CB Col_16_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_52_CB Col_12_CB Col_52_CB Col_12_CB

RI PT


Marker ID

351

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP TOP BOT MINUS TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP BOT BOT BOT TOP

[T/C] [A/C] [A/G] [A/G] [A/C] [T/C] [D/I] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [G/C] [A/G] [A/G] [A/G] [T/G] [A/G] [A/C] [A/G] [A/G] [T/C] [T/C] [T/G] [T/G] [T/C] [A/T] [A/G] [A/G] [A/G] [T/C] [T/C] [T/G] [A/G] [T/G] [T/C] [T/G] [A/G] [A/G] [T/G] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [T/C] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/C]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

5009449 5031360 5035246 5036441 5097405 5104290 5137271 5143902 5165820 5231295 5231295 5231295 5233315 5250453 5258571 5275078 5348060 5353690 5396328 5830052 5882764 5886734 5926079 6020191 6072354 6173465 6197168 6307423 6352975 6435119 6490726 6720799 6872008 6872008 6910884 6923722 7043556 7071030 7084300 7096290 7266521 7317984 7353133 7470868 7506562 7615330 7615330 7639925 7732323 7800881 7886084 7922269 7923508 8136964 8213413 8235266 8283236 8283236 8289748 8291668

SC

M AN U TE D

AC C

EP

rs7076886 chr10_5031360_G_T rs10904387 rs9804392 rs2096421 rs10795241 chr10_5137271_ACC_INDEL rs2154306 rs7086693 chr10_5231295_A_G chr10_5231295_A_G chr10_5231295_A_G rs12360316 chr10_5250453_C_T rs2050308 rs11253059 chr10_5348060_C_G rs9423406 rs9423601 c10_pos5870058 chr10_5882764_G_T rs2380205 rs3750657 chr10_6020191_A_G chr10_6072354_C_T rs11256933 c10_pos6237174 rs11596955 rs7919234 chr10_6435119_C_T chr10_6490726_A_T rs10508310 chr10_6872008_A_G chr10_6872008_A_G rs1470257 chr10_6923722_C_T rs11254939 rs11254958 rs7909368 chr10_7096290_C_T rs10905119 rs7916739 rs7920106 chr10_7470868_G_T rs4747484 chr10_7615330_C_T chr10_7615330_C_T chr10_7639925_C_T rs7917456 rs11255344 rs2802457 rs1041541 rs1244461 chr10_8136964_G_T rs548966 rs74538576 rs10905326 rs10905326 rs67090025 rs76909908

genotype difference Col_33_IF Col_12_TS Col_52_IF Col_16_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_IF Col_38_IF Col_12_CB Col_33_IF Col_59_CB Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_CB Col_33_IF Col_08_TS Col_33_CB Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_38_TS Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_52_CB Col_52_IF Col_12_CB Col_52_CB Col_33_CB Col_38_TS Col_33_IF Col_12_CB Col_12_CB Col_52_IF Col_52_IF Col_33_IF Col_33_CB Col_33_IF Col_52_IF Col_16_IF Col_45_IF Col_52_TS Col_12_CB

RI PT


Marker ID

352

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP TOP BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT

[T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/G] [T/A] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/C] [T/C] [T/C] [A/G] [T/C] [T/G] [T/C] [A/G] [T/C] [T/G] [A/C] [A/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [A/G] [T/C] [T/C]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

8295136 8302602 8303676 8324943 8357299 8357299 8367535 8371494 8386941 8389016 8396332 8410740 8415364 8424364 8424364 8439672 8445655 8465144 8467037 8473017 8490612 8498815 8504118 8530266 8530502 8550675 8555616 8561427 8565675 8588859 8609666 8613894 8619963 8650841 8660732 8667035 8688442 8695140 8696834 8701219 8708323 8710460 8710671 8716337 8725039 8736350 8746255 8774275 8800381 8807972 8810236 8866290 8923647 8952552 8999811 8999811 9003997 9020234 9028481 9072316

SC

M AN U TE D

AC C

EP

rs6602291 rs77040413 rs67321680 rs78592156 rs7896001 rs7896001 rs7075203 rs10466292 rs12771077 chr10_8389016_A_T rs10159649 rs34034571 rs12264718 rs10752134 rs10752134 rs11255680 rs12778770 rs79969015 rs2646420 rs67028754 rs67733649 rs74124173 rs74124181 rs12359361 rs72775210 rs12258424 rs79675153 rs11816084 rs2646438 rs12359382 rs4749787 chr10_8613894_C_T rs56274560 rs11255769 rs7907956 rs17484150 rs1334555 rs1334552 rs4749804 rs10795668 rs1334548 rs11255810 rs11255811 rs2892612 rs10795670 rs4749811 rs11255849 rs4749815 rs77687038 rs72779031 rs17410296 rs12248916 rs17144736 rs17413266 rs73629159 rs73629159 rs827618 rs827628 rs2797290 rs72782698

genotype difference Col_33_IF Col_12_CB Col_34_CB Col_12_CB Col_08_IF Col_12_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_16_IF Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_38_CB Col_52_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_52_IF Col_38_CB

RI PT


Marker ID

353

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT TOP BOT BOT TOP BOT BOT TOP MINUS TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP BOT BOT TOP BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT

[T/C] [A/G] [T/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/G] [T/C] [A/C] [D/I] [A/C] [A/G] [A/G] [A/T] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [C/G] [T/C] [T/C] [T/C] [T/G] [A/G] [A/C] [T/C] [A/C] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/G] [A/G] [T/C] [A/G] [T/G] [T/C] [A/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [C/G] [C/G] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

9072316 9115256 9121054 9128775 9134388 9136458 9144264 9161386 9200102 9229829 9255870 9265576 9360823 9368879 9377513 9464903 9480119 9551941 9594872 9604930 9604930 9710675 9906516 10136768 10171642 10220592 10247157 10254086 10296251 10347167 10354990 10354990 10375562 10412208 10452026 10467335 10572751 10743956 10804089 10833442 10886244 10982779 11142597 11212852 11226956 11226956 11317357 11338515 11444870 11546376 11687198 11687198 11913348 12044302 12179270 12310737 12334738 12351089 12351089 12351089

SC

M AN U TE D

AC C

EP

rs72782698 rs77542086 rs2025289 chr10_9128775_C_T chr10_9134388_C_T chr10_9136458_A_G rs12777591 chr10_9161386_A_G rs1149938 chr10_9229829_A_G rs1242973 chr10_9265576_INDEL_TC rs1150023 rs1150034 rs2147296 chr10_9464903_A_T corect_rs191562315 chr10_9551941_A_G rs10905580 rs1324882 rs1324882 rs12570090 chr10_9906516_C_G rs7090158 rs991956 chr10_10220592_A_G chr10_10247157_G_T rs7920248 chr10_10296251_A_C chr10_10347167_C_T chr10_10354990_A_C chr10_10354990_A_C rs7905167 rs10795792 chr10_10452026_C_T chr10_10467335_C_T rs1324322 rs1998432 rs4363499 chr10_10833442_A_G rs10752209 rs10905872 rs1291828 rs693950 chr10_11226956_C_T chr10_11226956_C_T rs2243516 chr10_11338515_C_T rs2440100 rs12571504 chr10_11687198_C_G chr10_11687198_C_G rs10795903 chr10_12044302_C_T rs10906083 rs7895410 chr10_12334738_C_T rs7069309 rs7069309 rs7069309

genotype difference Col_59_TS Col_38_CB Col_33_IF Col_16_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_33_CB Col_33_IF Col_08_TS Col_33_IF Col_16_CB Col_33_IF Col_33_IF Col_33_IF Col_59_TS Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_12_TS Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_38_TS Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_16_TS Col_38_TS Col_45_IF

RI PT


Marker ID

354

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT TOP TOP TOP BOT TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT

[A/G] [T/A] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/C] [T/C] [A/G] [T/C] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [A/C] [T/C] [A/C] [T/G] [T/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/C] [A/C] [T/A] [T/A] [A/G] [A/G] [T/C] [T/C] [T/A] [T/A] [T/A] [T/G] [A/G] [T/C] [T/C] [T/C]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

12512388 12798496 12948835 12985117 13252387 13258732 13274396 13610149 13692888 13834678 13861209 13861209 13876469 13888109 13960360 13974185 14216928 14216928 14217262 14229810 14260500 14272308 14354898 14354960 14374370 14428263 14491517 14535113 14618846 14618846 14769911 14863864 14863864 14899808 15012535 15014844 15108508 15498463 15633157 15638751 15686242 15705976 15754920 15895956 15983537 15983537 15988352 15988352 16013463 16196815 16221561 16324673 16399031 16399031 16399031 16458636 16473984 16509209 16534649 16534649

SC

M AN U TE D

AC C

EP

rs2815605 chr10_12798496_A_T rs7919134 rs281848 chr10_13252387_C_T rs10508456 chr10_13274396_A_G rs4750385 chr10_13692888_C_T rs4750416 rs11813878 rs11813878 rs10796135 chr10_13888109_A_G rs61130949 rs2797890 rs11258914 rs11258914 rs11258916 rs1016520 rs11258947 rs11258957 rs1218415 rs11259005 rs7077526 rs655463 rs3889775 rs1887091 rs7904177 rs7904177 rs883814 rs7900873 rs7900873 rs17156001 rs2298112 rs5019235 rs17156272 rs11259677 rs1868996 rs1057969 chr10_15686242_A_G rs1934944 rs11575603 rs12218978 chr10_15983537_G_T chr10_15983537_G_T chr10_15988352_A_T chr10_15988352_A_T rs1341558 chr10_16196815_A_G rs9787585 rs10904706 rs73591612 rs73591612 rs73591612 rs12220516 rs17319738 rs6602121 rs45575743 rs45575743

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_38_TS Col_16_TS Col_16_TS Col_33_IF Col_16_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_33_CB Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_CB Col_34_IF Col_33_IF Col_52_IF Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_12_CB Col_12_TS Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_38_IF Col_33_IF Col_38_TS Col_34_TS Col_33_CB Col_08_IF Col_33_IF Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_08_CB Col_12_CB

RI PT


Marker ID

355

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP BOT TOP BOT TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT TOP TOP TOP TOP TOP BOT TOP PLUS BOT TOP TOP TOP TOP

[T/C] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G] [C/G] [C/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/G] [A/G] [T/C] [A/G] [T/G] [A/G] [T/C] [T/G] [T/G] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [A/C] [A/C] [T/C] [T/C] [A/C] [T/C] [T/C] [A/G] [A/T] [A/G] [A/G] [A/G] [T/C] [A/G] [D/I] [T/C] [A/G] [A/G] [A/G] [A/G]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

16547058 16556710 16558985 16585522 16585522 16734813 16742870 16885658 16885658 16925588 16985317 16985317 16985317 17073083 17282448 17344416 17766711 18279756 18279756 18294905 18373902 18387746 18486612 18486612 18499676 18556091 18656953 18662873 18896035 18987158 19013396 19073973 19272870 19272870 19417181 19428643 19431373 19438006 19438006 19534443 19579806 19579806 19659157 19659157 19668100 19715913 19717815 19753117 19776828 19814454 19814454 19897622 20051083 20076614 20126152 20212571 20262375 20267705 20457686 20538884

SC

M AN U TE D

AC C

EP

rs7904014 rs7909832 rs2298126 rs12412368 rs12412368 corect_rs148514973 rs10904794 rs780829 rs780829 rs2796833 rs7912716 rs7912716 rs7912716 chr10_17073083_C_T rs1980662 rs427851 rs10508544 rs11011929 rs11011929 rs12354582 chr10_18373902_C_T rs4573589 rs1277726 rs1277726 rs1277768 chr10_18556091_G_T rs7901640 rs1325992 rs7081972 rs7092524 rs11015915 rs2495833 rs2813777 rs2813777 chr10_19417181_C_T rs12775323 rs12769501 chr10_19438006_C_T chr10_19438006_C_T rs10437417 rs1609614 rs1609614 chr10_19659157_A_G chr10_19659157_A_G rs10763972 rs7094477 chr10_19717815_C_T rs10764023 rs12776880 chr10_19814454_A_G chr10_19814454_A_G rs4748602 rs11011420 chr10_20076614_A_G chr10_20126152_G_INDEL chr10_20212571_C_T rs75403336 rs716829 rs4748640 rs2065456

genotype difference Col_38_TS Col_33_IF Col_33_IF Col_33_CB Col_38_TS Col_52_IF Col_52_IF Col_16_TS Col_34_CB Col_38_TS Col_38_CB Col_45_IF Col_52_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_38_TS Col_12_CB Col_33_IF Col_59_TS Col_33_CB Col_52_TS Col_33_IF Col_12_CB Col_34_TS Col_12_CB Col_33_IF Col_52_IF Col_16_IF Col_33_IF Col_45_IF Col_59_TS Col_12_CB Col_33_IF Col_33_IF Col_34_IF Col_52_IF Col_16_TS Col_16_IF Col_12_TS Col_16_IF Col_33_IF Col_12_IF Col_12_CB Col_59_TS Col_33_CB Col_52_CB Col_16_TS Col_38_TS Col_38_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_59_TS Col_33_IF Col_52_IF Col_12_CB

RI PT


Marker ID

356

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT BOT TOP BOT BOT BOT TOP BOT BOT TOP BOT TOP TOP BOT BOT MINUS BOT BOT TOP TOP TOP BOT TOP BOT TOP TOP BOT TOP TOP TOP BOT BOT MINUS MINUS BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT TOP TOP

[A/G] [A/G] [A/C] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [A/G] [T/G] [A/G] [A/C] [T/C] [T/C] [I/D] [T/C] [T/C] [A/T] [A/G] [A/G] [T/G] [A/G] [T/C] [A/G] [A/G] [T/A] [C/G] [A/G] [A/G] [T/C] [T/C] [D/I] [D/I] [T/C] [T/G] [T/G] [T/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/T] [T/C] [T/C] [A/G] [A/G]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

20538901 20607074 20761804 20768098 20768098 20778441 20993102 21135165 21145121 21239877 21441040 21455373 21530561 21612637 21652235 21739296 21758337 21786610 21791665 21809412 21811487 21819439 21859585 21876658 21876939 21878407 21879747 21884471 21884471 21915619 21961864 21964855 21970091 21989245 22010260 22030204 22030204 22083340 22137880 22198352 22198352 22208630 22212556 22212556 22218773 22240664 22241988 22241988 22243072 22255097 22262372 22269847 22273531 22277367 22280429 22280664 22284182 22326472 22421254 22421254

SC

M AN U TE D

AC C

EP

rs11011905 rs7920093 rs6482125 rs11012077 rs11012077 rs10764238 rs7095613 chr10_21135165_A_G chr10_21145121_C_T rs1856762 rs1726226 rs78881625 rs12762419 rs7070371 chr10_21652235_A_G chr10_21739296_A_C chr10_21758337_A_G chr10_21786610_C_T chr10_21791666_A_INDEL rs34853448 rs11012730 chr10_21819439_A_T rs61850044 rs11598409 rs6482188 rs12783517 rs9971342 rs11592565 rs11592565 rs1243180 rs16921893 chr10_21964855_A_G rs12762089 rs4748761 rs17744912 rs66493648 rs66493648 chr10_22083340_C_T rs2487512 rs2666766 rs2666766 rs2807978 rs2666782 rs2666782 rs2807983 chr10_22240664_A_G rs2666776 rs2666776 rs2666754 rs2666760 rs2807971 rs10740997 rs7075508 rs4748776 rs6650129 rs6650130 rs71491909 rs11012847 rs34737777 rs34737777

genotype difference Col_12_CB Col_33_IF Col_12_CB Col_52_IF Col_12_CB Col_33_IF Col_52_CB Col_16_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_CB Col_38_CB Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_38_TS Col_52_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_38_TS Col_52_CB Col_33_IF Col_38_CB Col_52_IF Col_33_IF Col_34_CB Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_52_TS Col_33_IF Col_52_IF Col_33_IF Col_52_CB Col_38_CB Col_33_IF Col_52_CB Col_33_IF Col_59_TS Col_08_CB Col_38_CB

RI PT


Marker ID

357

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP BOT TOP TOP BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP BOT BOT TOP TOP BOT BOT TOP BOT PLUS TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT

[A/G] [T/C] [T/C] [T/C] [T/G] [T/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/C] [T/G] [A/C] [T/G] [T/C] [T/C] [T/C] [T/C] [T/G] [T/C] [T/C] [A/G] [T/G] [A/G] [A/G] [A/G] [A/G] [A/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/G] [I/D] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/A] [T/C]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

22505846 22566556 22597174 22597174 22600627 22649751 22663764 22717779 22762250 22762250 23030282 23249933 23250826 23263945 23538351 23708636 23836548 23916761 24070171 24467344 24954402 25028611 25062755 25231515 25324819 25523366 25547118 25547118 25594793 25599875 25616383 25624781 25653453 25674081 25860356 25866387 25936459 25968240 26002103 26056683 26101074 26462790 26625316 26625316 26773887 26773887 26823941 26845199 27138241 27464600 27475579 27594896 27669655 27695285 27719683 27723316 27734691 27747454 27769882 27903259

SC

M AN U TE D

AC C

EP

rs56399781 chr10_22566556_A_G rs17415487 rs17415487 rs17415557 rs1170550 rs75682746 rs12771377 rs11013016 rs11013016 rs7091875 rs1171141 rs35798093 rs3101795 rs17543414 rs7909628 chr10_23836548_C_T rs12261593 chr10_24070171_G_T rs1326641 chr10_24954402_G_T rs1414456 rs10764495 rs10828731 corect_rs118169471 rs16925478 rs9988788 rs9988788 rs558947 rs824147 rs16925561 chr10_25624781_A_G rs10828778 rs1591250 chr10_25860356_G_T rs6482497 rs10508704 chr10_25968240_C_T rs11014704 rs2442843 chr10_26101074_A_G rs3740232 rs7077123 rs7077123 rs702989 rs702989 rs787050 rs12354674 chr10_27138242_A_INDEL rs6482601 rs10764687 rs16927394 rs532473 rs11015744 chr10_27719683_C_T chr10_27723316_A_G rs17681969 chr10_27747454_A_G chr10_27769882_A_T rs10764725

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_12_TS Col_45_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_52_IF Col_12_IF Col_34_CB Col_52_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_34_CB Col_33_IF Col_52_IF Col_52_TS Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_38_CB Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_52_IF Col_52_CB

RI PT


Marker ID

358

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP TOP TOP TOP MINUS MINUS MINUS TOP TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT TOP BOT BOT TOP TOP BOT TOP BOT BOT BOT MINUS TOP TOP TOP BOT TOP BOT BOT TOP BOT TOP BOT BOT TOP BOT TOP BOT BOT TOP BOT BOT

[A/G] [A/C] [A/C] [A/G] [A/G] [A/G] [A/G] [I/D] [I/D] [I/D] [A/G] [A/G] [T/G] [A/G] [A/G] [A/G] [A/G] [C/G] [A/G] [T/C] [T/G] [T/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/G] [T/C] [A/C] [A/C] [T/C] [A/G] [T/C] [T/C] [T/C] [D/I] [A/G] [A/G] [A/G] [T/C] [A/C] [T/G] [T/G] [A/G] [T/C] [A/G] [T/G] [T/C] [A/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/G] [T/C]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

27904052 27930818 27930818 27950367 27964470 28025771 28025771 28167955 28167955 28167955 28245729 28298688 28300818 28337017 28414791 28479942 28479942 28617635 28637660 28786795 28787794 28787794 28968306 29050284 29054941 29102482 29332324 29364393 29453842 29466492 29589009 29609234 29732451 29779199 29818369 29841556 29874104 30005534 30126537 30197908 30223380 30266409 30292597 30454233 30604037 30661341 30703513 30791941 30813618 30828754 30838729 30842791 31158415 31216756 31244251 31592407 31594374 31972382 32095249 32234384

SC

M AN U TE D

AC C

EP

rs1690690 rs1690678 rs1690678 chr10_27950367_C_T rs2253230 rs10508727 rs10508727 chr10_28167956_A_INDEL chr10_28167956_A_INDEL chr10_28167956_A_INDEL chr10_28245729_A_G rs4747610 chr10_28300818_A_C rs2253165 rs7080796 rs3905706 rs3905706 rs1148186 rs7900823 rs11007131 rs2790430 rs2790430 rs675558 rs1762024 rs17759689 chr10_29102482_A_G chr10_29332324_A_G rs573192 rs526182 rs1932273 rs1327566 rs7076385 chr10_29732451_G_T rs3780853 chr10_29818369_C_T rs4749456 chr10_29874104_C_T rs7101204 rs11812527 chr10_30197908_GAG_INDEL chr10_30223380_A_G rs10763770 rs11007851 rs2488034 rs16931368 rs10826795 rs2480277 rs745453 rs4301703 rs17295289 rs11008100 rs7067585 rs10826883 corect_rs150064238 rs12413706 kgp10187964 rs10826933 chr10_31972382_A_G rs1044795 chr10_32234384_A_G

genotype difference Col_12_CB Col_08_CB Col_33_CB Col_52_CB Col_33_IF Col_33_IF Col_52_CB Col_16_IF Col_38_TS Col_12_IF Col_16_IF Col_52_CB Col_12_IF Col_33_CB Col_33_IF Col_34_IF Col_52_IF Col_33_IF Col_52_IF Col_12_CB Col_16_TS Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_16_CB Col_33_IF Col_33_IF Col_12_CB

RI PT


Marker ID

359

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT TOP TOP BOT BOT PLUS BOT BOT TOP TOP BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT TOP BOT BOT TOP TOP BOT BOT PLUS BOT BOT TOP BOT BOT BOT BOT BOT TOP

[T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G] [A/C] [T/C] [A/C] [A/G] [T/G] [T/C] [D/I] [T/C] [T/C] [A/C] [A/G] [T/C] [A/G] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/A] [T/G] [A/G] [T/C] [T/A] [T/C] [T/C] [A/C] [T/C] [T/C] [A/C] [A/G] [T/C] [T/C] [D/I] [T/G] [T/C] [A/G] [T/C] [T/G] [T/G] [T/G] [T/C] [A/G]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

32375795 32524898 32581546 33272133 33379800 33466566 33503179 33524925 33619562 33641460 33867286 33940392 33942006 33993436 34111231 34194532 34216024 34272385 34585946 34717803 35023883 35257823 35344969 35724454 36017592 36058844 36143258 36161981 36161981 36161981 36161981 36217381 36222010 36353457 36353457 36687210 36698410 36814088 36848789 36927691 37010440 37130138 37130138 37213409 37280354 37380969 37441460 37579570 37640233 37815014 37957784 38193129 38344895 38502333 42495328 42917476 43776226 43776226 43923728 44037482

SC

M AN U TE D

AC C

EP

rs211348 rs2769202 exm2249203 chr10_33272133_A_G rs6481830 rs1044268 rs2506155 chr10_33524925_C_T chr10_33619562_C_T rs12356891 rs11009449 chr10_33940392_G_T chr10_33942006_C_T rs3923643 rs7095297 rs4934622 rs2749608 chr10_34272385_G_INDEL chr10_34585946_C_T rs11009784 rs10128258 rs4007287 rs1926554 rs10827503 chr10_36017592_A_G rs7899614 rs1626249 rs487446 rs487446 rs487446 rs487446 rs772071 rs2696310 rs11010396 rs11010396 rs17627563 rs12782047 rs16937057 rs2505583 rs3006968 kgp4070497 rs1192701 rs1192701 rs1192650 rs7358066 rs1767347 chr10_37441460_G_T chr10_37579570_C_T chr10_37640233_C_T rs11011230 rs35326899 rs2738225 rs12256916 rs2489495 rs10908977 rs2489715 chr10_43776226_A_C chr10_43776226_A_C rs2247979 rs2999262

genotype difference Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_52_IF Col_52_CB Col_33_CB Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_52_IF Col_33_IF Col_52_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_CB Col_16_TS Col_33_CB Col_38_TS Col_52_TS Col_33_CB Col_33_IF Col_38_CB Col_52_IF Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_38_IF Col_16_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_CB Col_33_IF Col_08_CB Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_12_CB Col_12_CB Col_52_CB

RI PT


Marker ID

360

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT PLUS BOT BOT TOP BOT TOP BOT BOT TOP BOT TOP TOP TOP BOT TOP BOT PLUS BOT BOT BOT BOT TOP BOT PLUS BOT BOT BOT BOT TOP TOP TOP MINUS BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT

[A/G] [A/C] [T/C] [T/C] [D/I] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/C] [A/G] [A/G] [T/C] [A/G] [T/C] [D/I] [T/C] [T/C] [T/G] [T/C] [A/G] [T/C] [I/D] [T/C] [T/C] [T/A] [T/C] [A/G] [A/G] [A/C] [D/I] [T/G] [T/G] [T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/G] [T/C] [T/G]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

44116906 44391001 44896989 45121484 45179484 45226454 45339090 45499799 45525232 45565290 45596710 45658078 46031747 46138664 47613027 47692128 48490495 48598956 48607519 48607823 49602302 49625881 49682402 49858748 50293456 50308491 50355418 50418242 51056858 51515457 51523213 51524889 51530505 51530757 51537292 51539746 51539762 51539762 51553565 51822906 52089664 52097415 52099505 52269914 52430958 52489148 52809783 52809783 52835732 52841372 52877778 53009688 53025206 53025206 53025206 53026775 53035096 53048551 53069991 53224750

SC

M AN U TE D

AC C

EP

rs10899841 rs1578854 rs1761325 chr10_45121484_C_T chr10_45179484_G_INDEL chr10_45226454_A_G rs4948917 rs11471 chr10_45525232_C_T rs7913550 chr10_45596710_C_T rs3851262 rs10466245 chr10_46138664_A_G rs7894602 chr10_47692128_C_T rs11204235 chr10_48598956_C_T rs10788713 rs9422352 chr10_49602302_G_INDEL chr10_49625881_C_T rs11101340 chr10_49858748_A_C rs12269023 rs7080003 rs2466744 chr10_50418242_INDEL_T kgp2122261 chr10_51515457_A_G chr10_51523213_A_T chr10_51524889_A_G chr10_51530505_A_G chr10_51530757_A_G chr10_51537292_G_T chr10_51539746_C_INDEL chr10_51539762_G_T chr10_51539762_G_T chr10_51553565_A_C rs3964873 chr10_52089664_A_G rs17785945 rs7905772 rs2064760 kgp2083214 rs10994191 rs2666536 rs2666536 rs12355844 rs7097311 rs2879523 rs10996325 rs12240684 rs12240684 rs12240684 rs1561039 rs3844131 rs2339710 chr10_53069991_C_T rs11819049

genotype difference Col_33_IF Col_52_CB Col_38_CB Col_33_IF Col_52_TS Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_52_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_CB Col_52_CB Col_33_IF Col_33_IF Col_33_CB Col_34_CB Col_12_CB Col_12_CB Col_38_CB Col_52_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_CB Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_16_TS Col_52_IF Col_12_CB Col_38_TS Col_33_IF Col_33_IF Col_16_TS Col_52_IF Col_12_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF

RI PT


Marker ID

361

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP BOT TOP BOT TOP TOP TOP BOT TOP BOT TOP BOT TOP TOP BOT

[A/G] [A/G] [T/C] [A/G] [T/G] [T/C] [A/C] [A/G] [A/G] [T/G] [T/G] [T/G] [T/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/C] [A/C] [A/G] [T/G] [A/G] [A/G] [A/G] [T/C] [A/C] [A/G] [A/G] [A/C] [A/C] [T/C] [A/G] [A/C] [T/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/C] [A/C] [T/C] [A/G] [T/G] [A/G] [A/G] [C/G] [T/G] [A/G] [T/C] [A/C] [T/G] [A/G] [A/G] [T/C]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

53234155 53331079 53346871 53407953 53478713 53482734 53534730 53584234 53637163 53691957 53691957 53691957 53691957 53753066 53818156 53932566 54004358 54004847 54007174 54032702 54059094 54080807 54095773 54225761 54263166 54268050 54385382 54427825 54453387 54453387 54525678 54525678 54526206 54542138 54689409 54801847 54807938 54851905 55190325 55190325 55247985 55355543 55355543 55522899 55609769 55613241 55662156 55705326 55798117 55842152 55913771 56002183 56151359 56250419 56271258 56294774 56304066 56329192 56362285 56521762

SC

M AN U TE D

AC C

EP

rs1444400 rs10998237 rs12262193 rs1922137 rs4400745 rs11594325 chr10_53534730_G_T rs1937690 rs10999888 chr10_53691957_G_T chr10_53691957_G_T chr10_53691957_G_T chr10_53691957_G_T rs11000404 rs10824006 rs7902949 chr10_54004358_C_T rs11001343 rs1201585 rs1406473 chr10_54059094_G_T chr10_54080807_C_T rs1528874 rs1441119 rs1730463 chr10_54268050_A_G rs11002799 rs1373004 rs7917895 rs7917895 rs2083771 rs2083771 rs10824792 rs7477069 rs10824839 rs2812338 rs2691125 rs951289 chr10_55190325_A_G chr10_55190325_A_G rs1685295 rs11003694 rs11003694 rs1343011 rs7358217 chr10_55613241_A_C rs11003924 chr10_55705326_C_T rs10825203 rs16937893 rs11004102 corect_rs185669197 rs10763105 rs16906201 rs10825341 chr10_56294774_G_T rs10825350 rs2489897 rs10825366 rs7074659

genotype difference Col_33_IF Col_38_TS Col_52_IF Col_16_CB Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_16_IF Col_38_CB Col_45_TS Col_59_TS Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_52_IF Col_45_IF Col_59_TS Col_12_IF Col_16_IF Col_12_TS Col_33_IF Col_33_IF Col_12_IF Col_38_IF Col_33_IF Col_16_TS Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_12_CB Col_52_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_16_TS Col_38_CB

RI PT


Marker ID

362

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP BOT TOP TOP BOT TOP TOP BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT

[T/C] [T/C] [T/C] [A/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [T/C] [A/G] [A/G] [T/C] [A/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/G] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/G] [T/C] [A/G] [A/C] [T/C] [T/G] [A/C] [A/C] [A/C] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

56525280 56525280 56545395 56619592 56643368 56643368 56754578 56754578 56764321 56799448 56896643 56970216 57000058 57014225 57057172 57188995 57449086 57561392 57571135 57629823 57669027 57800284 57916382 58023584 58164317 58259075 58259075 58340191 58368086 58479428 58481762 58497890 58552182 58622841 58622841 58670856 58773025 58847806 58849853 58849853 58941396 58941396 58986586 58986586 59018855 59042302 59054965 59091105 59285167 59300009 59342621 59353945 59353945 59353945 59358541 59404400 59433399 59443530 59823894 59895551

SC

M AN U TE D

AC C

EP

corect_rs116930343 corect_rs116930343 rs7071691 rs7085479 rs4935566 rs4935566 rs7096888 rs7096888 rs10763165 chr10_56799448_A_G rs7916117 rs10509027 rs17611988 rs10763189 rs2441771 rs11004852 rs12245354 chr10_57561392_A_G rs10763263 chr10_57629823_A_G rs1338803 chr10_57800284_A_C rs10733945 rs2245618 kgp9551423 chr10_58259075_A_G chr10_58259075_A_G rs7474843 rs17661970 rs7099123 rs7911138 rs12219855 rs1914596 rs4935672 rs4935672 rs3000612 rs10733970 rs3104645 rs3105341 rs3105341 rs7080281 rs7080281 rs12766354 rs12766354 rs1679489 rs7084399 rs1717524 rs11005753 chr10_59285167_A_C rs2393283 rs11005865 rs10826091 rs10826091 rs10826091 rs4586071 rs4617511 rs1505908 rs1553571 rs2184033 rs11006060

genotype difference Col_34_CB Col_12_CB Col_33_IF Col_52_CB Col_52_IF Col_59_TS Col_52_IF Col_12_IF Col_12_CB Col_33_IF Col_59_TS Col_12_CB Col_34_TS Col_33_IF Col_16_IF Col_52_IF Col_12_CB Col_52_IF Col_12_CB Col_59_TS Col_12_CB Col_33_IF Col_52_IF Col_52_CB Col_33_IF Col_08_CB Col_33_CB Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_52_IF Col_12_CB Col_16_IF Col_52_IF Col_16_IF Col_52_IF Col_38_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_52_IF Col_16_IF Col_52_CB Col_12_CB Col_16_IF Col_33_IF Col_52_CB Col_12_CB Col_12_CB Col_08_CB

RI PT


Marker ID

363

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP BOT BOT TOP TOP TOP TOP TOP BOT TOP BOT BOT BOT TOP BOT PLUS BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP

[T/C] [T/C] [A/G] [A/C] [A/C] [T/C] [A/G] [A/G] [A/G] [A/C] [A/C] [T/C] [A/T] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [C/G] [A/G] [A/G] [A/G] [T/C] [A/T] [T/C] [T/C] [T/C] [A/G] [T/C] [I/D] [T/C] [T/G] [A/G] [A/G] [T/A] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [T/C] [A/C] [A/C] [T/G] [T/C] [A/G] [A/G] [A/G] [A/G]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

59915056 60047937 60118681 60134096 60155120 60201928 60371606 60396065 60724692 60867813 60867813 60869017 60893064 60913969 60913969 60925428 61007534 61011383 61035570 61102489 61190125 61210179 61388368 61556986 61795908 61856861 61886046 61900782 61954476 62078203 62078203 62119721 62146436 62246634 62246634 62259224 62371079 62412920 62432755 62544600 62600239 62682308 62722133 63154789 63231558 63351167 63371375 63383502 63383502 63483608 63594669 63692886 63699895 63699895 63724773 63730012 63785369 63806809 63829205 63831466

SC

M AN U TE D

AC C

EP

chr10_59915056_C_T chr10_60047937_C_T rs10826172 rs1994174 rs1049432 rs7916849 rs10826205 rs920259 chr10_60724692_C_T chr10_60867813_A_C chr10_60867813_A_C rs11006373 chr10_60893064_A_T chr10_60913969_A_G chr10_60913969_A_G rs9299588 rs1459996 exm826372 rs11819163 rs6481463 rs1450774 rs11006495 rs16913885 rs10761414 rs10761445 rs2393599 chr10_61886046_C_T chr10_61900782_C_G rs4310561 rs1340652 rs1340652 chr10_62119721_A_G chr10_62146436_A_T rs10761508 rs10761508 rs2393638 chr10_62371079_C_T rs12779419 chr10_62432756_INDEL_T chr10_62544600_C_T chr10_62600239_G_T rs7913431 chr10_62722133_C_T rs74369857 chr10_63231558_A_G chr10_63351167_A_G rs10509154 rs10821899 rs10821899 rs16916536 rs12248902 chr10_63692886_A_G rs7073837 rs7073837 rs10821938 rs12249208 chr10_63785369_A_G rs6479782 chr10_63829205_A_G chr10_63831466_A_G

genotype difference Col_33_IF Col_52_IF Col_38_TS Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_52_IF Col_33_IF Col_38_TS Col_38_CB Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_52_IF Col_38_TS Col_12_CB Col_52_IF Col_16_TS Col_33_IF Col_33_CB Col_52_CB Col_12_CB Col_34_IF Col_33_IF Col_52_IF Col_12_TS Col_12_IF Col_33_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_52_TS Col_33_IF Col_12_CB Col_52_CB Col_12_CB Col_12_TS Col_12_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_33_IF

RI PT


Marker ID

364

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP TOP BOT TOP BOT TOP TOP BOT BOT TOP BOT TOP BOT BOT BOT TOP BOT BOT TOP BOT BOT TOP BOT BOT TOP TOP BOT TOP TOP BOT BOT TOP BOT TOP BOT BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP TOP BOT TOP BOT TOP

[T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/C] [A/G] [T/A] [T/C] [A/G] [T/G] [A/G] [T/A] [T/G] [T/G] [A/C] [T/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [C/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/C]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

63844228 63861600 63883113 63921697 63921697 63952639 63961173 63965333 63976415 63976914 63977640 64023166 64032166 64035419 64054654 64060243 64069035 64081223 64088959 64127715 64128913 64213069 64223383 64258343 64260410 64263816 64267265 64272616 64272616 64304454 64360787 64360787 64361513 64361700 64369924 64414265 64441204 64552242 64552242 64557536 64570038 64570038 64591744 64591744 64616940 64627636 64654109 64654109 64656983 64696416 64697550 64730503 64803386 64823212 64920588 64920588 65312556 65373402 65393613 65558251

SC

M AN U TE D

AC C

EP

chr10_63844228_C_T chr10_63861600_C_T rs7915967 chr10_63921697_A_G chr10_63921697_A_G rs1432411 chr10_63961173_C_T chr10_63965333_C_T chr10_63976415_A_C exm827519 chr10_63977640_A_T chr10_64023166_A_G chr10_64032166_C_T rs79657262 chr10_64054654_C_T rs75686556 chr10_64069035_G_T chr10_64081223_G_T chr10_64088959_G_T rs74156180 rs7080900 rs10822008 rs10995170 chr10_64258343_C_T chr10_64260410_C_T chr10_64263816_C_T chr10_64267265_G_T rs16917327 rs16917327 chr10_64304454_C_T chr10_64360787_C_T chr10_64360787_C_T chr10_64361513_A_G chr10_64361700_A_G chr10_64369924_C_T chr10_64414265_C_T chr10_64441204_A_G rs10995307 rs10995307 chr10_64557536_A_G rs10128333 rs10128333 chr10_64591744_C_T chr10_64591744_C_T chr10_64616940_C_T chr10_64627636_C_G rs953027 rs953027 chr10_64656983_A_G chr10_64696416_A_G chr10_64697550_A_G chr10_64730503_C_T chr10_64803386_C_T rs2842276 chr10_64920588_A_G chr10_64920588_A_G chr10_65312556_A_G chr10_65373402_C_T rs1255496 chr10_65558251_A_C

genotype difference Col_08_IF Col_33_IF Col_33_IF Col_08_CB Col_34_IF Col_52_CB Col_12_CB Col_16_TS Col_52_IF Col_52_CB Col_12_CB Col_38_IF Col_33_CB Col_33_IF Col_59_TS Col_08_IF Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_52_CB Col_34_IF Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_52_CB Col_33_IF Col_12_TS Col_33_IF Col_52_CB Col_16_IF Col_33_CB Col_33_IF Col_12_CB Col_52_TS Col_52_CB Col_38_IF Col_16_IF Col_12_CB Col_12_CB Col_16_TS Col_38_TS Col_33_IF Col_33_IF Col_12_CB Col_12_CB

RI PT


Marker ID

365

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP BOT TOP BOT TOP TOP TOP TOP TOP BOT BOT TOP

[A/G] [T/C] [A/G] [A/G] [A/G] [G/C] [T/C] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [A/G] [A/C] [A/C] [T/C] [T/A] [T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/C] [A/C] [T/C] [T/C] [A/G] [T/C] [T/G] [T/C] [A/C] [T/C] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [T/G] [A/G] [T/C] [A/G] [T/G] [A/G] [A/C] [A/G] [A/G] [A/G] [T/G] [T/G] [A/G]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

65622494 65641562 65749079 65963249 66034482 66182239 66364116 66407750 66407750 66413062 66424808 66549181 66641306 66726865 66731039 66731039 66785646 66812772 66880723 66914797 67011069 67011069 67011069 67036162 67055905 67060807 67095248 67253807 67360832 67465948 67522622 67524893 67589168 67606959 67624311 67633950 67644475 67657144 67700170 67787837 67812810 67882202 67935855 67935939 67951369 67954785 67954847 67993507 68004475 68029085 68124407 68225010 68282970 68310220 68393666 68393666 68393666 68412958 68412958 68490976

SC

M AN U TE D

AC C

EP

rs1916434 rs12761811 chr10_65749079_A_G rs6479970 chr10_66034482_A_G chr10_66182239_C_G chr10_66364116_C_T rs6479995 rs6479995 rs7924177 rs4746459 rs16920379 corect_rs190317578 rs7911209 chr10_66731039_G_T chr10_66731039_G_T rs4133085 chr10_66812772_A_T rs4545433 rs12412200 rs9415809 rs9415809 rs9415809 rs12413637 rs1509937 rs10761940 rs10996337 rs7087756 rs72804331 rs10996604 rs10822628 rs10822630 chr10_67589168_A_G rs4402182 rs10996743 rs950054 rs10822671 rs10822675 rs1786909 rs10996838 rs10996862 chr10_67882202_C_T rs11597312 rs11817489 rs1462813 chr10_67954785_C_T rs10822747 rs12776004 rs10997006 rs7923361 chr10_68124407_C_T rs10997149 rs997225 rs10997229 rs4746611 rs4746611 rs4746611 rs6480192 rs6480192 rs10509277

genotype difference Col_52_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_12_IF Col_33_CB Col_38_CB Col_52_IF Col_33_IF Col_33_IF Col_52_CB Col_52_IF Col_12_IF Col_38_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_TS Col_12_CB Col_38_CB Col_33_IF Col_33_IF Col_33_CB Col_52_IF Col_33_IF Col_38_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_52_CB Col_52_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_08_IF Col_38_CB Col_52_IF Col_52_IF Col_12_CB Col_33_IF

RI PT


Marker ID

366

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP PLUS TOP BOT TOP BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT PLUS TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT TOP TOP TOP

[T/C] [A/C] [T/C] [A/G] [A/C] [T/C] [T/C] [T/C] [T/G] [T/G] [A/G] [A/G] [A/G] [D/I] [A/G] [T/C] [A/G] [T/G] [A/G] [A/G] [T/A] [T/G] [T/G] [T/G] [T/C] [A/G] [A/G] [T/C] [T/C] [I/D] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [T/C] [A/G] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

68544532 68579993 68592003 68593916 68594908 68750715 68750715 68769550 69135466 70197519 70208366 70255576 70346740 70641501 70789388 70815810 70864065 71026510 71297724 71383377 71398091 71418213 71441422 71441422 71529191 71791351 71850609 72109482 72315214 72420036 72539103 72559966 72674069 72719407 73010064 73051440 73412737 73424395 73445707 73641091 73740613 73768992 73940491 74185638 74241938 74332011 74354848 74354848 74401810 74584314 74759871 76092691 76705881 76900187 76977117 76977117 77597792 77909391 78016427 78016427

SC

M AN U TE D

AC C

EP

rs12248005 rs10997396 rs10997400 rs10733830 rs7904842 rs10997471 rs10997471 rs10822957 rs16924431 rs7905556 rs7074348 rs10762229 rs2298117 chr10_70641501_C_INDEL chr10_70789388_A_G chr10_70815810_A_G rs12437 chr10_71026510_A_C rs10823403 rs2616104 corect_rs186913471 rs2616076 chr10_71441422_A_C chr10_71441422_A_C rs2252321 rs2130791 rs4746956 rs10762368 rs10823569 chr10_72420037_INDEL_T rs4747100 rs2251370 rs827340 rs10999616 rs7899034 chr10_73051440_A_G rs1868007 rs12356487 rs1227091 rs7068317 rs4148928 rs4148941 rs12257464 rs7079323 chr10_74241938_A_G rs77587251 rs10823936 rs10823936 rs3009569 rs7923659 rs11817398 rs11000999 rs4746248 rs10509355 rs12269517 rs12269517 rs11595613 rs78941607 rs1247479 rs1247479

genotype difference Col_33_IF Col_33_IF Col_12_IF Col_12_CB Col_52_CB Col_33_IF Col_12_IF Col_52_CB Col_33_IF Col_33_IF Col_12_IF Col_16_TS Col_12_CB Col_33_IF Col_12_CB Col_52_CB Col_38_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_08_TS Col_33_CB Col_33_CB Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_33_CB Col_12_CB Col_34_CB Col_12_CB Col_12_CB Col_12_CB Col_33_CB Col_12_CB Col_12_CB Col_52_CB Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_38_CB Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_12_CB

RI PT


Marker ID

367

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP TOP BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP BOT TOP BOT

[A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/C] [A/C] [A/G] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/T] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/C] [T/C] [T/C] [G/C] [A/G] [A/G] [A/G] [T/C] [T/A] [C/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/G] [A/T] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/C] [A/C] [T/C] [A/G] [T/G]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

78032988 78109971 78115104 78147016 78147016 78147016 78206830 78209331 78324887 78418056 78457588 78797205 78892415 78915578 79007602 79182034 79552532 79552532 79552532 79552532 79680434 79711022 80031989 80031989 80378158 80475376 80503744 80505799 80507096 80546881 80546881 80614508 80639655 80639655 80672227 80693725 80695072 80760619 80768033 80797963 80800595 80809177 80810343 80836314 80838651 80867175 80869965 80886726 80917329 80932877 80973120 80973926 81079298 81144214 81152268 81189551 81213070 81236209 81812036 81872073

SC

M AN U TE D

AC C

EP

rs11819487 rs7900522 rs10824409 chr10_78147016_A_G chr10_78147016_A_G chr10_78147016_A_G rs7923619 rs4746395 chr10_78324887_A_G rs11001846 rs4979831 rs1247757 rs2917454 rs11002049 rs560830 rs158421 rs12265081 rs12265081 rs12265081 rs12265081 rs754466 chr10_79711022_A_G chr10_80031989_C_T chr10_80031989_C_T chr10_80378158_A_G rs157983 chr10_80503744_C_T chr10_80505799_C_T chr10_80507096_A_C chr10_80546881_C_T chr10_80546881_C_T c10_pos80284514 chr10_80639655_A_G chr10_80639655_A_G chr10_80672227_A_G rs1439037 chr10_80695072_A_T chr10_80760619_C_G chr10_80768033_A_G rs36153092 rs7093140 chr10_80809177_A_G chr10_80810343_C_T chr10_80836314_C_T chr10_80838651_C_T rs6480919 chr10_80869965_A_T chr10_80886726_A_G chr10_80917329_C_T rs10762852 chr10_80973120_C_T chr10_80973926_A_G rs1749831 chr10_81144214_A_G chr10_81152268_A_G rs7077340 chr10_81213070_A_C rs11003018 rs10887432 rs1078524

genotype difference Col_33_IF Col_33_IF Col_52_CB Col_16_TS Col_33_CB Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_16_TS Col_38_TS Col_52_TS Col_12_CB Col_52_CB Col_12_CB Col_16_TS Col_33_CB Col_38_IF Col_52_CB Col_12_CB Col_52_CB Col_59_TS Col_16_TS Col_12_IF Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_52_CB Col_52_CB Col_52_CB Col_33_CB Col_33_CB Col_52_IF Col_33_IF Col_33_CB Col_52_CB Col_12_CB Col_12_CB Col_52_IF Col_08_TS Col_33_CB Col_12_TS Col_12_CB Col_52_CB Col_33_CB Col_38_IF Col_12_CB Col_34_CB Col_12_CB Col_33_IF Col_16_IF Col_12_CB

RI PT


Marker ID

368

IlmnStrand

SNP

Chr

MapInfo

BOT PLUS BOT TOP BOT BOT TOP BOT BOT TOP TOP BOT BOT PLUS TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP MINUS TOP BOT BOT TOP

[T/C] [I/D] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [I/D] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/G] [T/C] [A/G] [T/G] [T/G] [C/G] [C/G] [T/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [D/I] [A/G] [T/C] [T/C] [A/G]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

81882370 81915055 82012432 82020569 82032995 82191643 82343793 82366612 82366612 82371954 82424161 82547572 82671690 82804626 82918542 82946846 82979440 82979440 83006207 83090548 83261323 83261323 83325813 83326235 83522580 83569687 83589134 83740973 83775626 83792336 83824944 83853792 83853792 83859857 83916424 83933812 83933812 83933812 83974586 83990268 83990268 84254487 84318570 84359347 84389603 84389603 84404819 84404819 84412303 84452076 84798552 84847268 84944836 85043105 85094893 85247096 85273952 85483525 85573752 85592663

SC

M AN U TE D

AC C

EP

rs3851050 chr10_81915056_INDEL_T chr10_82012432_A_G rs10887701 kgp4874365 rs6585994 rs12777577 rs7073839 rs7073839 chr10_82371954_C_T rs7908544 rs11187005 chr10_82671690_C_T chr10_82804627_INDEL_T rs7095884 chr10_82946846_A_G chr10_82979440_A_G chr10_82979440_A_G rs12414453 rs10509433 rs2346520 rs2346520 chr10_83325813_A_C chr10_83326235_C_T rs7905133 rs6584329 rs17712988 chr10_83740973_C_T rs7899474 rs10884063 rs10736175 rs10490935 rs10490935 chr10_83859857_C_T rs1649949 rs932512 rs932512 rs932512 rs10884342 rs10128524 rs10128524 rs10399969 chr10_84318570_A_G rs2019412 rs2348332 rs2348332 corect_rs117980940 corect_rs117980940 rs11195424 rs2249964 rs4244940 rs11197219 rs6585236 rs11197990 rs9888049 chr10_85247094_AAG_INDEL rs7915460 chr10_85483525_C_T rs652142 rs1977895

genotype difference Col_52_CB Col_33_TS Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_16_TS Col_52_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_CB Col_52_TS Col_33_CB Col_34_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_34_IF Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_38_TS Col_52_IF Col_34_CB Col_38_CB Col_52_CB Col_12_IF Col_52_CB Col_16_IF Col_16_TS Col_33_IF Col_52_TS Col_12_CB Col_16_IF Col_52_IF Col_33_IF Col_33_IF Col_34_IF Col_38_TS Col_12_IF Col_33_IF Col_12_CB Col_52_CB Col_52_IF Col_33_IF Col_52_CB Col_33_CB Col_12_CB Col_33_IF Col_16_TS Col_12_CB Col_33_IF Col_38_TS Col_52_IF

RI PT


Marker ID

369

IlmnStrand

SNP

Chr

MapInfo

TOP PLUS BOT BOT TOP TOP BOT BOT TOP BOT BOT TOP BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP BOT TOP TOP BOT BOT TOP TOP BOT MINUS MINUS BOT BOT TOP MINUS BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT

[A/C] [I/D] [T/C] [T/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [C/G] [C/G] [T/G] [T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/A] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [G/C] [A/G] [A/G] [T/G] [I/D] [I/D] [T/C] [T/C] [A/G] [I/D] [T/C] [A/G] [A/G] [A/G] [A/C] [A/G] [T/G] [A/G] [C/G] [T/C]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

85593542 85966087 85972043 86300686 86308588 86420972 86426712 86448460 86547284 86571942 86631081 86649647 86961351 86961351 87057332 87104771 87251652 87409323 87409323 87412940 87430121 87440354 87446192 87564504 87579045 87579045 87587935 87589093 87607497 87611943 87611943 87626360 87761389 87768759 87882916 88081937 88277457 88558223 89385484 89411241 89474978 89542350 89602259 89657150 89692731 89692731 89737101 89800374 90033593 90079118 90133576 90137045 90137045 90137045 90167065 90183038 90214051 90228162 90354423 90412469

SC

M AN U TE D

AC C

EP

rs4933938 chr10_85966087_INDEL_T rs10749482 rs11201093 rs11201096 chr10_86420972_A_G rs17259859 rs6585875 rs17104125 rs10887382 rs11201265 rs12767486 chr10_86961351_A_G chr10_86961351_A_G chr10_87057332_A_G rs7099093 rs1949058 chr10_87588546_C_G chr10_87588546_C_G rs75499335 rs7097285 rs79884077 rs78726066 rs12256239 rs79942423 rs79942423 rs58436000 rs77968554 chr10_87537243_A_T rs1880386 rs1880386 chr10_87626360_A_G rs4300344 chr10_87768759_C_T rs11595656 rs7914854 chr10_88277457_C_T rs4934263 rs1359277 rs7092063 chr10_89474978_C_G kgp11496139 chr10_89602259_A_G rs2299939 chr10_89692731_INDEL_T chr10_89692731_INDEL_T rs17346680 rs12266639 chr10_90033593_A_G chr10_90079119_A_INDEL chr10_90133576_C_T rs6586129 rs6586129 rs6586129 rs792207 rs7918921 rs1342455 rs2488271 rs74777687 chr10_90412469_C_T

genotype difference Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_12_CB Col_12_CB Col_38_TS Col_52_TS Col_33_CB Col_59_TS Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_38_TS Col_33_IF Col_16_TS Col_33_IF Col_52_CB Col_12_IF Col_34_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_34_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_08_IF Col_34_CB Col_52_CB Col_33_IF Col_34_CB Col_38_TS Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF

RI PT


Marker ID

370

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP BOT TOP TOP TOP TOP TOP BOT TOP TOP TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT TOP TOP TOP TOP TOP BOT TOP BOT PLUS PLUS BOT BOT TOP

[G/C] [T/C] [A/C] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/C] [A/C] [T/C] [T/C] [T/G] [T/C] [T/C] [T/C] [T/G] [C/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [T/C] [T/C] [A/C] [A/G] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/G] [D/I] [D/I] [T/C] [T/A] [A/G]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

90419639 90486553 90526931 90545972 90553051 90624386 90627343 90665355 90665355 90757620 90771829 90825718 90851108 90853446 90857198 90893250 90957403 90957403 90986063 90992104 91289276 91323777 91323777 91356672 91374967 91468925 91497605 91587349 91587349 91587349 91587349 91631922 91673756 91740936 91762226 91869383 91930931 91960399 91963463 92039445 92218687 92304910 92433587 92434957 92514739 92652850 92745793 92812164 92823539 92899400 92944658 92972619 93038530 93163929 93657148 93672642 93672642 93790505 93945441 93968609

SC

M AN U TE D

AC C

EP

chr10_90419639_C_G exm840064 chr10_90526931_A_C rs303478 rs303499 rs1214546 chr10_90627343_C_T chr10_90665355_A_G chr10_90665355_A_G rs9658706 rs2234978 rs11202952 rs1961812 rs2245548 rs7094057 rs10887915 rs7091822 rs7091822 chr10_90986063_C_T rs885561 rs7897886 rs6586198 rs6586198 chr10_91356672_A_G rs11185792 rs3758383 rs34999049 rs7895530 rs7895530 rs7895530 rs7895530 rs10785910 rs1111716 rs17129662 rs2419344 rs4933174 rs1329180 chr10_91960399_A_G rs2250149 rs12783212 chr10_92218687_A_G rs7094359 rs2710766 rs1936614 rs11186300 chr10_92652850_A_G rs7080368 rs6583749 rs10785985 rs11186449 chr10_92944658_A_G rs2421482 rs2450445 rs12247672 rs12255176 rs66825303 rs66825303 rs1059515 chr10_93945441_A_T chr10_93968609_C_T

genotype difference Col_52_CB Col_33_IF Col_38_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_45_TS Col_52_CB Col_33_IF Col_38_TS Col_16_IF Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_33_CB Col_12_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_38_CB Col_33_IF Col_16_TS Col_12_CB Col_08_TS Col_33_IF Col_38_TS Col_12_CB Col_52_IF Col_12_CB Col_33_IF Col_33_TS Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_CB Col_52_IF Col_12_CB Col_52_CB Col_52_IF Col_33_IF Col_34_IF Col_38_CB Col_52_IF Col_12_CB Col_16_TS Col_33_CB

RI PT


Marker ID

371

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT TOP TOP BOT BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP TOP BOT TOP BOT BOT BOT TOP TOP TOP BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP

[A/G] [A/G] [T/G] [A/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [T/C] [T/G] [A/G] [T/G] [A/G] [A/C] [A/G] [A/G] [T/C] [T/G] [A/G] [T/C] [A/T] [A/C] [A/C] [A/C] [T/C] [T/C] [A/G] [A/G] [T/G] [A/G] [T/C] [T/C] [G/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/C] [A/C] [A/G] [A/C] [A/C] [A/C] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

93968609 93968609 94012909 94089160 94446041 94595653 94595653 94715431 94859247 94895653 94946123 94948753 94960247 94967076 94988159 94996522 95018932 95019809 95030453 95101329 95159025 95164833 95346761 95548443 95602229 95606207 95653401 95667270 95729204 95786787 95983053 95983053 96044734 96076542 96322448 96446166 96446166 96495885 96521657 96603414 96731198 96733126 96744239 96796861 96818362 96824406 96824883 96876696 96894373 96925446 96941391 96977553 96977553 96980716 96998193 97219175 97234537 97309704 97397227 97496989

SC

M AN U TE D

AC C

EP

chr10_93968609_C_T chr10_93968609_C_T kgp4971104 chr10_94089160_A_C rs2488087 chr10_94595653_A_G chr10_94595653_A_G exm842254 chr10_94859247_C_T rs17466747 rs7919934 rs4144915 rs987483 rs7070947 rs10882188 rs1927465 rs12767937 rs12776235 rs7912796 chr10_95101329_C_T rs701862 rs3850695 rs11187536 rs10882336 rs919003 rs10786144 rs11187723 rs11187729 rs12573786 corect_rs185900502 rs11187820 rs11187820 rs3736901 corect_rs182337388 chr10_96322448_A_G rs7088972 rs7088972 kgp21613472 chr8_117669894_C_T rs11592737 rs9332166 rs78493236 rs9332224 rs1058932 rs11572101 rs11572093 rs3752988 rs10786189 rs7093626 rs12267371 rs597768 rs695217 rs695217 corect_rs181046819 rs12771349 rs7913770 rs11817188 rs11188356 rs2275273 rs4501930

genotype difference Col_38_IF Col_52_CB Col_12_CB Col_33_IF Col_38_TS Col_33_CB Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_16_IF Col_52_IF Col_12_TS Col_12_CB Col_33_IF Col_52_CB Col_12_CB Col_12_CB Col_52_CB Col_52_TS Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_12_CB Col_16_TS Col_33_IF Col_33_IF Col_52_IF Col_12_IF Col_33_IF Col_38_TS Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_33_IF Col_38_CB Col_52_CB Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_16_TS Col_12_CB Col_33_IF

RI PT


Marker ID

372

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP TOP BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT BOT PLUS BOT TOP BOT PLUS TOP TOP TOP TOP

[T/C] [A/G] [T/C] [T/C] [T/G] [A/C] [A/G] [A/G] [A/G] [T/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [A/G] [T/G] [A/G] [T/C] [T/C] [T/G] [T/G] [T/C] [A/G] [T/C] [A/G] [A/C] [T/C] [A/G] [T/C] [A/C] [T/C] [T/C] [T/C] [T/A] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [D/I] [T/G] [A/C] [T/C] [I/D] [A/G] [A/G] [A/G] [A/G]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

97685352 97717072 97814475 98142395 98284894 98305143 98406194 98547290 98651201 98864927 98937908 99015364 99117120 99435730 99554180 99554180 99554180 100046078 100229532 100251388 100251388 100353308 100487637 100558036 100587971 100794359 101193723 101366643 101500472 101542578 102075479 102143048 102269085 102275727 102395440 102445994 102660904 102664649 102896801 102964604 102979913 102996362 103030321 103073654 103101769 103456726 103485809 103608495 103703929 103843830 103923039 104102145 104207799 104368756 104428716 104439717 104636855 104815345 104815345 104815345

SC

M AN U TE D

AC C

EP

rs10882690 rs4917718 rs1414918 chr10_98142395_A_G rs10509711 chr10_98305143_A_C chr10_98406194_C_T chr10_98547290_A_G rs11188964 rs2636776 rs4919079 rs7074678 rs10882905 rs1046249 rs4359141 rs4359141 rs4359141 rs7905091 rs1998756 chr10_100251388_C_T chr10_100251388_C_T rs7923554 rs4508137 rs1097708 rs6584223 rs10786497 rs2494652 rs4919365 rs767844 kgp4895132 rs603424 rs685910 rs3793706 chr10_102275727_C_T chr10_102395440_C_T rs12269237 rs2902407 rs11190747 rs2235128 rs11598564 chr10_102979913_A_T rs11190872 rs7893126 rs11190921 rs12781083 kgp11057982 kgp132018 kgp8469800 rs11191157 rs77361397 rs7068436 chr10_104102145_CG_INDEL rs927821 chr10_104368756_A_C chr10_104428716_C_T chr10_104439718_INDEL_T chr10_104636855_A_G chr10_104815345_A_G chr10_104815345_A_G chr10_104815345_A_G

genotype difference Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_33_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_08_CB Col_38_CB Col_59_TS Col_52_CB Col_12_CB Col_16_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_52_CB Col_52_CB Col_12_CB Col_33_IF Col_52_CB Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_08_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_33_CB Col_33_IF Col_16_TS Col_38_CB Col_52_IF

RI PT


Marker ID

373

IlmnStrand

SNP

Chr

MapInfo

TOP PLUS BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP BOT TOP TOP TOP BOT BOT TOP BOT TOP BOT BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP MINUS BOT TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT TOP BOT TOP TOP BOT TOP TOP

[A/G] [I/D] [T/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/C] [T/C] [T/C] [A/G] [T/G] [A/G] [T/C] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [A/C] [A/G] [A/G] [A/G] [I/D] [T/C] [A/G] [T/C] [T/G] [T/C] [T/C] [A/T] [A/C] [T/C] [T/G] [A/G] [A/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

104815345 104870275 104886533 105065409 105332452 105344451 105585129 105656874 105683494 105708793 105825188 105846552 105927110 106172600 106202531 106202531 106202531 106202531 106265737 106285308 106469961 106556804 106556964 106562226 106702066 106763400 106798145 106950787 107110792 107132700 107176880 107176880 107196304 107328195 107371554 107371554 107371918 107575164 107581845 107865849 107953309 108058716 108125864 108180183 108192651 108260276 108270428 108276151 108339332 108348730 108358509 108439103 108482088 108500404 108624427 108824060 108824060 108840917 108876714 108876714

SC

M AN U TE D

AC C

EP

chr10_104815345_A_G chr10_104870278_INDEL_T chr10_104886533_G_T rs6584547 rs7067666 chr10_105344451_A_G chr10_105585129_A_G rs1570221 rs11814244 rs7073827 chr10_105825188_A_G chr10_105846552_C_T rs670283 rs10883998 rs7087113 rs7087113 rs7087113 rs7087113 rs1028917 rs975145 rs11818524 rs2496029 rs2451462 rs2496026 chr10_106702066_A_G rs17118067 rs11192291 chr10_106950787_C_T rs56128275 rs2999333 chr10_107176880_C_T chr10_107176880_C_T rs1459371 rs7089194 chr10_107371554_G_T chr10_107371554_G_T rs7097382 chr10_107575164_C_T chr10_107581845_C_T chr10_107865850_A_INDEL rs1331149 rs10748915 chr10_108125864_A_G rs11192871 rs7099596 chr10_108260276_A_G chr10_108270428_A_T rs9783183 chr10_108339332_C_T chr10_108348730_G_T chr10_108358509_C_T rs821929 rs7893643 rs10458732 rs11594752 rs1328232 rs1328232 rs77391633 chr10_108876714_C_T chr10_108876714_C_T

genotype difference Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_33_CB Col_16_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_08_TS Col_16_TS Col_38_TS Col_52_IF Col_33_CB Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_16_IF Col_52_CB Col_52_CB Col_33_IF Col_38_IF Col_12_CB Col_52_IF Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_52_TS Col_12_CB Col_12_CB Col_52_IF Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_52_CB Col_33_CB Col_33_IF Col_52_CB Col_08_TS Col_33_IF Col_33_IF Col_16_IF Col_52_CB

RI PT


Marker ID

374

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT TOP BOT TOP TOP TOP TOP BOT TOP BOT BOT BOT TOP TOP TOP TOP TOP BOT TOP BOT TOP TOP TOP PLUS BOT MINUS BOT BOT BOT TOP TOP BOT TOP TOP BOT TOP BOT TOP BOT TOP BOT TOP TOP BOT BOT TOP TOP BOT BOT

[A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/G] [A/C] [T/C] [A/G] [A/G] [A/C] [A/C] [T/C] [A/C] [T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [A/C] [A/C] [T/C] [A/G] [T/G] [A/C] [A/G] [A/G] [D/I] [T/C] [D/I] [T/C] [T/C] [G/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [G/C] [T/C]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

108876714 108893719 108993281 109094097 109215665 109313391 109487370 109487370 109643457 109731584 109870193 109884688 109884711 109931039 110118673 110158327 110173840 110238857 110254106 110262370 110368941 110387632 110478002 110530419 110598065 110776215 110887320 110887320 110931224 110938966 111028887 111064743 111244681 111244681 111260674 112042451 112055807 112194168 112314007 112506898 112556070 112744545 112767049 112986039 113022555 113036693 113049358 113152964 113386615 113476605 113484881 113498882 113753187 113760817 113982162 114008568 114047787 114094931 114214537 114236824

SC

M AN U

TE D

chr10_108876714_C_T rs685316 chr10_108993281_C_T rs4917498 rs10787025 chr10_109313391_C_T chr10_109487370_C_T chr10_109487370_C_T chr10_109643457_C_T rs7915527 rs7089716 rs7076037 chr10_109884711_G_T rs11193934 rs1411023 chr10_110158327_C_T rs78677408 rs7083981 chr10_110254106_C_T chr10_110262370_G_T rs12768159 rs4917530 rs7093143 corect_rs117417201 rs11813768 rs17125562 chr10_110887320_A_C chr10_110887320_A_C rs546640 rs578043 rs830066 rs7918616 chr10_111244681_A_G chr10_111244681_A_G chr10_111260674_ATG_INDEL rs928929 chr10_112055807_AG_INDEL rs10884970 rs7918064 rs61864289 chr10_112556070_C_T chr10_112744545_A_G rs11816033 rs1832112 rs10885117 chr10_113036693_C_T chr10_113049358_A_G rs7905487 rs7897542 rs9633723 rs868258 rs7069965 rs11195781 rs6585132 rs4575188 rs1926563 rs11195874 rs7898941 rs79310275 rs17675767

genotype difference Col_59_TS Col_33_IF Col_33_IF Col_12_CB Col_38_TS Col_33_IF Col_16_IF Col_52_IF Col_12_IF Col_52_CB Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_38_CB Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_52_CB Col_16_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_33_CB Col_12_CB Col_08_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_12_CB Col_12_CB Col_12_CB Col_33_TS Col_12_CB Col_12_CB Col_08_TS Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_52_IF Col_33_IF Col_33_IF

RI PT


Marker ID

375

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP BOT TOP BOT TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT TOP MINUS BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP

[T/C] [T/C] [A/C] [A/T] [T/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [D/I] [T/C] [T/A] [A/G] [T/C] [A/G] [G/C] [T/C] [T/C] [T/C] [T/C] [T/A] [T/A] [A/G] [A/G] [A/G] [A/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [T/C] [T/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/C] [A/C] [A/C] [A/C] [T/C] [A/G] [A/G]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

114238129 114248586 114255515 114257087 114289017 114291608 114298648 114325530 114347161 114384057 114386739 114389727 114398574 114398574 114402652 114407099 114433547 114448861 114480392 114551744 114554932 114581913 114593641 114693133 114722954 114767771 114958685 114958685 114977946 114988023 114988023 115156226 115279811 115670813 115707967 116047921 116566550 116943493 117061793 117135734 117135734 117135734 117324239 117372854 117442572 117442572 117504086 117774171 117833501 117868944 117924062 117944165 117949032 118047298 118087298 118087298 118133552 118159632 118167864 118167864

SC

M AN U TE D

AC C

EP

rs7917282 rs79041805 rs79105741 rs10787450 rs11195986 rs78992494 chr10_114298648_A_G chr10_114325530_A_G rs2028785 rs10787453 rs76124550 chr10_114389727_C_T rs78104143 rs78104143 chr10_114402652_C_T rs11196032 chr10_114433547_C_T rs7099862 chr10_114480392_AC_INDEL rs17130065 rs59162659 rs4083480 chr10_114593641_A_G chr10_114693133_A_G chr10_114722954_C_G rs4132670 chr10_114958685_A_G chr10_114958685_A_G chr10_114977946_C_T chr10_114988023_A_T chr10_114988023_A_T chr10_115156226_C_T rs7100851 chr10_115670813_C_T rs180950 rs11196682 rs808275 chr10_116943493_A_G rs2291669 chr10_117135734_A_G chr10_117135734_A_G chr10_117135734_A_G rs1572400 rs2769378 rs2052067 rs2052067 rs2907543 chr10_117774171_A_C chr10_117833501_A_G chr10_117868944_A_G rs4553287 rs7909875 rs4751581 rs758577 rs10430687 rs10430687 rs7093477 rs1835665 rs11197666 rs11197666

genotype difference Col_12_CB Col_33_CB Col_16_IF Col_34_IF Col_16_IF Col_33_IF Col_08_CB Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_52_CB Col_16_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_38_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_38_IF Col_12_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_52_CB Col_12_CB Col_33_IF Col_38_TS Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_52_CB Col_08_TS Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_08_TS Col_52_IF Col_33_CB Col_12_CB Col_33_IF Col_52_CB

RI PT


Marker ID

376

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP PLUS TOP BOT TOP TOP BOT BOT BOT TOP BOT TOP TOP PLUS TOP BOT TOP TOP TOP TOP TOP PLUS PLUS TOP BOT BOT TOP TOP BOT TOP

[A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/G] [T/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [T/G] [T/G] [T/G] [T/C] [T/C] [T/C] [T/A] [T/A] [A/G] [A/G] [A/C] [I/D] [A/C] [T/C] [A/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [D/I] [A/G] [T/G] [A/G] [A/C] [A/G] [A/G] [A/G] [I/D] [I/D] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

118193020 118255746 118298706 118313265 118360994 118367168 118426363 118470750 118472715 118994479 119183424 119351904 119418104 119460525 119485262 119533345 119694504 119694680 119844531 119965253 119965253 119965253 119965253 120030349 120067450 120070709 120111954 120111954 120147971 120242187 120279177 120321436 120368581 120480688 120690639 120743172 120770637 120770637 120828969 120983149 121031659 121375181 121420922 121563341 121819920 121860349 121920122 122133913 122270209 122303500 122322285 122332109 122332109 122346343 122348969 122378637 122388196 122397531 122410193 122418864

SC

M AN U

TE D

rs10510019 rs10885960 chr10_118298706_C_T chr10_118313265_C_T rs3781564 rs7905887 rs9633727 rs1900508 rs4752003 rs10886051 chr10_119183424_G_T rs181610 rs2184898 rs12218538 rs7099192 rs1925283 rs1419141 rs12412410 rs1591549 chr10_119965253_A_C chr10_119965253_A_C chr10_119965253_A_C chr10_119965253_A_C rs11198342 chr10_120067450_A_G rs3213691 chr10_120111954_A_T chr10_120111954_A_T rs11198381 rs2420477 rs483523 chr10_120321437_A_INDEL rs881902 rs1925943 rs11198678 rs691222 rs7093507 rs7093507 rs7908387 chr10_120983149_A_G rs928670 rs2577335 rs196345 chr10_121563341_CTTT_INDEL rs10886586 rs7923882 rs6585586 rs2420706 rs12770951 rs7910507 rs10886711 chr10_122332110_INDEL_T chr10_122332110_INDEL_T rs3816785 rs1047369 rs61874177 rs10749379 rs11199452 rs10788109 rs7921049

genotype difference Col_33_IF Col_33_IF Col_33_CB Col_33_CB Col_52_CB Col_12_CB Col_12_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_52_CB Col_38_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_TS Col_45_IF Col_12_IF Col_38_TS Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_12_CB Col_12_CB Col_52_CB Col_12_IF Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_52_TS Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_16_TS Col_45_IF Col_12_CB Col_33_CB Col_33_CB Col_33_TS Col_33_IF Col_45_IF Col_33_IF

RI PT


Marker ID

377

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

MINUS BOT TOP TOP TOP TOP MINUS TOP PLUS TOP PLUS BOT BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP PLUS TOP TOP TOP TOP TOP TOP BOT TOP BOT TOP BOT TOP TOP TOP TOP PLUS TOP BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT

[I/D] [T/C] [C/G] [A/G] [A/G] [A/C] [I/D] [C/G] [I/D] [C/G] [D/I] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [G/C] [G/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/G] [T/G] [T/C] [A/G] [I/D] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [I/D] [A/C] [T/C] [A/G] [T/A] [T/C] [T/C] [A/G] [T/C] [T/G] [T/C] [G/C] [A/G] [T/C]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

122460689 122526035 122542649 122545369 122547583 122564016 122573820 122601203 122611527 122618148 122688401 122712110 122739842 122758710 122765551 122785002 122787807 122789263 122789263 122790326 122798755 122799724 122802506 122829306 122830663 122834737 122864285 122864285 122875744 122926366 122933837 122939374 122941364 123009133 123020251 123045984 123076181 123093182 123094861 123096559 123119045 123120036 123135760 123155416 123155416 123155996 123215911 123234980 123236125 123272296 123332415 123355688 123357482 123362575 123369542 123370354 123372431 123375090 123379078 123387029

SC

M AN U

TE D

chr10_122460689_AGTGCCAA_INDEL rs72837733 rs72837753 rs11592065 rs12263900 rs72841036 rs55679441 rs1254167 rs72201695 rs2241846 chr10_122688401_INDEL_TCTTTTTTTTTTTTTTTT rs11199675 rs2251077 rs2099217 rs11199700 rs11199716 rs79839360 rs7091388 rs7091388 rs4751823 chr10_122798755_C_T rs6585687 rs60870104 rs10886847 rs76599176 rs7907003 rs2130790 rs2130790 rs2254068 rs59421178 chr10_122933838_A_INDEL rs7085142 rs6585709 rs4237529 chr10_123020251_A_G rs78375539 rs11199892 rs9420318 rs11199916 rs9421411 rs7070463 rs17601696 rs11199939 rs4751835 rs4751835 rs2420927 chr10_123215911_AAT_INDEL chr10_123234980_A_C rs1649204 rs3135766 rs11200012 rs7899765 rs41258305 rs4412700 chr10_123369542_A_G chr10_123370354_A_C rs1696835 chr10_123375090_C_G rs10886957 rs10788190

genotype difference Col_12_CB Col_52_IF Col_33_IF Col_12_CB Col_12_CB Col_52_CB Col_52_IF Col_52_IF Col_52_CB Col_12_CB Col_12_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_08_IF Col_34_TS Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_08_TS Col_45_IF Col_33_IF Col_38_IF Col_33_IF Col_12_IF Col_52_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_52_TS Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_12_CB Col_33_IF Col_52_CB Col_12_CB Col_52_TS Col_52_CB Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_08_TS Col_12_CB Col_52_CB Col_52_IF

RI PT


Marker ID

378

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP BOT BOT BOT TOP BOT PLUS PLUS TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP BOT TOP BOT TOP BOT TOP BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP PLUS PLUS TOP BOT TOP BOT BOT BOT BOT BOT TOP

[T/C] [T/G] [A/G] [T/C] [T/C] [T/C] [A/G] [G/C] [D/I] [D/I] [A/T] [A/T] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/A] [T/A] [T/A] [T/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [D/I] [D/I] [A/C] [T/C] [A/G] [T/C] [T/C] [T/G] [T/C] [T/C] [A/G]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

123388882 123418236 123422902 123458644 123463056 123481200 123484962 123497177 123508507 123508507 123553170 123553170 123555719 123555719 123561728 123578337 123654652 123726493 123748802 123767120 123767451 123769514 123777413 123801422 124068142 124114356 124143632 124143632 124242817 124520493 124592971 124594153 124692586 125167213 125167213 125185442 125272745 125361269 125390957 125390957 125390957 125545451 125575971 125684849 125703247 125803303 125863117 126078126 126100523 126157446 126157446 126184988 126220957 126236419 126258034 126258711 126277590 126324077 126324077 126336158

SC

M AN U

TE D

chr10_123388882_A_G chr10_123418236_G_T rs7075242 rs11200083 rs1696821 rs2935695 rs12771557 rs1219496 rs60684274 rs60684274 chr10_123553170_A_T chr10_123553170_A_T rs4752598 rs4752598 rs77088106 rs11200176 rs11200231 rs72839626 rs7900585 rs11200319 rs10047287 rs11200324 chr10_123777413_A_G rs2253762 chr10_124068142_A_G rs7904674 rs77506352 rs77506352 rs2300431 rs11595572 rs72839716 rs11248321 rs4980169 rs73370375 rs73370375 rs845102 chr10_125272745_C_T rs2486040 rs1098565 rs1098565 rs1098565 rs1914526 rs55756280 rs9794150 chr10_125703247_C_T rs7085454 rs7078763 rs2674346 rs10794058 chr10_126157446_CAG_INDEL chr10_126157446_CAG_INDEL chr10_126184988_G_T chr10_126220957_C_T chr10_126236419_A_G chr10_126258034_A_G rs10751594 chr10_126277590_G_T chr10_126324077_A_G chr10_126324077_A_G chr10_126336158_A_G

genotype difference Col_12_CB Col_33_CB Col_52_CB Col_16_TS Col_33_IF Col_33_CB Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_52_CB Col_59_TS Col_38_TS Col_52_TS Col_33_IF Col_16_TS Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_34_CB Col_38_CB Col_38_IF Col_52_IF Col_33_IF Col_52_IF Col_12_CB Col_52_CB Col_12_CB Col_33_IF Col_34_TS Col_38_IF Col_33_IF Col_38_IF Col_12_IF Col_33_CB Col_12_CB Col_12_CB Col_52_CB Col_33_IF Col_33_CB Col_38_TS Col_12_CB Col_08_TS Col_52_CB Col_08_TS Col_12_CB Col_33_CB Col_52_CB Col_12_CB Col_12_CB

RI PT


Marker ID

379

IlmnStrand

SNP

Chr

MapInfo

BOT BOT MINUS TOP BOT MINUS MINUS MINUS BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP BOT TOP BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP MINUS TOP TOP TOP BOT BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT TOP

[T/C] [G/C] [I/D] [A/G] [T/C] [I/D] [I/D] [I/D] [T/C] [G/C] [T/C] [T/C] [C/G] [A/G] [A/G] [A/G] [T/C] [A/G] [G/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [I/D] [A/C] [A/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/G] [A/G] [T/G] [T/G] [T/G] [T/C] [T/C] [T/C] [A/G] [A/C] [A/G] [T/C] [T/C] [T/C] [A/G]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

126355129 126454248 126464115 126553571 126562063 126574593 126574593 126574593 126585397 126587146 126596425 126617169 126681219 126683802 126688370 126690383 126713026 126718413 126724796 126733321 126865062 126963368 126971982 127020561 127063700 127065547 127100408 127104136 127104136 127145098 127209126 127221190 127283622 127283622 127385304 127437914 127438726 127540321 127571426 127685091 127699936 127834566 127890499 127982469 128045741 128101132 128144858 128264561 128264561 128266996 128340976 128375459 128449111 128527330 128569545 128597733 128788311 128821486 128827346 128847220

SC

M AN U TE D

AC C

EP

chr10_126355129_A_G chr10_126454248_C_G chr10_126464115_INDEL_T rs2015178 chr10_126562063_C_T chr10_126574603_A_INDEL chr10_126574603_A_INDEL chr10_126574603_A_INDEL chr10_126585397_A_G chr10_126587146_C_G chr10_126596425_C_T chr10_126617169_C_T chr10_126681219_C_G chr10_126683802_A_G chr10_126688370_C_T chr10_126690383_C_T chr10_126713026_A_G chr10_126718413_A_G chr10_126724796_C_G chr10_126733321_C_T c10_pos126855052 rs9422871 chr10_126971982_C_T chr10_127020561_C_T chr10_127063700_A_G chr10_127065547_A_G chr10_127100408_A_C chr10_127104136_A_G chr10_127104136_C_T chr10_127145098_A_G rs10901399 rs755606 chr10_127283622_A_G chr10_127283622_A_G chr10_127385304_A_G corect_rs184597293 chr10_127438727_A_INDEL rs11244672 rs2366053 rs3736477 rs10901513 rs11244841 chr10_127890499_A_G chr10_127982469_A_G rs10901601 chr10_128101132_A_C chr10_128144858_A_G rs2082988 rs2082988 rs11245051 rs11245078 chr10_128375459_C_T rs6597797 rs6597817 rs9422843 rs9422853 rs4500401 rs7087206 rs9418800 rs7092964

genotype difference Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_38_TS Col_08_TS Col_38_TS Col_45_IF Col_08_TS Col_33_CB Col_12_CB Col_34_CB Col_52_CB Col_33_CB Col_52_CB Col_52_CB Col_52_CB Col_52_CB Col_12_IF Col_52_CB Col_33_CB Col_33_IF Col_52_IF Col_33_CB Col_16_TS Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_52_CB Col_52_CB Col_12_CB Col_52_CB Col_52_IF Col_12_CB Col_52_IF Col_12_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_12_CB Col_33_IF Col_52_IF Col_33_IF

RI PT


Marker ID

380

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP TOP BOT TOP BOT TOP BOT TOP BOT TOP TOP BOT TOP BOT TOP TOP TOP BOT TOP BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT TOP BOT BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT TOP TOP BOT

[T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [G/C] [C/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/G] [A/G] [T/C] [A/C] [A/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/G] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/G] [A/G] [T/G] [T/G] [T/C] [A/G] [T/C] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10

128933992 128933992 129075674 129098552 129098552 129123033 129234393 129248015 129270898 129315562 129366558 129394587 129466070 129513620 129667338 129871795 130116053 130226443 130247380 130248300 130276925 130292525 130355794 130403699 130488026 130530687 130860965 130878393 131324278 131474474 131493946 131496490 131496611 131496611 131502448 131529254 131548336 131585151 131585151 131603126 131753010 131802533 131922572 131926121 131926121 131926121 132177970 132319854 132328529 132341125 132366530 132434981 132464840 132515601 132529833 132618471 132655178 132662673 132721599 132755235

SC

M AN U TE D

AC C

EP

rs2483855 rs2483855 rs10741209 chr10_129098552_C_T chr10_129098552_C_T rs2766053 rs7923936 chr10_129248015_C_G chr10_129270898_C_G rs7085844 rs1547321 rs12777985 chr10_129466070_A_G chr10_129513620_A_G rs2182407 rs11016053 chr10_130116053_A_G corect_rs148642037 rs1416711 rs7912500 rs11016267 rs10764780 rs752658 rs11016379 chr10_130488026_C_T rs4750996 rs1377273 rs12412608 rs12266768 rs7087131 rs7073892 rs12771882 chr10_131496611_A_G chr10_131496611_A_G rs1978759 rs7897876 rs11511217 rs2094290 rs2094290 rs7899958 rs10829665 rs7910342 rs942674 rs11017093 rs11017093 rs11017093 chr10_132177970_C_T rs7899888 rs11017313 rs10829769 rs4751239 rs1176471 chr10_132464840_C_T rs1876314 rs1014637 rs4750832 chr10_132655178_C_T rs34076100 rs10829844 rs10765007

genotype difference Col_08_TS Col_52_IF Col_33_IF Col_33_CB Col_38_TS Col_12_CB Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_52_IF Col_12_IF Col_12_CB Col_12_CB Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_12_IF Col_12_CB Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_16_TS Col_33_IF Col_12_CB Col_52_CB Col_52_CB Col_12_CB Col_38_TS Col_52_TS Col_33_IF Col_33_CB Col_33_TS Col_12_CB Col_16_TS Col_33_CB Col_38_TS Col_33_CB Col_45_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_52_CB Col_12_CB Col_38_TS Col_12_CB Col_08_TS Col_33_IF Col_12_CB

RI PT


Marker ID

381

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP BOT PLUS TOP TOP TOP MINUS BOT BOT PLUS PLUS TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP MINUS BOT TOP

[A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/G] [T/G] [T/C] [T/C] [T/G] [A/G] [A/C] [A/G] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/A] [I/D] [A/G] [A/G] [A/G] [D/I] [T/C] [T/C] [I/D] [I/D] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/A] [T/C] [T/C] [A/C] [A/C] [G/C] [T/C] [T/G] [T/G] [T/G] [A/T] [G/C] [T/C] [T/C] [T/C] [G/C] [G/C] [A/G] [A/G] [A/G] [I/D] [T/A] [A/G]

10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 10 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11

132903839 132927646 133023235 133025748 133099271 133132701 133162862 133162862 133212704 133256404 133355589 133442465 133461663 133561666 133590090 134404646 134537273 134682058 134750538 134968464 135339845 135352509 0 264391 723429 772490 1414466 1422220 1474386 1698359 1698360 1732010 1744093 1812367 1857270 2024544 2044067 2050299 2077866 2161955 2163110 2200329 2206387 2233951 2262639 2299035 2299035 2314262 2315580 2382321 2432964 2620545 2632430 2632430 2633152 2637988 2663891 2699252 2717051 2717828

SC

M AN U TE D

AC C

EP

rs6482850 rs12250538 rs12416175 rs10765057 rs6482875 rs11017887 rs7098312 rs7098312 chr10_133212704_A_G rs3123154 rs7071307 chr10_133442465_C_T rs10782374 rs9419651 rs11156470 chr10_134404646_C_T chr10_134537273_A_G rs7914850 exm867095 rs7923021 rs2031920 kgp5910402 chr11_39999937_AG_INDEL rs10794305 chr11_723429_C_T rs12224894 rs34526461 rs74046935 rs11604075 chr11_1698359_GT_INDEL rs35268329 rs6578748 rs10839545 rs10839670 rs907609 rs4930103 rs72849239 rs7928968 rs74327570 rs12807478 rs4244808 rs11564710 rs11564707 rs11043140 rs6578250 rs1011476 rs1011476 rs2651834 rs2521265 rs7106800 rs2074234 rs2188195 rs11023461 rs11023461 rs10766212 rs10766217 rs756852 rs33942968 rs11023831 rs2283193

genotype difference Col_52_IF Col_33_IF Col_08_TS Col_33_CB Col_34_CB Col_12_CB Col_16_IF Col_52_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_34_IF Col_33_CB Col_12_CB Col_52_CB Col_12_CB Col_45_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_52_CB Col_52_IF Col_16_TS Col_12_CB Col_52_CB Col_52_CB Col_08_TS Col_08_TS Col_52_CB Col_33_CB Col_34_CB Col_33_IF Col_12_CB Col_33_IF Col_38_IF Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_34_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF

RI PT


Marker ID

382

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP TOP BOT TOP TOP BOT TOP TOP TOP BOT TOP BOT BOT BOT TOP BOT TOP TOP TOP MINUS TOP TOP BOT TOP BOT TOP BOT TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT MINUS TOP PLUS BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT TOP

[A/G] [A/G] [A/G] [A/C] [A/G] [T/C] [A/G] [A/G] [T/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/G] [T/G] [T/G] [C/G] [T/C] [A/C] [A/C] [A/G] [I/D] [A/C] [A/G] [T/G] [A/G] [T/A] [A/G] [T/G] [A/G] [A/G] [T/G] [T/C] [A/C] [A/C] [T/C] [T/C] [T/G] [T/C] [D/I] [A/C] [D/I] [T/C] [A/C] [A/G] [A/G] [A/G] [A/T] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/A] [A/G] [T/C] [T/C] [A/C]

11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11

2750703 2803929 2803929 3041525 3054873 3266133 3364517 3364517 3371853 3393344 3393344 3393344 3401374 3643778 3747650 3747650 3792657 4121715 4148284 4150379 4150379 4565814 4594230 4737174 4748566 4790268 4811083 4958131 5016269 5034819 5078999 5096651 5116109 5152214 5190098 5190098 5262991 5343533 5430603 5442154 5446227 5496811 5540891 5575253 5603385 5633747 5667538 5716331 5773051 6038491 6041247 6051317 6084816 6107855 6120908 6149108 6214230 6226115 6336114 6460026

SC

M AN U TE D

AC C

EP

rs170786 chr11_2803929_C_T chr11_2803929_C_T exm879287 rs4758510 rs10766825 rs7109838 rs7109838 rs764477 chr11_3393344_C_T chr11_3393344_C_T chr11_3393344_C_T rs7116856 rs879114 chr11_3747650_A_C chr11_3747650_A_C rs7931756 rs72844510 exm880490 exm880501 exm880501 rs6578499 chr11_4594230_ATTT_INDEL chr11_4737174_G_T rs4329682 rs1030726 rs12224171 rs10836974 rs11035046 chr11_5034819_G_T rs9804487 chr11_5096651_A_G rs12280713 rs4297454 chr11_5190098_G_T chr11_5190098_G_T chr11_5262991_A_G rs4910749 rs975115 rs11037405 chr11_5446227_AG_INDEL rs2647543 chr11_5540891_C_INDEL rs431409 rs72880058 rs7104648 rs16933888 rs17397821 rs1498557 chr11_6038491_C_T rs4351799 rs4758371 chr11_6084816_A_G rs11040663 rs1903778 chr11_6149108_A_T rs10839530 rs11040803 rs11040858 rs10500671

genotype difference Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_16_CB Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_38_TS Col_52_TS Col_12_TS Col_08_TS Col_52_TS Col_38_CB Col_52_IF Col_33_IF Col_16_TS Col_33_IF Col_16_TS Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_12_CB Col_52_IF Col_33_IF Col_52_CB Col_33_IF Col_34_CB Col_52_IF Col_38_IF Col_33_IF Col_33_CB Col_33_IF Col_33_CB Col_33_IF Col_33_CB Col_33_IF Col_52_IF Col_33_CB Col_33_IF Col_52_CB Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_38_CB Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

383

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT TOP BOT TOP TOP BOT TOP TOP PLUS BOT BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT TOP BOT BOT BOT TOP TOP TOP BOT TOP BOT TOP BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT

[A/C] [T/C] [T/C] [T/C] [A/G] [G/C] [A/G] [A/G] [T/C] [A/G] [A/G] [I/D] [T/C] [T/C] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [A/C] [T/C] [T/G] [A/C] [T/C] [T/C] [T/C] [A/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [T/G] [T/G] [T/G] [T/C] [A/G] [A/C] [T/C] [T/C] [T/C] [T/G] [T/G] [T/G] [A/G] [A/G] [A/G] [A/G] [A/T] [A/G] [A/G] [T/A] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C]

11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11

6683542 6717814 6744362 6837771 6883151 6917006 6964018 6993922 7020629 7212657 7212657 7290843 7302764 7350851 7385448 7388171 7403546 7415972 7441272 7512734 7516571 7615485 7620176 7670752 7727886 7738730 7765370 7891959 7899912 7926432 7962235 8022014 8024468 8251438 8324546 8349118 8486310 8525293 8813956 8826700 8893193 9082038 9568463 9872813 9872813 9872813 9890714 9912052 9930529 9930529 10000121 10115298 10375899 10577745 10849558 10909710 11037124 11053680 11123234 11123234

SC

M AN U TE D

AC C

EP

chr11_6683542_G_T rs10839592 rs7942521 chr11_6837771_C_T corect_rs149317017 rs2741753 chr11_6964018_C_T rs2638110 rs1388526 rs1395908 rs1395908 chr11_7290844_A_INDEL chr11_7302764_A_G rs1487853 rs6578855 rs7107520 rs11041339 rs2346828 rs11041371 chr11_7512734_C_T chr11_7516571_A_C rs11041469 rs7925061 rs11607941 rs7927138 rs4432008 chr11_7765370_A_G rs10839898 rs16933303 rs10769848 chr11_7962235_A_G chr11_8022014_C_T chr11_8024468_A_G rs11041820 rs7109141 rs12575952 rs1446464 rs7931834 rs12421789 rs11042078 rs2653565 chr11_9082038_C_T rs10840257 chr11_9872813_A_C chr11_9872813_A_C chr11_9872813_A_C rs12577195 rs10743120 rs12796169 rs12796169 chr11_10000121_A_T rs11042621 rs2957705 chr11_10577745_A_T rs4910198 rs2140214 rs2129286 rs2129283 rs35148943 rs35148943

genotype difference Col_38_TS Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_12_CB Col_33_IF Col_12_IF Col_33_IF Col_38_CB Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_CB Col_52_CB Col_33_CB Col_52_IF Col_33_IF Col_33_IF Col_08_TS Col_16_IF Col_08_TS Col_08_TS Col_52_IF Col_16_TS Col_38_CB Col_45_IF Col_08_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_52_IF Col_33_IF Col_16_TS Col_12_CB Col_33_IF Col_33_IF Col_12_CB

RI PT


Marker ID

384

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP BOT TOP TOP BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT TOP BOT BOT TOP BOT BOT TOP BOT TOP BOT BOT BOT TOP BOT TOP TOP TOP BOT TOP TOP BOT PLUS BOT BOT TOP TOP BOT PLUS BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT PLUS PLUS BOT

[T/C] [A/G] [A/G] [A/G] [T/G] [A/C] [A/G] [T/C] [A/C] [A/G] [A/T] [T/C] [T/C] [A/G] [T/G] [T/G] [T/G] [A/G] [T/G] [T/C] [A/G] [T/G] [T/G] [A/G] [T/C] [A/C] [T/G] [T/C] [T/G] [A/G] [T/C] [A/C] [A/C] [A/C] [T/C] [A/C] [A/C] [T/C] [D/I] [T/C] [T/C] [A/G] [A/C] [T/C] [I/D] [G/C] [G/C] [T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [D/I] [D/I] [T/G]

11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11

11123656 11128017 11131809 11161248 11187725 11189116 11261567 11593573 11620719 11665804 11712718 11750180 11862213 12016945 12024576 12105342 12105342 12293261 12327253 12434458 12434945 12451820 12451820 12528489 12581045 12626621 12641391 12783911 12915616 12950553 12956268 13020458 13114904 13118076 13139206 13203252 13209260 13276329 13730899 13945949 13954368 14075947 14093889 14239961 14285047 14498221 14498221 14504463 14540942 14660826 14781621 14918216 14981270 15185729 15185729 15209391 15289832 15532542 15532542 15631727

SC

M AN U TE D

AC C

EP

rs7116607 rs924795 chr11_11131809_C_T rs7110986 rs34157845 rs10840597 rs4076941 chr11_11593573_C_T chr11_11620719_A_C rs11021969 chr11_11712718_A_T rs767165 rs11022066 rs12421658 chr11_12024576_G_T rs12577400 rs12577400 rs7123104 rs977494 rs11022344 rs11022346 rs6485735 rs6485735 rs4277094 rs7120273 rs7121444 rs7128566 rs4415740 chr11_12915616_G_T rs16911799 chr11_12956268_A_G rs11022593 rs10741606 rs4757100 chr11_13139206_A_G chr11_13203252_G_T rs4757122 rs10832008 chr11_13730899_C_INDEL chr11_13945949_A_G chr11_13954368_A_G rs2618512 rs12365614 rs10766175 chr11_14285048_INDEL_T chr11_14498221_C_G chr11_14498221_C_G rs7121538 kgp2784612 rs10766188 rs1451678 rs1562902 chr11_14981270_C_T rs1612783 rs1612783 rs1792574 rs10766226 chr11_15532542_G_INDEL chr11_15532542_G_INDEL chr11_15631727_A_C

genotype difference Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_59_TS Col_16_TS Col_38_TS Col_52_IF Col_12_CB Col_33_CB Col_52_CB Col_52_IF Col_12_IF Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_08_TS Col_33_CB Col_33_IF Col_33_IF Col_52_TS Col_38_IF Col_52_CB Col_33_IF Col_16_IF Col_33_IF Col_08_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_52_CB Col_08_CB Col_38_TS Col_52_CB Col_52_IF Col_38_CB Col_12_IF Col_33_IF Col_33_IF Col_16_TS Col_38_TS Col_12_CB

RI PT


Marker ID

385

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT TOP TOP TOP TOP BOT TOP TOP BOT TOP BOT TOP TOP BOT TOP BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT TOP TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT TOP

[T/A] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/C] [T/C] [C/G] [T/C] [A/G] [A/C] [T/G] [A/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [A/G] [A/C] [T/G] [A/C] [A/C] [A/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/C] [T/G] [T/G] [T/G] [A/G] [A/G] [T/A] [A/G] [A/G] [A/G] [A/G] [A/G] [T/A] [T/A] [T/C] [A/C] [A/G] [T/C] [T/G] [A/G] [A/G] [T/C] [A/G]

11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11

15875130 16141354 16151411 16259405 16410499 16410499 16418711 16431197 16510682 16592120 16980262 16999990 17337230 17419279 17508552 18234712 18271929 18488219 18629304 18732846 18903604 18977278 18986882 19072151 19198018 19208319 19281653 19313016 19767503 19874227 19947749 19977718 19999331 20052212 20253599 20291315 20299460 20335391 20450245 20450245 20450245 20563041 20643784 20894995 21020560 21021337 21053214 21058731 21062689 21075486 21075486 21079942 21129269 21148724 21175077 21192532 21245018 21357846 21358546 21368523

SC

M AN U TE D

AC C

EP

rs12801542 rs10500825 rs1455106 rs1949481 rs72871339 rs72871339 rs1393926 chr11_16431197_C_T rs7109165 rs11023990 chr11_16980262_C_T chr11_16999990_C_G rs10466382 rs1799859 chr11_17508552_G_T rs3100768 rs7933280 chr11_18488219_A_G rs7934205 rs4537730 rs7946938 rs1812731 rs4757742 rs7109068 chr11_19198018_A_G chr11_19208319_A_G rs4237740 rs1648222 rs12223569 rs2625316 rs7118085 rs729999 rs7122443 chr11_20052212_C_T rs1353649 rs988659 rs7118237 rs10430897 chr11_20450245_A_C chr11_20450245_A_C chr11_20450245_A_C rs7924410 rs7942096 rs1366995 rs1400366 rs4644637 rs4922728 rs4569005 chr11_21062689_A_G chr11_21075486_A_T chr11_21075486_A_T rs7120935 rs2040315 rs12282210 chr11_21175077_A_G rs10833472 rs1627773 rs10437585 rs4597066 rs16907971

genotype difference Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_33_CB Col_52_CB Col_52_IF Col_12_IF Col_16_IF Col_52_IF Col_33_IF Col_52_CB Col_52_CB Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_16_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_33_IF Col_38_TS Col_52_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_34_TS Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

386

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP BOT TOP BOT BOT TOP TOP PLUS TOP TOP TOP TOP BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT TOP TOP TOP TOP BOT TOP BOT TOP TOP TOP TOP TOP

[A/C] [T/C] [A/G] [T/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/G] [A/C] [T/C] [T/C] [A/C] [A/G] [D/I] [C/G] [A/G] [A/G] [A/G] [T/C] [T/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [G/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/A] [T/C] [T/C] [A/G] [T/C] [A/C] [A/G] [T/C] [T/C] [A/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G]

11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11

21479238 21516600 21560094 21652727 21891843 22001998 22084971 22119239 22141171 22141171 22183281 22249612 22348844 22400124 22559731 22608265 22608265 22700825 22793221 22810285 22823040 22828470 22921558 22921558 22926405 23000971 23118929 23171286 23214880 23273706 23339785 23469925 23477222 23479657 23501289 23547384 23554449 23571242 23590788 23670280 23691345 23736582 23861993 23926630 23932780 23942354 24001975 24001975 24003607 24060691 24060691 24060691 24087714 24480040 24539314 24545353 24545353 24553333 24577558 24613361

SC

M AN U

TE D

rs10766816 rs10766824 rs7927068 rs990339 rs2403686 rs324204 rs12419963 rs4424668 rs10833705 rs10833705 rs11026441 rs10766928 rs10833743 rs1979072 rs10833776 rs16909724 rs16909724 rs443661 rs11026784 chr11_22810285_AGTC_INDEL chr11_22823040_C_G rs7129430 rs16910326 rs16910326 rs10488700 rs2403793 rs2433567 chr11_23171286_C_T rs10833965 chr11_23273706_C_T rs1482739 rs75866193 chr11_23477222_C_T chr11_23479657_C_G chr11_23501289_A_G rs16911459 rs35084563 rs9943612 rs1005743 chr11_23670280_A_T chr11_23691345_A_G rs4519088 rs2178219 rs10834232 rs7930839 chr11_23942354_A_G rs10834253 rs10834253 chr11_24003607_G_T rs7949813 rs7949813 rs7949813 rs12294573 rs10834345 rs1318297 rs7102196 rs7102196 rs1396850 rs10834385 chr11_24613361_A_G

genotype difference Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_38_IF Col_33_IF Col_16_IF Col_33_IF Col_16_IF Col_38_CB Col_33_IF Col_34_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_52_IF Col_16_TS Col_38_IF Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_33_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_38_CB Col_45_IF Col_12_IF Col_12_CB Col_33_IF Col_16_IF Col_08_CB Col_52_IF Col_52_CB Col_33_IF Col_33_IF

RI PT


Marker ID

387

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT TOP TOP BOT TOP BOT TOP BOT BOT TOP TOP BOT TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT PLUS PLUS TOP TOP BOT TOP TOP BOT BOT TOP TOP TOP TOP PLUS BOT TOP TOP BOT TOP TOP BOT TOP TOP TOP BOT BOT TOP BOT TOP TOP BOT TOP TOP TOP TOP

[T/C] [A/G] [T/C] [A/G] [A/G] [T/A] [A/G] [T/C] [A/G] [T/G] [T/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/G] [D/I] [D/I] [A/G] [A/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/C] [A/G] [A/G] [A/G] [D/I] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/G] [T/G] [A/G] [T/C] [A/C] [A/G] [T/G] [A/G] [A/G] [A/C] [A/G]

11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11

24630127 24642587 24683854 24700655 24703388 24712061 24738766 24740434 24741659 24779345 24934662 25072952 25117751 25172009 25202338 25244001 25270335 25332979 25332979 25340131 25362364 25391785 25498699 25581159 25676599 25677073 25677073 25724484 25753192 25813830 25889500 25889500 25894610 25894610 25973247 26041177 26057035 26276143 26336649 26353121 26499535 26499535 26530798 26611665 26642580 26646180 26676301 26713331 26713331 26727083 26727083 26766933 27018626 27085406 27165818 27212251 27332291 27332291 27350042 27362917

SC

M AN U

TE D

rs3992982 rs906882 rs4531473 rs10834426 rs10767237 rs4131780 rs11028122 rs2716458 rs12798374 rs2631413 rs7478820 chr11_25072952_A_G rs12805702 rs11028464 rs11028494 rs17307708 rs2042680 rs1425822 rs1425822 rs7129251 rs17307813 chr11_25391785_C_T rs11028708 rs7120522 chr11_25676599_A_C chr11_25677073_INDEL_TTTG chr11_25677073_INDEL_TTTG rs2172582 rs12420001 rs10834804 rs10767474 rs10767474 rs7927233 rs7927233 rs12275759 rs4104019 rs7930512 rs12224061 chr11_26336650_G_INDEL rs7117246 rs11029577 rs11029577 rs17243350 rs11606418 rs294006 chr11_26646180_A_G chr11_26676301_C_T chr11_26713331_C_T chr11_26713331_C_T rs4923379 rs4923379 chr11_26766933_C_T chr11_27018626_A_G rs2351069 rs56397105 rs4923427 chr11_27332291_A_G chr11_27332291_A_G chr11_27350042_A_C rs12282639

genotype difference Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_16_IF Col_52_CB Col_33_IF Col_33_IF Col_52_TS Col_38_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_52_CB Col_33_IF Col_52_TS Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_08_IF Col_33_CB Col_33_IF Col_52_CB Col_12_CB Col_34_IF Col_38_CB Col_16_IF Col_38_CB Col_33_IF Col_33_CB Col_33_IF Col_12_TS Col_38_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_52_CB Col_16_IF Col_59_TS Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_16_TS Col_52_IF Col_38_TS Col_33_IF

RI PT


Marker ID

388

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP BOT TOP BOT TOP TOP BOT BOT TOP BOT BOT BOT TOP BOT TOP TOP TOP TOP BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT TOP

[T/C] [T/C] [T/C] [A/C] [T/C] [A/G] [T/C] [A/T] [A/T] [G/C] [G/C] [A/C] [T/A] [T/C] [T/C] [A/G] [T/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/G] [T/C] [A/G] [A/G] [A/G] [T/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [T/C] [A/G] [A/C] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G]

11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11

27415403 27517670 27517670 27695910 27750171 27794045 28031221 28111470 28111470 28166496 28166496 28388995 28578492 28847155 28847155 29037522 29115116 29138255 29138255 29218308 29258947 29455138 29577120 29577120 29584248 29680576 29872433 29872433 29897759 29899420 30255185 30323777 30361013 30361013 30457877 30457877 30457877 30491752 30491752 31066467 31486211 31608475 31671677 31724195 31724195 31802357 31936515 32134761 32241500 32481459 32576698 32587295 32600674 32600674 32795973 32996805 32996805 33157834 33302060 33314798

SC

M AN U TE D

AC C

EP

rs11029992 rs6484306 rs6484306 rs10835210 chr11_27750171_C_T rs12419289 rs74441988 chr11_28111470_A_T chr11_28111470_A_T rs17244345 rs17244345 corect_rs149567116 chr11_28578492_A_T rs2945090 rs2945090 rs768082 rs2055015 chr11_29138255_C_T chr11_29138255_C_T chr11_29218308_A_G rs10835498 rs329545 rs1144576 rs1144576 chr11_29584248_A_C rs324299 rs11030846 rs11030846 rs1746942 rs7944421 rs6169 chr11_30323777_C_T chr11_30361013_A_G chr11_30361013_A_G rs808183 rs808183 rs808183 rs576063 rs576063 rs601305 rs11031384 chr11_31608475_C_T chr11_31671677_C_T rs6484529 rs6484529 rs2177482 rs17720050 rs689176 chr11_32241500_A_G rs7105159 rs1872706 rs201834 rs11031883 rs11031883 rs7933005 chr11_32996805_C_T chr11_32996805_C_T rs429512 rs1005934 rs10734415

genotype difference Col_33_IF Col_16_TS Col_52_IF Col_12_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_34_IF Col_16_CB Col_33_IF Col_33_CB Col_12_CB Col_52_IF Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_CB Col_33_IF Col_33_IF Col_38_CB Col_12_CB Col_12_CB Col_12_CB Col_38_IF Col_52_IF Col_52_IF Col_52_IF Col_52_IF Col_33_IF Col_16_IF Col_52_IF Col_33_CB Col_38_TS Col_12_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_38_IF Col_16_TS Col_38_TS Col_33_IF Col_34_TS Col_38_CB Col_38_IF Col_33_IF Col_08_TS

RI PT


Marker ID

389

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT BOT MINUS BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP BOT TOP MINUS MINUS TOP BOT TOP TOP

[C/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/G] [A/C] [A/G] [A/G] [A/G] [T/C] [G/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/G] [T/G] [T/G] [T/G] [T/C] [T/C] [T/G] [T/C] [A/G] [T/G] [T/C] [A/C] [A/G] [A/G] [T/C] [T/G] [D/I] [T/C] [T/G] [A/G] [T/C] [T/C] [T/C] [T/G] [A/G] [T/C] [A/C] [T/C] [A/C] [D/I] [D/I] [A/G] [T/C] [A/G] [A/G]

11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11

33367465 33378209 33378209 33435125 33743019 33777334 33841739 33932848 33932848 33949342 34725028 34766158 34776331 34776331 34968523 34987357 34999682 35043231 35068016 35093070 35155001 35260935 35408126 35522638 35865787 36068766 36068766 36068766 36353471 36388162 36459378 36825618 36876063 37044901 37205935 37217499 37361820 37394789 37394789 37477609 37560570 37571590 37631526 37642591 37654158 37670386 37688849 37738432 37857067 37871558 37883072 37950922 38012621 38073809 38203203 38203203 38221274 38285501 38288593 38326630

SC

M AN U TE D

AC C

EP

chr11_33367465_C_G chr11_33378209_A_G chr11_33378209_A_G rs12282223 rs831630 chr11_33777334_C_T rs7946109 chr11_33932848_C_T chr11_33932848_C_T rs7103973 rs1901830 chr11_34766158_G_T rs7924717 rs7924717 rs614668 rs511776 exm900222 rs497476 chr11_35068016_A_G rs2785197 chr11_35155001_A_G chr11_35260935_A_G chr11_35408126_C_T rs7946272 chr11_35865787_A_G chr11_36068766_G_T chr11_36068766_G_T rs2173554 rs12419146 chr11_36388162_C_T chr11_36459378_C_T rs7117886 chr11_36876063_A_G rs12788604 rs10768256 rs7130755 rs10836728 chr11_37394789_A_G chr11_37394789_A_G rs12418089 rs10768268 chr11_37571590_C_INDEL rs4528301 chr11_37642591_G_T rs7938719 rs11034323 rs10501184 chr11_37738432_C_T chr11_37857067_G_T chr11_37871558_A_G rs10836878 chr11_37950922_G_T chr11_38012621_A_G rs11034572 chr11_38203203_GC_INDEL chr11_38203203_GC_INDEL kgp10699081 rs10836945 rs11034653 rs6484992

genotype difference Col_33_IF Col_16_CB Col_52_IF Col_16_TS Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_52_CB Col_33_IF Col_16_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_52_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_TS Col_16_TS Col_52_IF Col_33_CB Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_52_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_08_IF Col_33_IF Col_45_IF Col_38_CB Col_45_TS Col_33_IF

RI PT


Marker ID

390

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT TOP TOP BOT BOT TOP BOT TOP BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT TOP BOT BOT TOP TOP BOT

[T/C] [T/G] [T/C] [T/C] [A/G] [A/C] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [A/C] [T/C] [T/G] [A/G] [A/G] [T/G] [T/C] [A/G] [T/G] [A/C] [T/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/A] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [G/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C]

11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11

38398957 38571985 38574857 38664557 38694810 38727909 39184056 39212217 39280571 39286042 39310422 39310422 39393388 39456990 39617194 39647400 39773864 39817665 39981948 40082660 40111384 40118333 40498570 40547616 40547616 40547616 40551744 40591800 40790624 40849386 40905050 40905050 40915339 40915339 40947213 41069095 41164213 41226338 41247031 41271950 41294454 41379763 41470267 41529318 41541964 41867654 42015173 42025245 42110818 42110818 42138034 42514486 42654042 42723018 42879811 42913629 42913629 42942712 42969116 43095376

SC

M AN U TE D

AC C

EP

rs11822419 rs931164 rs7950759 rs1585962 rs4756458 rs11034926 rs10742464 rs12420552 rs2030088 rs4604853 rs17726019 rs17726019 rs7117622 rs11035274 rs1841882 chr11_39647400_C_T chr11_39773864_C_T rs7939555 rs10837311 rs16934294 rs4756573 rs3109378 rs2119179 rs11035895 rs11035895 rs11035895 rs16934905 rs7944117 rs4382893 rs10742561 rs4399317 rs4399317 rs10768645 rs10768645 chr11_40947213_A_G rs1381577 chr11_41164213_C_T rs11036286 rs11036298 rs7105234 rs10837607 rs11036368 rs7124437 chr11_41529318_C_T rs11036436 rs12290374 rs72900108 rs1514815 chr11_42110818_A_G chr11_42110818_A_G chr11_42138034_A_G rs1026644 rs4567442 rs11823199 rs12283338 chr11_42913629_A_G chr11_42913629_A_G rs1352524 chr11_42969116_A_G rs1159528

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_12_CB Col_33_IF Col_52_IF Col_52_IF Col_08_CB Col_33_IF Col_16_IF Col_12_IF Col_16_TS Col_33_IF Col_33_IF Col_12_IF Col_34_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_52_IF Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_34_CB Col_59_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_52_TS Col_33_IF Col_12_CB Col_12_TS Col_33_IF Col_33_IF Col_12_TS Col_16_IF Col_34_CB Col_38_CB Col_16_TS Col_33_IF Col_33_IF

RI PT


Marker ID

391

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT TOP TOP TOP BOT TOP TOP BOT TOP TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP BOT

[G/C] [A/C] [T/G] [A/G] [A/G] [A/G] [T/G] [A/G] [A/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [A/C] [T/C] [T/G] [T/C] [T/C] [A/G] [T/G] [T/C] [T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [A/C] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [G/C] [A/G] [A/G] [A/C] [T/C] [T/C] [A/G] [A/G] [T/C]

11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11

43168028 43175790 43260324 43400444 43496797 43770993 43851308 43905096 44036866 44046351 44207510 44207510 44207510 44276605 44360545 44930635 45367224 45473135 45522618 45635476 45635476 46160551 46896126 47258061 47385923 48000643 48000643 48051442 48120936 48162305 48375604 48646903 48646903 48669321 48791516 48860403 48860403 48860403 48860403 49157399 49401125 49421315 49474715 49493736 49546908 50487842 50566719 50629850 50629850 51221009 55054573 55077339 55222599 55222599 55606302 55668238 55873028 55937954 56000471 56253681

SC

M AN U TE D

AC C

EP

chr11_43168028_C_G rs12789205 rs6485409 chr11_43400444_A_G rs12418410 chr11_43770993_C_T rs11037662 rs2271820 rs11037803 rs7127815 rs2067788 rs2067788 rs2067788 chr11_44276605_A_G rs753688 rs4755296 rs11038406 rs4755988 chr11_45522618_A_C rs12576823 rs12576823 rs7118159 chr11_46896126_G_T chr11_47258061_C_T rs10838698 rs900696 rs900696 rs6485802 rs4752894 rs7124275 rs717897 rs10838987 rs10838987 chr11_48669321_A_G chr11_48791516_A_G chr11_48860403_A_G chr11_48860403_A_G chr11_48860403_A_G chr11_48860403_A_G rs11040265 rs7102702 chr11_49421315_A_G chr11_49474715_C_T chr11_49493736_A_G rs12098986 rs1608268 rs8189213 rs2193324 rs2193324 rs4323853 chr11_55054573_A_G chr11_55077339_C_G chr11_55222599_C_T chr11_55222599_C_T rs6591699 rs12804983 chr11_55873028_C_T rs4578407 rs11227599 chr11_56253681_C_T

genotype difference Col_33_IF Col_34_TS Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_52_IF Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_52_IF Col_33_CB Col_52_TS Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_38_CB Col_59_TS Col_12_CB Col_33_IF Col_33_CB Col_45_TS Col_52_IF Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_52_IF Col_33_IF Col_33_IF Col_52_CB Col_16_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

392

IlmnStrand

SNP

Chr

MapInfo

MINUS BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP BOT TOP BOT BOT BOT MINUS TOP BOT TOP BOT TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP BOT BOT

[I/D] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [G/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/G] [T/G] [T/C] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [I/D] [A/G] [T/C] [A/G] [T/C] [A/G] [A/C] [A/C] [A/G] [A/G] [T/G] [T/G] [A/T] [A/T] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/C] [G/C] [T/G]

11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11

56254037 56774260 56893050 56943145 57992068 57995396 57995396 58208025 58208025 58231221 58481633 58492666 58532182 58563456 58578938 58591962 58652234 58677954 58697759 58710324 58713254 58758732 58758732 58773700 58773700 58773700 58820988 58820988 58820988 58833237 58857278 58877531 58901763 58909413 58909413 58909413 58909415 58915110 58929035 58930590 58930981 58938892 58991764 58991764 59011235 59011235 59020419 59067506 59071040 59071040 59166714 59202871 59202872 59202872 59240171 59244608 59289459 59324020 59368691 59461129

SC

M AN U TE D

AC C

EP

chr11_56254038_A_INDEL rs7942314 rs7110024 chr11_56943145_C_T rs12276038 exm912193 exm912193 rs11229459 rs11229459 rs4313600 chr11_58481633_A_G chr11_58492666_C_T chr11_58532182_A_G chr11_58563456_C_T chr11_58578938_A_G chr11_58591962_C_T chr11_58652234_G_T chr11_58677954_A_C chr11_58697759_C_T chr11_58710324_G_T chr11_58713254_A_G chr11_58758732_C_T chr11_58758732_C_T chr11_58773700_C_T chr11_58773700_C_T chr11_58773700_C_T chr11_58820988_C_T rs3740948 rs3740948 chr11_58833237_A_G chr11_58857278_A_G chr11_58877531_C_T chr11_58901763_A_G chr11_58909413_A_G chr11_58909413_A_G chr11_58909413_A_G chr11_58909415_AA_INDEL chr11_58915110_C_T chr11_58929035_C_T chr11_58930590_C_T chr11_58930981_C_T chr11_58938892_C_T chr11_58991764_G_T chr11_58991764_G_T chr11_59011235_C_T chr11_59011235_C_T chr11_59020419_A_C chr11_59067506_A_C chr11_59071040_A_T chr11_59071040_A_T chr11_59166714_A_G chr11_59202871_C_T chr11_59202872_A_G chr11_59202872_A_G chr11_59240171_A_G rs17153810 chr11_59289459_C_T chr11_59324020_G_T chr11_59368691_C_G rs12282618

genotype difference Col_38_IF Col_16_TS Col_33_IF Col_16_TS Col_52_CB Col_16_TS Col_38_TS Col_33_IF Col_52_IF Col_33_TS Col_33_IF Col_33_CB Col_33_IF Col_16_IF Col_33_IF Col_16_TS Col_38_TS Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_12_IF Col_45_IF Col_52_IF Col_59_TS Col_52_TS Col_16_IF Col_38_TS Col_52_CB Col_52_IF Col_38_IF Col_33_IF Col_08_CB Col_16_TS Col_12_IF Col_33_IF Col_52_IF Col_38_TS Col_12_CB Col_33_IF Col_52_CB Col_16_TS Col_38_TS Col_33_IF Col_12_IF Col_33_IF Col_38_CB Col_16_TS Col_52_IF Col_38_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_34_CB Col_33_IF

RI PT


Marker ID

393

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT BOT MINUS BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT MINUS BOT TOP BOT BOT BOT BOT TOP BOT TOP BOT TOP BOT

[T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/C] [A/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/G] [A/G] [A/G] [A/C] [T/C] [T/C] [D/I] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [T/G] [T/G] [I/D] [T/C] [A/G] [T/C] [T/C] [G/C] [T/G] [A/G] [T/G] [A/G] [T/C] [A/G] [G/C]

11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11

59511062 59629305 59635759 59924959 59930966 59930966 60107105 60112812 60181627 60181627 60216445 60296879 60356186 60394379 60417361 60763832 61503381 61618608 61789941 61789941 61971537 63005213 63078994 63283069 63299534 63453176 63620253 63979643 64301713 64606177 65317499 65625824 65625824 65631879 65758854 65817592 65935189 66171621 66243148 66668323 66668323 66668323 66949629 66949629 67360264 68254328 68631240 68631306 68681769 68692141 68765895 68766879 68871592 68965635 68977501 68995044 69004983 69040668 69150932 69246533

SC

M AN U

TE D

chr11_59511062_A_G rs557564 kgp1722626 rs920573 rs664034 rs664034 chr11_60107105_A_G rs11230284 rs1443241 rs1443241 chr11_60216445_C_T rs11230364 chr11_60356186_C_T rs474347 rs1224311 rs916811 chr11_61503381_A_G rs174592 rs10792324 rs10792324 rs2463838 kgp11293473 kgp568362 exm920727 chr11_63299534_G_T chr11_63453176_C_T rs10897453 rs12575642 rs12417589 rs653343 chr11_65317499_ACAG_INDEL chr11_65625824_C_T chr11_65625824_C_T chr11_65631879_A_C rs1151514 chr11_65817592_C_T rs513474 rs6591216 chr11_66243148_C_T rs72925042 rs72925042 rs72925042 rs10128545 rs10128545 rs11227844 rs11228258 rs501799 rs72148329 c11_pos68438345 rs685320 rs1249582 rs72921102 chr11_68871592_C_G rs10896443 rs12281017 chr11_68995044_G_T chr11_69004983_A_G rs72930274 rs72932183 chr11_69246533_C_G

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_CB Col_33_IF Col_12_CB Col_33_IF Col_38_CB Col_45_IF Col_08_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_34_TS Col_08_TS Col_38_TS Col_52_CB Col_33_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_52_IF Col_33_CB Col_33_IF Col_08_TS Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_CB Col_38_TS Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_34_TS Col_33_IF Col_52_TS Col_33_IF Col_16_TS Col_52_CB Col_33_IF Col_52_CB Col_45_TS Col_34_TS Col_12_CB Col_52_IF Col_52_CB Col_38_TS Col_38_IF Col_33_CB Col_33_CB

RI PT


Marker ID

394

IlmnStrand

SNP

Chr

MapInfo

MINUS BOT BOT PLUS PLUS TOP MINUS TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT TOP BOT TOP BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP BOT

[D/I] [T/C] [T/A] [I/D] [I/D] [A/G] [I/D] [A/G] [T/C] [T/C] [T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/C] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C]

11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11

69276888 69332130 69332953 69403196 69403196 69419487 69497244 69602369 69685824 69825648 69840814 69850436 69850436 69863329 69874267 70414362 70439364 70463510 70969719 71072120 71113845 71171003 71867167 71975906 72259140 72358817 72700779 72711282 73428267 73517259 73770072 73906924 73917190 73917190 74012607 74048401 74058658 74111660 74111660 74111660 74111660 74149280 74162926 74206888 74210818 74225372 74225372 74225372 74225372 74273958 74280012 74313287 74322962 74341710 74365594 74366909 74372485 74372485 74375695 74386441

SC

M AN U TE D

AC C

EP

rs6144378 rs670170 rs476679 rs71727077 rs71727077 chr11_69419487_A_G rs35709741 rs10796848 rs11263623 rs10751206 rs2375286 rs11236297 rs11236297 rs17421328 rs11237181 chr11_70414362_C_T rs948192 rs11236898 rs2119510 rs7115931 rs1790374 rs12800438 chr11_71867167_C_T chr11_71975906_C_T rs193170 rs377432 rs10898894 chr11_72711282_A_G chr11_73428267_A_G rs11235911 rs826048 rs555964 rs544356 rs544356 rs17132931 rs531902 rs72988791 rs72973932 rs72973932 rs72973932 rs72973932 rs17310577 rs11607722 rs11236129 rs608792 rs67685119 rs67685119 rs67685119 rs67685119 rs7941941 rs7121958 rs7925556 rs6592574 rs4944053 rs9651761 rs7933770 rs11236199 rs11236199 rs1945132 rs7104259

genotype difference Col_33_CB Col_34_TS Col_12_CB Col_33_IF Col_12_TS Col_33_CB Col_52_CB Col_38_IF Col_52_CB Col_45_TS Col_12_TS Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_33_CB Col_52_CB Col_52_CB Col_45_TS Col_33_IF Col_08_TS Col_33_IF Col_33_CB Col_33_IF Col_52_CB Col_33_CB Col_12_CB Col_52_IF Col_33_IF Col_52_IF Col_33_IF Col_08_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_45_TS Col_08_TS Col_34_TS Col_52_CB Col_12_IF Col_45_TS Col_12_CB Col_33_IF Col_16_TS Col_08_TS Col_16_TS Col_33_CB Col_38_TS Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_12_CB

RI PT


Marker ID

395

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP BOT PLUS TOP BOT BOT BOT TOP TOP BOT TOP TOP BOT BOT TOP TOP BOT TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP

[T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [D/I] [A/G] [T/C] [T/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/G] [T/C] [A/G] [A/C] [T/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/G] [T/G] [T/C] [T/C] [A/T] [T/C] [T/C] [A/G] [T/G] [A/G] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/G] [T/C] [A/G]

11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11

74399425 74496037 74503168 74545378 74628743 74656658 74726040 74776160 74776160 74802275 75015284 75020301 75075866 75372466 75556323 75611644 76065047 76163151 76199577 76208389 76229789 76697558 76773510 77204866 77318142 77373909 77413481 77421380 77680399 77727379 78040961 78202699 78548932 79097447 79097447 79430411 79471264 79471264 79472341 79472341 79522805 79529774 79693287 79705861 79739095 79990300 80074321 80076706 80083893 80118334 80125592 80197684 80245589 80308348 80389699 80389699 80526425 80625388 80658863 80743059

SC

M AN U TE D

AC C

EP

rs1893361 rs10501420 rs113187 rs512780 corect_rs117042741 corect_rs193143010 rs565377 rs73498769 rs73498769 rs4944975 chr11_75015284_C_T chr11_75020301_C_T rs658573 rs657639 chr11_75556323_A_G rs7927868 rs2618063 rs4300410 chr11_76199578_G_INDEL chr11_76208389_A_G chr11_76229789_A_G rs6592691 chr11_76773510_C_T rs3019238 rs4945185 chr11_77373909_C_T exm943754 chr11_77421380_C_T rs12807406 rs3824865 rs10793302 rs7396701 chr11_78548932_A_C rs541288 rs541288 rs2252626 rs2851426 rs2851426 rs73514859 rs73514859 rs10793397 rs512725 chr11_79693287_A_T rs635035 rs7940615 rs2046014 chr11_80074321_A_C chr11_80076706_A_G chr11_80083893_A_G rs1842162 rs2448281 chr11_80197684_A_G rs7946375 rs12574631 rs1917861 rs1917861 rs11232345 rs1909138 chr11_80658863_C_T rs10751039

genotype difference Col_52_CB Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_33_TS Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_08_CB Col_45_TS Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_45_TS Col_12_CB Col_16_IF Col_08_CB Col_45_TS Col_33_IF Col_52_IF Col_12_CB Col_33_CB Col_52_TS Col_33_IF Col_33_IF Col_52_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_52_IF Col_12_IF Col_52_CB Col_52_CB Col_33_IF Col_33_IF

RI PT


Marker ID

396

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT BOT TOP BOT TOP BOT BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP BOT TOP PLUS BOT BOT BOT BOT BOT TOP

[T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/G] [A/C] [T/G] [T/G] [A/G] [A/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/C] [T/C] [T/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/C] [A/G] [A/C] [A/C] [A/C] [T/G] [T/G] [T/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [I/D] [T/C] [T/C] [T/C] [T/G] [T/C] [A/C]

11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11

80824141 80954031 81046412 81048338 81099928 81137302 81137302 81185148 81222909 81223717 81223717 81259273 81486744 81494736 81567116 81578047 81583316 81616446 81717389 81770027 81771621 81860384 81973656 81984325 82250265 82297942 82512587 82791959 82791959 82791959 82864447 82866228 82874970 83476003 83476003 83516681 83579441 83665176 83676761 83741398 83741398 83741398 83829316 83829316 83829316 84060675 84146142 84152033 84152033 84155044 84192441 84374106 84406078 84429466 84530538 84572377 84612560 84628451 84640178 84720630

SC

M AN U TE D

AC C

EP

rs2514461 rs9943555 rs10501506 chr11_81048338_C_T rs7124654 chr11_81137302_A_G chr11_81137302_A_G chr11_81185148_A_C chr11_81222909_A_C rs1945655 rs1945655 rs7952149 rs12294805 chr11_81494736_A_G rs11232900 rs10501529 rs11232906 rs11232921 rs11232962 rs2000522 rs489784 chr11_81860384_C_T rs603017 chr11_81984325_A_G rs1939641 rs75086762 rs10898032 rs17144547 rs17144547 rs17144547 chr11_82864447_G_T rs7114360 rs10898088 rs7126086 rs7126086 rs1451393 chr11_83579441_C_T rs2449588 rs960532 chr11_83741398_G_T chr11_83741398_G_T chr11_83741398_G_T rs1894169 rs1894169 rs1894169 rs7124855 rs568789 rs11603982 rs11603982 rs73523767 rs11606836 chr11_84374106_C_T rs7121845 chr11_84429467_A_INDEL rs4144290 rs10792786 rs11234233 rs76269557 chr11_84640178_C_T chr11_84720630_A_C

genotype difference Col_33_IF Col_33_IF Col_12_TS Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_52_CB Col_33_IF Col_34_CB Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_38_IF Col_45_IF Col_33_IF Col_45_TS Col_33_IF Col_38_CB Col_33_CB Col_33_IF Col_16_TS Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_12_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_08_TS Col_38_CB Col_12_CB Col_16_IF Col_38_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_52_IF Col_33_CB Col_52_CB Col_52_IF Col_38_IF Col_33_CB Col_52_CB

RI PT


Marker ID

397

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT

[T/G] [T/C] [T/C] [A/G] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/G] [T/C] [T/G] [T/G] [T/C] [T/C] [T/C] [A/C] [G/C] [A/G] [A/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/G] [T/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C]

11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11

84935074 84969609 84978474 85091127 85239988 85253851 85337366 85367289 85367289 85367916 85367916 85465395 85683554 85707054 86028853 86039123 86207816 86243255 86434737 86600755 86650282 86724222 86872908 86966333 87005233 87344083 87387118 87440486 87440486 87459879 87465358 87582760 87600576 87667346 87947536 87965944 87972213 88087357 88239258 88239258 88275316 88283890 88302442 88324682 88341290 88435254 88663652 88669352 88744425 88858479 88896609 88922463 88978627 88982718 89843565 89868755 89939448 89966109 89986667 90050153

SC

M AN U TE D

AC C

EP

rs951729 chr11_84969609_C_T chr11_84978474_C_T chr11_85091127_C_T rs11234359 chr11_85253851_C_T rs11603256 rs3753050 rs3753050 rs17148316 rs17148316 rs650036 rs10501604 rs540422 chr11_86028853_A_G rs2847472 rs624843 rs10444372 chr11_86434737_A_G rs10898546 chr11_86650282_C_T rs17149645 rs549932 rs10792929 chr11_87005233_C_T rs4463871 rs2212407 rs12795300 rs12795300 rs4944000 chr11_87465358_A_G rs1939193 rs7945713 chr11_87667346_C_G rs652866 rs966148 rs4753299 rs7128352 rs3812729 rs3812729 rs1827603 chr11_88283890_A_C rs308875 chr11_88324682_C_T rs2131070 rs961690 rs675010 rs591849 rs7932640 chr11_88858479_C_T rs7127661 rs12419949 chr11_88978627_C_T rs10741305 rs16924546 rs10734123 rs1943381 rs7941284 rs7101892 rs497959

genotype difference Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_CB Col_52_TS Col_16_TS Col_33_CB Col_16_CB Col_12_TS Col_34_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_59_CB Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_59_TS Col_33_IF Col_33_IF Col_52_CB Col_52_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_12_IF Col_33_CB Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_IF

RI PT


Marker ID

398

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT BOT TOP BOT

[T/C] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [T/G] [T/C] [G/C] [T/C] [T/C] [A/C] [A/C] [A/G] [A/C] [A/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/G] [T/C] [T/G] [T/G] [T/C] [A/G] [A/C] [T/C] [T/G] [T/C] [T/G] [A/C] [T/C] [A/T] [A/G] [A/G] [A/G] [T/C] [T/C] [T/G] [T/C] [A/G] [T/G] [G/C] [A/G] [T/C]

11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11

90095902 90192467 90247063 90275286 90356511 90373906 90373906 90418632 90737913 90737913 90815700 90862278 90862278 90864328 90921138 90945300 90975843 90995060 91088100 91088100 91192218 91197760 91215718 91287525 91344352 91560288 91594036 91661859 91661859 91673521 91682680 91708182 91758470 91791869 91909387 92180307 92272894 92272894 92379485 92452388 92533232 92570895 92596451 92618875 92863298 93033807 93063200 93103341 93129279 93166368 93284927 93311765 93790609 93812665 94038151 94099615 94197256 94203652 94239567 94282014

SC

M AN U TE D

AC C

EP

rs10830486 rs542612 rs16921855 rs10741350 rs10741356 rs688647 rs688647 rs11019143 corect_rs117490564 corect_rs117490564 chr11_90815700_G_T chr11_90862278_A_G chr11_90862278_A_G rs10734146 rs7926164 chr11_90945300_C_G rs12286734 chr11_90995060_A_G rs665624 rs665624 rs10830732 rs7932361 rs10765469 rs2514299 rs2678420 rs7951876 rs1873579 rs1491679 rs1491679 chr11_91673521_A_G rs7107272 chr11_91708182_A_G rs7122501 rs1692681 chr11_91909387_G_T chr11_92180307_C_T chr11_92272894_A_C chr11_92272894_A_C rs1458321 chr11_92452388_A_G exm947655 exm947778 chr11_92596451_G_T rs768877 rs11020175 chr11_93033807_G_T rs3020061 chr11_93103341_A_T rs12286814 rs2658781 chr11_93284927_A_G rs1939560 rs73551180 rs1401186 rs7930551 rs7950328 chr11_94197256_A_C chr11_94203652_C_G rs538800 rs10741490

genotype difference Col_33_IF Col_08_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_52_CB Col_16_CB Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_52_IF Col_33_IF Col_16_IF Col_52_IF Col_33_IF Col_33_IF Col_12_IF Col_33_CB Col_33_IF Col_45_TS Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_52_TS Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_TS Col_16_IF Col_33_IF Col_33_CB Col_52_CB Col_52_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_45_TS

RI PT


Marker ID

399

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP BOT TOP TOP BOT TOP TOP BOT TOP BOT BOT BOT TOP BOT BOT TOP MINUS BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP TOP BOT BOT TOP PLUS PLUS TOP TOP TOP TOP BOT TOP BOT BOT BOT TOP BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT

[T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/C] [D/I] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [T/C] [T/G] [T/G] [A/G] [A/G] [T/C] [T/C] [A/G] [D/I] [I/D] [A/G] [A/G] [A/G] [A/C] [T/C] [A/G] [T/C] [T/A] [T/C] [A/G] [T/C] [T/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/A] [T/C] [A/G] [T/C]

11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11

94809826 94809826 94887947 95009985 95116254 95185415 95202012 95219016 95329010 95347189 95377259 95570883 95611765 95741958 95741958 95741958 95867366 95981067 96043367 96061468 96116487 96562777 96562777 96562905 96562905 96562905 96687870 96769519 96843354 96857324 96963902 96997312 97009206 97020637 97040365 97101645 97233838 97256478 97315831 97322296 97337807 97400945 97421713 97452661 97483189 97486522 97509964 97560081 97591699 97660579 97676449 97791459 97851666 97867665 97915543 97957957 98010571 98062608 98089822 98135872

SC

M AN U

TE D

rs1039750 rs1039750 chr11_94887947_A_G chr11_95009985_C_T rs535512 chr11_95185415_C_T rs2510579 rs11822727 chr11_95329010_C_T chr11_95347189_C_T rs7947022 rs2298445 rs687116 rs11021381 rs11021381 rs11021381 rs4572097 rs11021494 rs488864 chr11_96061468_A_C chr11_96116487_GTTG_INDEL rs2033836 rs2033836 chr11_96562905_C_T chr11_96562905_C_T chr11_96562905_C_T rs10892450 rs10750384 rs10894965 rs7103184 rs1789209 chr11_96997312_C_T rs1580678 rs11225173 rs11225252 chr11_97101645_G_INDEL chr11_97233838_INDEL_TGCA rs12294161 rs2044986 chr11_97322296_A_G chr11_97337807_A_C rs10895894 rs1960374 chr11_97452661_A_G chr11_97483189_A_T rs10749882 rs72969084 rs627611 rs612234 rs10890871 rs10890892 rs2851672 rs7946098 rs4590838 rs667679 rs17130457 chr11_98010571_A_T rs7128408 rs2852039 rs12281447

genotype difference Col_33_IF Col_38_TS Col_33_IF Col_52_TS Col_33_CB Col_12_CB Col_52_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_45_IF Col_52_IF Col_33_CB Col_33_IF Col_33_IF Col_45_TS Col_33_IF Col_38_TS Col_12_IF Col_33_IF Col_34_TS Col_12_CB Col_16_IF Col_33_IF Col_33_IF Col_52_IF Col_52_IF Col_38_CB Col_12_IF Col_52_CB Col_52_TS Col_12_CB Col_33_IF Col_52_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_CB Col_33_IF Col_12_CB Col_38_TS Col_33_IF Col_33_IF Col_33_CB Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_CB Col_33_IF Col_33_CB Col_38_CB

RI PT


Marker ID

400

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP

[T/C] [T/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [T/C] [T/C] [A/G] [A/C] [A/C] [T/C] [A/G] [A/G] [A/C] [A/C] [A/C] [A/C] [A/C] [A/G] [A/G] [A/G] [A/G] [A/C] [A/G] [A/G] [T/C] [T/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/C] [A/G] [A/C] [A/C] [A/C] [A/C] [T/G] [T/G] [A/G] [T/G] [T/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/C]

11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11

98135872 98150814 98171409 98181274 98203016 98235401 98235401 98251961 98269359 98275861 98406723 98435327 98457457 98461972 98478626 98478626 98582099 98582099 98582099 98582099 98667765 98740929 98741686 98741686 98746614 98774102 98781993 98807358 98831017 98850985 98909976 98909976 98909976 98958640 99027229 99035893 99088047 99241865 99241865 99288203 99288203 99337450 99434730 99446164 99446164 99446164 99446164 99527939 99541500 99563719 99733546 99733546 99770218 99779087 99779087 99781954 99801380 99802262 99802262 99806211

SC

M AN U TE D

AC C

EP

rs12281447 chr11_98150814_G_T rs7944403 rs2000686 rs7114019 rs7110383 rs7110383 rs10501885 rs11215167 rs1482230 rs17132136 rs4281453 rs10750092 rs10128544 rs79704463 rs79704463 rs1430468 rs1430468 rs1430468 rs1430468 chr11_98667765_A_C chr11_98740929_C_T chr11_98741686_A_G chr11_98741686_A_G rs12577310 rs7945465 rs12278762 rs901538 rs17561441 rs901540 rs7125442 rs7125442 rs7125442 chr11_98958640_C_T chr11_99027229_A_G rs7949592 rs7103056 rs12574856 rs12574856 chr11_99288203_A_G chr11_99288203_A_G rs2656195 rs17133813 chr11_99446164_A_C chr11_99446164_A_C chr11_99446164_A_C chr11_99446164_A_C rs17134141 rs10790880 chr11_99563719_A_G chr11_99733546_A_C chr11_99733546_A_C rs1596306 rs10501931 rs10501931 rs10894154 rs17618560 rs12290915 rs12290915 rs1349784

genotype difference Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_52_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_38_TS Col_52_IF Col_33_IF Col_52_TS Col_59_TS Col_12_IF Col_38_TS Col_33_IF Col_52_IF Col_12_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_16_TS Col_33_IF Col_34_CB Col_33_IF Col_12_CB Col_52_IF Col_33_IF Col_38_CB Col_52_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_38_TS Col_45_TS Col_52_IF Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_52_IF Col_33_IF Col_38_CB Col_52_CB Col_12_CB Col_33_IF Col_52_IF Col_12_TS Col_12_CB

RI PT


Marker ID

401

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP TOP BOT TOP TOP BOT TOP TOP BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT BOT BOT PLUS TOP BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT TOP TOP TOP

[T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [A/G] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [G/C] [A/G] [T/C] [A/G] [A/C] [T/C] [C/G] [A/G] [T/C] [A/C] [A/C] [T/C] [A/G] [T/G] [T/C] [A/G] [A/C] [A/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/T] [A/G] [A/G] [T/C] [T/C] [G/C] [D/I] [A/G] [T/C] [T/G] [A/G] [A/G] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C]

11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11

99830221 99841559 99927068 99927068 99968814 99973350 99993641 100017245 100077448 100112127 100118859 100124929 100155500 100165790 100203791 100413065 100421472 100433497 100472288 100486632 100513913 100555114 100593538 100633321 100880706 100883545 100883545 100909991 101071565 101133130 101161624 101267856 101354968 101354968 101360717 101360717 101388716 101477424 101526476 101588594 101588960 101624193 101693323 101986644 101993898 102253835 102389992 102401661 102413123 102576382 102576382 102576468 102585285 102606007 102607959 102641382 102661019 102710471 102713046 102720678

SC

M AN U

TE D

chr11_99830221_A_G rs7119109 rs57658888 rs57658888 rs11222749 rs11222776 rs4753969 rs11222970 rs17094617 rs622451 rs11223396 rs544005 rs11223518 rs1442449 chr11_100203791_C_T rs1216481 chr11_100421472_C_G chr11_100433497_C_T rs11224313 rs601727 rs1032779 rs4312035 rs633185 rs7125452 rs521744 chr11_100883545_A_C chr11_100883545_A_C rs500760 rs948749 chr11_101133130_G_T chr11_101161624_C_T chr11_101267856_A_G rs7924551 rs7924551 chr11_101360717_A_G chr11_101360717_A_G rs10501982 chr11_101477424_C_T rs1938857 chr11_101588594_A_T rs12283905 rs7946357 corect_rs190201599 rs10895257 chr11_101993898_C_G chr11_102253838_CTT_INDEL chr11_102389992_A_G chr11_102401661_A_G rs10791578 rs12099177 rs12099177 rs11225389 chr11_102585285_A_G chr11_102606007_C_T rs11225401 rs470168 rs17880115 rs566125 chr11_102713046_C_T rs615098

genotype difference Col_33_IF Col_33_CB Col_33_IF Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_08_TS Col_16_TS Col_33_IF Col_45_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_CB Col_52_IF Col_12_IF Col_38_CB Col_52_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_16_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_45_IF Col_33_IF Col_33_IF Col_16_TS Col_34_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

402

IlmnStrand

SNP

Chr

MapInfo

MINUS BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT TOP BOT TOP BOT TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT MINUS BOT BOT TOP BOT TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP BOT TOP PLUS TOP TOP TOP

[D/I] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [A/G] [T/G] [T/C] [A/G] [T/C] [A/G] [T/C] [A/T] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/G] [T/G] [T/C] [I/D] [T/C] [T/C] [A/C] [T/C] [A/C] [T/C] [T/C] [A/G] [T/C] [T/G] [T/C] [T/C] [T/G] [A/G] [T/C] [A/G] [T/C] [A/C] [I/D] [A/G] [A/G] [A/G]

11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11

102879010 102983984 103071344 103185959 103190054 103255114 103318329 103380763 103394962 103417781 103421935 103456119 103458566 103464087 103464087 103505731 103619505 103703939 103744630 103755233 103779025 103792540 103839559 103859645 104037994 104057830 104182620 104220190 104442938 104497607 104504416 104525899 104821374 104830838 104899238 105078890 105115147 105308262 105393840 105393840 105426802 105434732 105536018 106039594 106229906 106268455 106319778 106328565 106344753 106417564 106419012 106571790 106718877 106801361 106911794 106930556 106939426 106987593 107037976 107049547

SC

M AN U TE D

AC C

EP

chr11_102879011_G_INDEL rs4754892 rs654550 rs11225703 rs220327 rs2671397 rs581977 rs969038 rs1481961 rs7120142 rs1481996 chr11_103456119_A_G rs1075533 chr11_103464087_C_T chr11_103464087_C_T rs1917451 rs986404 rs11226034 rs576198 rs512138 rs11226057 rs541150 rs12282189 rs651979 rs11226211 rs11226216 rs10750695 chr11_104220190_A_T chr11_104442938_A_G rs1942510 rs16894 chr11_104525899_C_T rs633782 rs686999 chr11_104899238_A_C rs2062173 chr11_105115147_C_T chr11_105308263_INDEL_T rs7116662 rs7116662 rs1009820 rs11226768 rs1822989 rs12294538 chr11_106229906_C_T chr11_106268455_C_T chr11_106319778_C_T rs17105741 chr11_106344753_A_G chr11_106417564_C_T chr11_106419012_A_C chr11_106571790_C_T rs10502079 chr11_106801361_A_G rs10789559 rs2513131 chr11_106939427_A_INDEL rs11212035 rs10789572 rs7934656

genotype difference Col_33_IF Col_33_IF Col_12_CB Col_52_TS Col_12_CB Col_52_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_38_TS Col_52_TS Col_52_IF Col_16_TS Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_CB Col_33_CB Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_45_TS Col_12_CB Col_33_IF Col_52_TS Col_52_IF Col_12_CB Col_52_IF Col_33_IF Col_52_CB Col_16_IF Col_33_IF Col_38_IF Col_33_IF Col_16_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_45_CB Col_33_IF Col_33_IF Col_45_CB

RI PT


Marker ID

403

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP TOP TOP BOT TOP BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT TOP PLUS BOT MINUS TOP BOT BOT TOP TOP TOP TOP BOT TOP BOT TOP BOT TOP BOT TOP TOP BOT TOP BOT TOP TOP TOP BOT TOP BOT TOP TOP TOP BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT

[A/G] [T/C] [A/C] [A/G] [A/G] [T/G] [A/G] [T/G] [T/G] [A/G] [G/C] [A/G] [A/G] [A/G] [G/C] [T/C] [T/C] [A/C] [I/D] [T/C] [I/D] [A/G] [T/C] [T/C] [A/G] [A/G] [A/T] [A/G] [G/C] [A/G] [T/G] [A/G] [T/G] [A/G] [T/C] [A/C] [A/G] [T/A] [A/C] [T/G] [A/G] [A/G] [A/G] [T/G] [A/G] [T/A] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C]

11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11

107263213 107367793 107429423 107472733 107472733 107505917 107839211 107968470 108012417 108099374 108114727 108114883 108115526 108115587 108122592 108124761 108129091 108129778 108139364 108143105 108153421 108160416 108164085 108164085 108164245 108164245 108167858 108172998 108175387 108175462 108183151 108188136 108192159 108196896 108201032 108202772 108226927 108276190 108288808 108503672 108816374 108928866 108957523 108969343 109129584 109276059 109394795 109489575 109498447 109665299 109682445 109682445 109707703 109707703 109754949 109870083 110097651 110166131 110227924 110375034

SC

M AN U TE D

AC C

EP

rs11212199 rs583852 chr11_107429423_G_T rs670446 rs670446 rs1939896 rs4554861 chr11_107968470_G_T exm953347 rs79866170 chr11_108114727_C_G chr11_108114883_C_T chr11_108115526_A_G chr11_108115587_C_T chr11_108122592_C_G chr11_108124761_C_T rs4987961 chr11_108129778_A_C chr11_108139364_A_INDEL rs4987981 chr11_108153420_INDEL_T chr11_108160416_C_T chr11_108164085_A_G chr11_108164085_A_G chr11_108164245_C_T chr11_108164245_C_T rs56161469 chr11_108172998_C_T chr11_108175387_C_G rs1801516 chr11_108183151_G_T chr11_108188136_A_G chr11_108192159_G_T chr11_108196896_C_T chr11_108201032_A_G chr11_108202772_G_T rs73008269 chr11_108276190_A_T chr11_108288808_G_T rs10890873 chr11_108816374_C_T chr11_108928866_A_G chr11_108957523_C_T rs1509733 rs12422091 rs12285719 kgp5879082 rs11213128 chr11_109498447_C_T rs6589089 rs689152 rs689152 rs76214 rs76214 rs475115 chr11_109870083_C_T rs12272333 rs1676535 rs11213366 rs1553734

genotype difference Col_33_IF Col_33_IF Col_16_IF Col_33_CB Col_52_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_08_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_52_IF Col_08_TS Col_52_CB Col_33_CB Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_52_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB

RI PT


Marker ID

404

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP BOT BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT

[A/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/C] [A/G] [T/G] [T/G] [A/G] [T/G] [T/G] [T/G] [T/C] [A/C] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [T/G] [T/G] [T/G] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [A/C] [T/C] [A/G] [A/G] [T/C] [T/G] [T/C] [T/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/G]

11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11

110395858 110686062 110686788 110748887 110753770 110791312 110796085 110824543 110840714 110860981 110860981 110894963 110929313 110936275 110975855 110980434 111056023 111079495 111080246 111114203 111114367 111115042 111116949 111134732 111134732 111164651 111180390 111180390 111201166 111215251 111220005 111270228 111270228 111275250 111355381 111363161 111383789 111401840 111443251 111443251 111464145 111464145 111599662 111657228 111933355 112012630 112262881 112309057 112362462 112581272 112698607 112888129 112917111 112968651 113004662 113103259 113317067 113541147 113568076 113638374

SC

M AN U TE D

AC C

EP

rs12785341 rs11213605 rs226164 rs2358425 rs2884451 rs877543 rs4622301 rs4938083 rs10891211 rs80143982 rs80143982 rs11213707 rs1978694 rs6589208 rs1400758 rs78207763 rs9645657 rs10502138 rs10789808 rs11213793 chr11_111114367_A_G rs11213794 rs12803698 rs17554190 rs17554190 rs11213821 rs11213825 rs11213825 rs7929013 rs7113329 rs11213846 rs7952176 rs7952176 rs4938535 rs478364 rs11213927 rs11606481 rs7107378 rs61896910 rs61896910 rs74665267 rs74665267 rs12794759 chr11_111657228_A_G rs534753 rs544354 chr11_112262881_G_T rs10749995 rs10789889 rs9804589 rs12270522 rs17114682 rs12574893 chr11_112968651_A_C rs4937993 chr11_113103259_C_T rs17529477 chr11_113541147_C_T chr11_113568076_C_T rs2459969

genotype difference Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_52_IF Col_52_IF Col_33_CB Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_16_TS Col_52_TS Col_52_CB Col_38_TS Col_45_IF Col_33_CB Col_33_IF Col_33_IF Col_34_CB Col_52_CB Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_38_CB Col_08_TS Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_52_CB Col_33_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_CB Col_33_CB Col_33_IF Col_33_IF Col_52_CB Col_38_CB Col_33_CB Col_12_CB

RI PT


Marker ID

405

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP BOT TOP TOP BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT TOP BOT PLUS BOT TOP BOT TOP TOP BOT TOP TOP BOT BOT BOT TOP BOT

[A/T] [A/G] [A/G] [A/G] [T/C] [A/G] [C/G] [A/T] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/G] [T/C] [T/G] [T/C] [A/G] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/G] [T/G] [A/C] [T/G] [D/I] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C]

11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11

113673024 113703086 113728502 113789299 114015298 114156318 114167939 114170176 114330018 114467655 114471076 114541603 114622352 114788422 114794436 114916450 114926393 115237345 115361027 115412993 115455636 115497151 115546746 115872716 115890279 115901491 116004418 116020305 116177072 116354466 116551538 116633825 116784376 117053270 117110740 117213189 117839307 117869670 117876155 117903836 117903942 117983054 118112844 118112844 118809882 119085783 119231123 119659753 119688442 119703523 120194357 120614787 120864922 121104255 121255699 121266366 121266366 121266366 121412579 121954657

SC

M AN U

TE D

chr11_113673024_A_T chr11_113703086_C_T chr11_113728502_C_T chr11_113789299_A_G chr11_114015298_C_T chr11_114156318_C_T rs2256292 rs1941402 rs7116731 rs12418080 rs11603845 rs1712813 rs10502192 rs7936187 rs2514457 rs4131241 chr11_114926393_G_T rs11215517 chr11_115361027_A_G rs2513638 rs7121755 rs10891874 rs1698205 rs7928212 chr11_115890279_C_T chr11_115901491_C_T rs11215807 chr11_116020305_C_T rs1440188 rs549298 rs1784104 rs918144 rs7115583 rs78302783 rs650585 rs11216360 chr11_117839307_C_T rs2229113 chr11_117876155_A_G rs4936417 rs11216713 rs10892219 chr11_118112844_G_T chr11_118112844_G_T rs11217099 rs6589722 chr11_119231123_INDEL_TTTTC rs10892465 rs4245207 chr11_119703523_A_G rs12421941 chr11_120614787_C_T rs1944522 chr11_121104255_A_C rs6589880 chr11_121266366_A_G chr11_121266366_A_G chr11_121266366_A_G chr11_121412579_C_T rs7121446

genotype difference Col_33_IF Col_52_TS Col_33_IF Col_45_TS Col_33_CB Col_52_CB Col_38_IF Col_33_IF Col_52_IF Col_45_TS Col_52_IF Col_12_CB Col_45_TS Col_33_IF Col_52_IF Col_52_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_52_CB Col_34_CB Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_52_CB Col_52_CB Col_52_CB Col_52_CB Col_33_IF Col_16_TS Col_52_CB Col_33_IF Col_52_CB Col_52_TS Col_52_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_52_CB Col_33_CB Col_52_IF Col_52_CB Col_33_IF Col_52_CB Col_33_CB Col_33_IF Col_12_CB Col_52_CB Col_16_IF Col_38_CB Col_45_CB Col_33_CB Col_33_IF

RI PT


Marker ID

406

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP BOT TOP BOT BOT TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP MINUS BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT TOP BOT TOP TOP TOP TOP BOT TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT

[A/G] [T/C] [A/G] [T/C] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/G] [T/C] [A/G] [A/C] [T/C] [T/G] [T/C] [A/C] [A/G] [A/G] [A/G] [A/T] [A/G] [I/D] [T/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/G] [A/G] [A/G] [A/G] [A/G] [G/C] [A/C] [T/C] [A/C] [A/C] [A/G] [T/C] [T/G] [C/G] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [T/G]

11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11

121958549 122002604 122682156 122752714 122827236 122841562 122926664 122965906 122965906 123080244 123755719 123877979 123942501 123964967 123990245 124172270 124229916 124414746 124419307 124438314 124438314 124636645 124841767 124890396 125093612 125172383 125506870 125506870 125570755 125655014 125812350 125893275 125920236 126683618 126778513 126778513 126812293 127095895 127305084 127393262 127393262 127393262 127456723 127486960 127549639 128041582 128079898 128145470 128189151 128201150 128299874 128376894 128415129 128583975 128869845 128930561 129089278 129208260 129301284 129320571

SC

M AN U TE D

AC C

EP

rs721934 rs678586 rs3134428 rs4936757 chr11_122827236_A_C rs11218907 rs1841580 rs11218979 rs11218979 chr11_123080244_A_G rs728177 rs1947406 rs651739 rs668714 chr11_123990245_A_C rs2512297 rs2428301 rs10893251 rs6590081 chr11_124438314_C_T chr11_124438314_C_T chr11_124636645_A_G rs55827512 rs4936969 chr11_125093613_A_INDEL chr11_125172383_A_C rs3731419 rs3731419 rs4325320 rs536968 chr11_125812350_C_T rs1939890 rs538107 chr11_126683618_A_G rs1793656 rs1793656 rs1894225 rs11220836 rs10893684 rs12790344 rs12790344 rs12790344 rs12787916 chr11_127486960_C_G rs2928040 rs7933438 chr11_128079898_A_C rs573624 chr11_128189151_A_G rs4937316 rs7111926 rs10790961 rs4128561 corect_rs112595469 rs511296 chr11_128930561_G_T rs4430528 rs10444344 rs12577139 chr11_129320571_A_C

genotype difference Col_59_CB Col_33_IF Col_33_IF Col_45_TS Col_45_IF Col_33_IF Col_33_IF Col_52_CB Col_59_CB Col_12_CB Col_33_IF Col_45_TS Col_52_CB Col_33_IF Col_33_IF Col_38_IF Col_12_CB Col_33_IF Col_45_TS Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_TS Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_52_CB Col_16_IF Col_38_IF Col_52_IF Col_16_IF Col_52_CB Col_33_IF Col_52_IF Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB

RI PT


Marker ID

407

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT TOP TOP BOT BOT PLUS TOP BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT TOP TOP BOT BOT TOP BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP

[T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [D/I] [C/G] [T/C] [A/G] [A/C] [T/G] [T/C] [T/A] [T/A] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [G/C] [G/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/G] [T/C] [A/C] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/C]

11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 11 12 12 12 12 12 12 12 12

129363079 129394871 129457583 129490119 129594088 129825705 129886464 129895028 129898925 129981150 130024945 130305605 130313181 130392708 130440220 130705040 130705040 130766532 130803634 130861244 130861244 130864429 130941464 130947920 131110068 131110068 131115352 131158052 131244602 131325867 131548263 131777294 131870763 131954147 132212052 132239690 132435506 132455489 132455489 132494505 132798750 132837144 133296790 133305986 133899614 133941046 134275986 134411391 134520403 134664007 134685459 134889485 358988 598755 635677 635677 698634 711646 756714 838879

SC

M AN U

TE D

rs11221725 rs10894052 chr11_129457583_C_T chr11_129490119_A_G rs693363 chr11_129825705_A_G chr11_129886464_A_G chr11_129895028_C_T chr11_129898925_AAAC_INDEL chr11_129981150_C_G rs11221986 rs4936101 rs7937715 rs1873886 rs10894219 rs4343034 rs4343034 rs10736591 rs12790299 chr11_130861244_A_G chr11_130861244_A_G chr11_130864429_A_G rs7128655 rs4245099 chr11_131110068_C_G chr11_131110068_C_G chr11_131115352_A_G rs1104974 chr11_131244602_A_G rs10894394 chr11_131548263_C_T rs4936150 rs12419881 rs1790181 rs647997 corect_rs114089955 chr11_132435506_A_G rs60428579 rs60428579 rs11223157 rs2659616 rs11524443 rs7938100 rs12796765 rs7938718 rs641501 chr11_134275986_A_G chr11_134411391_C_T rs7121394 rs10791393 rs11224026 rs55969429 rs552788 chr12_598755_G_T chr12_635677_A_G chr12_635677_A_G rs2535436 rs2535392 rs75745886 rs79990022

genotype difference Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_38_TS Col_12_IF Col_52_CB Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_08_CB Col_52_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_52_CB Col_38_CB Col_16_IF Col_38_IF Col_33_IF Col_52_IF Col_33_IF Col_33_CB Col_52_CB Col_52_IF Col_12_CB Col_52_CB Col_52_CB Col_16_IF Col_33_IF Col_33_IF Col_34_CB Col_16_TS Col_33_IF Col_33_CB Col_52_CB

RI PT


Marker ID

408

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP BOT BOT TOP TOP BOT BOT TOP BOT TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT TOP BOT

[T/C] [A/G] [A/C] [T/G] [T/C] [A/G] [A/G] [G/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/G] [T/C] [A/T] [T/C] [A/G] [A/G] [A/G] [C/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/G] [T/C] [T/G] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [T/C] [T/G] [T/G] [T/G] [A/C] [T/G] [A/G] [T/C] [T/C] [A/G] [T/G]

12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12

854331 890365 933037 943953 979397 982321 1085763 1155728 1174917 1223584 1236286 1272171 1350512 1371828 1384838 1461656 1509024 1542271 1648369 1653106 1666816 1760417 1945042 2115761 2895076 2964684 3112378 3228973 3255327 3434881 3682483 3687011 3786073 3877127 3953106 3966754 3984163 4007898 4009739 4052555 4067677 4072964 4091762 4097191 4102849 4109960 4258079 4258079 4315651 4327247 4329977 4329977 4331924 4346798 4392391 4403864 4462161 4463204 4489659 4536096

SC

M AN U TE D

AC C

EP

rs7137188 rs72647397 rs6489750 rs11064560 rs17800828 rs10849573 rs61917246 rs61918705 rs1859451 rs75185964 rs10744533 rs2906110 rs7961190 rs2286036 rs11061680 rs60550704 rs12316687 rs74892955 rs11061829 rs7132411 rs61912219 chr12_1760417_A_G rs11061995 rs3858698 rs12828903 rs11062386 rs885201 rs10735017 rs10848813 rs4766100 rs7966000 chr12_3687011_C_T rs242033 rs35021047 rs11062863 rs76964954 rs80198699 rs1419859 rs12581853 rs1592440 rs659250 rs594088 rs7298824 rs2724214 rs10848968 rs11609958 rs61910822 rs61910822 rs1544631 rs4766219 rs10849018 rs10849018 rs10849019 rs11611593 rs3217827 rs3217892 rs1046165 rs7962818 rs13312752 rs7295812

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_52_IF Col_38_TS Col_33_IF Col_33_CB Col_52_CB Col_52_IF Col_16_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_38_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_52_IF Col_45_IF Col_52_CB Col_33_CB Col_34_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_CB Col_33_CB Col_52_IF Col_12_CB Col_33_CB Col_12_CB

RI PT


Marker ID

409

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP TOP BOT TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT TOP BOT BOT TOP TOP TOP TOP BOT TOP BOT TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT TOP BOT TOP TOP BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT

[A/G] [T/C] [A/C] [A/G] [T/C] [A/C] [T/C] [A/C] [A/G] [A/G] [A/G] [C/G] [C/G] [T/C] [T/C] [G/C] [T/C] [A/G] [A/G] [T/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/G] [T/C] [T/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/C] [T/G] [T/C] [T/C] [T/G] [T/C] [T/C]

12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12

4563153 4565459 4602138 4608325 4674296 4682902 4729809 4780236 4795671 4948668 5015381 5073037 5073037 5308806 5411963 5499119 5636832 5743214 5759609 5874714 5890132 5985514 6000126 6383775 6683287 6917832 6948468 7007004 7392658 7492148 7641535 7730186 7774131 7777197 7869038 7873411 7942945 7945559 7993316 8055005 8311376 8447618 8682758 8682758 8759007 8904132 8951780 9220729 9323705 9750669 9795285 9906179 10004932 10069734 10277083 10322182 10322626 10411135 10424627 10472142

SC

M AN U TE D

AC C

EP

rs12322004 rs73037714 rs61909581 rs11063208 rs12811198 rs12368152 rs7134765 rs4147689 rs4147695 rs10744664 rs7309273 chr12_5073037_C_G chr12_5073037_C_G rs6489611 chr12_5411963_A_G rs7315773 chr12_5636832_C_T rs1558508 rs453385 rs16933861 chr12_5890132_C_T rs12367003 rs7298357 rs4764550 rs1057510 rs7299900 rs1129649 rs2040352 rs1349411 rs11051842 chr12_7641535_A_G rs7965166 rs11054896 rs12308688 rs10772662 chr12_7873411_C_T rs11055767 rs4294629 rs2889545 rs7969379 rs6486850 rs35006259 chr12_8682758_A_G chr12_8682758_A_G rs2580875 rs2908452 rs77978894 rs7955940 rs2114847 rs1135816 rs16911619 chr12_9906179_A_G chr12_10004932_A_G rs2401642 rs3901533 rs2742115 chr12_10322626_C_T rs2045881 rs2617135 chr12_10472142_C_T

genotype difference Col_16_CB Col_52_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_CB Col_38_TS Col_34_TS Col_16_TS Col_12_IF Col_52_CB Col_33_IF Col_16_TS Col_33_CB Col_33_IF Col_33_CB Col_33_CB Col_12_CB Col_33_IF Col_52_IF Col_52_IF Col_52_CB Col_34_CB Col_52_CB Col_52_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_CB Col_52_CB Col_33_IF Col_34_CB Col_33_IF Col_38_CB Col_12_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

410

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP BOT TOP TOP BOT TOP TOP BOT TOP TOP TOP MINUS PLUS PLUS BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT PLUS PLUS PLUS TOP TOP BOT BOT BOT TOP TOP BOT TOP BOT BOT TOP TOP TOP BOT BOT TOP BOT TOP BOT TOP TOP TOP

[A/C] [T/C] [T/C] [A/C] [T/C] [A/G] [A/G] [T/G] [A/C] [A/G] [T/G] [A/G] [A/G] [A/G] [D/I] [D/I] [D/I] [T/C] [T/C] [T/G] [A/G] [T/C] [T/C] [T/G] [T/A] [A/C] [T/C] [A/G] [G/C] [T/A] [T/C] [T/G] [T/C] [T/C] [I/D] [I/D] [D/I] [A/G] [A/G] [T/C] [T/C] [T/C] [C/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/G] [A/C] [T/C] [A/G] [A/G] [A/G]

12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12

10509383 10514528 10546603 10683145 11060695 11482970 11707406 11772162 11965197 12174140 12222034 12235218 12249224 12270290 12291582 12311642 12428103 12624289 12707576 12728945 13037300 13093342 13482712 13719572 13854914 14022546 14035011 14069075 14139784 14176766 14281694 14302752 14312203 14338594 14355780 14355780 14431125 14465589 14549000 14556320 14556320 14587301 14587317 14622002 14693353 14765555 14825003 14844286 14855099 15065823 15275119 15365510 15365510 15365872 15763224 15952147 16322907 16472272 16516994 16572987

SC

M AN U

TE D

rs10734827 rs7305635 rs11832581 chr12_10683145_A_C rs1015442 chr12_11482970_C_T chr12_11707406_A_G chr12_11772162_A_C chr12_11965197_G_T chr12_12174140_A_G chr12_12222034_G_T rs12823603 rs2448050 rs2160525 chr12_12291582_C_INDEL chr12_12311642_CAAA_INDEL chr12_12428103_GGC_INDEL rs2417188 chr12_12707576_C_T chr12_12728945_G_T rs4763305 rs1291345 rs7302292 rs1806192 rs1012587 rs11055655 rs10845853 chr12_14069075_C_T chr12_14139784_C_G rs12816745 rs12308275 rs17341193 chr12_14312203_A_G chr12_14338594_C_T rs5796583 rs5796583 chr12_14431125_INDEL_TGG rs10772769 rs7967870 chr12_14556320_A_G chr12_14556320_A_G rs3213764 exm986698 rs11055989 chr12_14693353_A_G chr12_14765555_C_T chr12_14825003_C_T rs2099015 chr12_14855099_A_G rs2430692 rs80152564 rs11056399 rs11056399 chr12_15365872_C_T rs989369 rs11056647 rs1405513 rs10772922 rs11875 rs2193137

genotype difference Col_33_IF Col_16_IF Col_52_IF Col_33_IF Col_38_CB Col_08_CB Col_33_IF Col_45_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_33_IF Col_33_CB Col_52_CB Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_CB Col_52_TS Col_52_IF Col_38_CB Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_08_TS Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_34_TS Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_34_TS Col_52_CB Col_12_CB Col_33_IF Col_34_CB Col_33_IF Col_33_CB Col_52_IF Col_33_IF Col_16_IF

RI PT


Marker ID

411

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT BOT TOP BOT TOP PLUS TOP BOT TOP TOP TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT TOP BOT BOT TOP BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT MINUS

[A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/C] [I/D] [A/C] [T/C] [A/G] [A/C] [A/G] [A/G] [T/G] [A/G] [A/C] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [T/G] [A/C] [A/C] [A/C] [T/C] [T/G] [A/C] [T/G] [T/C] [A/G] [T/G] [T/G] [A/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/C] [T/G] [D/I]

12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12

16633952 16651167 16698528 16721603 16772801 16819159 16834576 16881345 16882246 16893686 16941751 17162964 17195563 17245359 17314071 17340780 17352907 17378364 17378364 17383755 17385994 17385994 17385994 17385994 17431575 17577321 17602872 17606289 17606289 17606289 17682036 17702469 17710521 17774918 17796183 17803153 17817977 17984834 18040964 18106166 18186262 18234352 18247969 18315241 18323648 18339480 18394522 18394522 18394522 18399464 18399464 18399464 18429362 18444163 18444163 18467618 18488862 18491459 18616059 18641365

SC

M AN U TE D

AC C

EP

chr12_16633952_C_T chr12_16651167_A_G rs12425910 rs11056999 rs11057009 rs12320148 chr12_16834576_C_T corect_rs117522055 chr12_16882247_A_INDEL rs10772958 chr12_16941751_C_T rs10846457 chr12_17195563_G_T chr12_17245359_A_G rs1398590 rs1606449 chr12_17352907_C_T rs17439947 rs17439947 rs73068033 chr12_17385994_C_T chr12_17385994_C_T chr12_17385994_C_T chr12_17385994_C_T rs16912594 rs1177404 rs1163929 rs11043469 rs11043469 rs11043469 rs4763468 chr12_17702469_A_C rs10840745 rs12831874 rs2467149 chr12_17803153_A_G rs2467136 rs4494352 rs11043723 rs61914202 rs1526579 chr12_18234352_A_G rs7973657 rs4334077 rs6486891 rs10770313 rs11043970 rs11043970 rs11043970 rs12305290 rs12305290 rs12305290 rs73060446 rs4237974 rs4237974 chr12_18467618_A_G rs16914120 exm988018 rs76692494 chr12_18641365_INDEL_TC

genotype difference Col_33_IF Col_33_CB Col_33_IF Col_16_IF Col_33_IF Col_52_CB Col_52_CB Col_12_CB Col_12_CB Col_33_CB Col_33_IF Col_52_IF Col_08_TS Col_33_IF Col_33_CB Col_16_IF Col_34_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_38_CB Col_52_IF Col_59_TS Col_12_IF Col_12_IF Col_33_IF Col_33_IF Col_38_IF Col_45_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_16_TS Col_38_CB Col_52_CB Col_12_CB Col_33_CB Col_33_IF Col_33_CB Col_33_IF Col_38_IF Col_16_TS Col_59_CB Col_12_CB Col_16_TS Col_52_IF Col_12_IF Col_33_CB Col_33_IF Col_52_IF Col_33_IF Col_16_IF Col_33_IF Col_52_IF Col_33_CB

RI PT


Marker ID

412

IlmnStrand

SNP

Chr

MapInfo

MINUS TOP BOT BOT BOT PLUS BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT TOP BOT BOT BOT TOP BOT TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT TOP BOT BOT BOT BOT TOP BOT TOP TOP BOT TOP BOT TOP TOP

[D/I] [A/G] [T/G] [T/G] [T/G] [D/I] [T/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/G] [A/G] [T/C] [T/C] [T/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/G] [T/C] [G/C] [T/C] [T/G] [T/G] [T/G] [T/C] [A/C] [A/C] [T/C] [A/G] [T/C] [A/C] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G]

12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12

18641365 18649057 18753506 18753506 18753506 18783500 18799164 18848376 19626964 19807222 19856199 20028378 20044232 20046007 20102148 20197472 20330651 20359670 20386656 20386656 20411519 20521654 20533594 20567640 20789876 20795192 20836934 20840839 20863573 20905627 20905627 20905990 20983253 21011480 21054369 21072348 21234341 21242901 21243035 21261982 21283322 21293334 21305298 21309714 21325808 21329761 21329813 21329832 21330338 21330338 21330338 21331625 21334214 21353505 21353557 21375289 21378021 21419365 21421780 21422039

SC

M AN U TE D

AC C

EP

chr12_18641365_INDEL_TC rs12312266 rs7304394 rs7304394 rs7304394 chr12_18783500_C_INDEL rs518345 chr12_18848376_C_T rs12370331 rs10841298 chr12_19856199_A_G rs1609085 rs7299410 rs11044924 rs7956556 chr12_20197472_A_G rs2042880 rs2162734 rs274995 rs274995 rs17316054 chr12_20521654_A_C rs1373573 chr12_20567640_C_T chr12_20789876_A_G rs7968295 kgp19105879 rs11045392 rs1515777 rs953001 rs953001 kgp12462330 rs1515767 rs4149117 rs3764006 rs11045599 rs7978289 rs35165880 rs73241802 rs327553 rs4149015 rs4149019 rs7489119 rs11045797 rs61760183 kgp11428244 rs11045819 rs77271279 rs4149047 rs4149047 rs4149047 kgp9966434 rs991262 rs79109623 kgp19043658 kgp18770558 rs4149081 kgp5537934 kgp18926732 kgp19044065

genotype difference Col_12_IF Col_16_TS Col_08_IF Col_38_CB Col_12_IF Col_33_CB Col_12_TS Col_33_IF Col_52_CB Col_33_IF Col_33_CB Col_33_CB Col_33_IF Col_52_IF Col_08_TS Col_33_IF Col_33_IF Col_16_IF Col_33_CB Col_12_CB Col_52_IF Col_52_CB Col_45_IF Col_33_IF Col_33_IF Col_16_IF Col_59_TS Col_33_IF Col_33_IF Col_34_TS Col_12_CB Col_33_IF Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_34_CB Col_33_IF Col_33_IF Col_52_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_CB Col_52_CB Col_16_IF Col_38_CB Col_59_TS Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_52_IF Col_52_CB

RI PT


Marker ID

413

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT TOP BOT BOT TOP BOT BOT MINUS MINUS TOP BOT TOP TOP TOP TOP BOT TOP BOT TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT TOP BOT TOP BOT BOT BOT BOT TOP

[A/G] [A/C] [A/C] [T/C] [A/C] [A/C] [G/C] [G/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/C] [T/G] [G/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [D/I] [D/I] [A/G] [T/C] [A/T] [A/T] [A/C] [A/G] [T/C] [A/T] [G/C] [A/G] [A/C] [T/C] [A/G] [A/C] [A/G] [T/C] [T/G] [T/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [A/C]

12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12

21422065 21422253 21422253 21422319 21422479 21422479 21422492 21422492 21424137 21424137 21428307 21447997 21454479 21454479 21482481 21482481 21487585 21532138 21532547 21536131 21547875 21601631 21633036 21669650 21697874 21930006 21930006 21990203 21999863 22022055 22022055 22024093 22044210 22063889 22120468 22322265 22323799 22366655 22371846 22389474 22391550 22476044 22525876 22647180 22793049 22812994 22855003 22857819 22912346 22985151 23049458 23049458 23071644 23110071 23273114 23277758 23530049 23586861 23586861 23608155

SC

M AN U

TE D

kgp7508010 rs11045919 rs11045919 kgp19038348 kgp18889098 kgp18889098 rs11568557 rs11568557 rs10841782 rs10841782 kgp7951664 chr12_21447997_C_T rs11832851 rs11832851 rs4148987 rs4148987 kgp27829502 rs1056007 kgp6443294 rs4762700 kgp9637906 chr12_21601631_A_G rs2192170 rs10770818 chr12_21697874_A_G chr12_21930006_AAAATAATAAG_INDEL chr12_21930006_AAAATAATAAG_INDEL chr12_21990203_C_T rs829080 chr12_22022055_A_T chr12_22022055_A_T rs4148669 rs2032775 rs72559752 chr12_22120468_A_T chr12_22322265_C_G rs7968102 rs2268858 rs12823181 rs2268861 rs1155392 rs2728827 rs7308839 chr12_22647180_A_C chr12_22793049_G_T chr12_22812994_A_G chr12_22855003_A_G rs11614577 rs10842063 rs17175003 chr12_23049458_A_G chr12_23049458_A_G rs2467112 rs12312519 rs16925818 rs10743457 chr12_23530049_C_T chr12_23586861_C_T chr12_23586861_C_T rs7310711

genotype difference Col_12_IF Col_45_IF Col_52_IF Col_33_IF Col_16_TS Col_52_IF Col_33_IF Col_12_CB Col_34_IF Col_52_IF Col_52_CB Col_16_TS Col_38_TS Col_52_IF Col_34_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_CB Col_38_CB Col_33_IF Col_34_IF Col_34_CB Col_16_IF Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_33_TS Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_16_TS Col_33_IF Col_52_IF Col_33_IF Col_33_CB Col_52_IF Col_33_CB

RI PT


Marker ID

414

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP BOT TOP TOP BOT BOT TOP TOP BOT BOT BOT TOP TOP BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT TOP TOP BOT TOP BOT TOP BOT TOP BOT BOT TOP TOP TOP

[A/G] [A/G] [A/G] [A/G] [A/G] [C/G] [T/C] [A/G] [A/G] [A/C] [T/C] [A/G] [A/G] [T/G] [T/G] [A/G] [A/G] [T/C] [T/G] [T/G] [C/G] [C/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [A/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/C] [T/C] [T/C] [T/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/G] [A/G] [T/C] [C/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/C] [A/G]

12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12

23666839 23674257 23737566 23746430 23801976 23808644 23817842 23826272 23836100 24044286 24075508 24106802 24190642 24195419 24195419 24210719 24260932 24392893 24432497 24441358 24454528 24454528 24481461 24488865 24550258 24657547 24792818 24798175 24900271 24970588 25130599 25130793 25130793 25182403 25190791 25362777 25449557 25507704 25518527 25535059 25546839 25551695 25600369 25600369 25613802 25623972 25696218 25827768 26222768 26224846 26385611 26406081 26554780 26580124 26591057 26623955 26636386 26732987 26854487 26959504

SC

M AN U TE D

AC C

EP

rs7295838 rs10842176 rs11046992 rs6487350 rs1479446 chr12_23808644_C_G rs10771016 chr12_23826272_A_G chr12_23836100_C_T rs4439603 chr12_24075508_A_G rs4246220 rs10505929 rs12826060 rs12826060 rs11047241 rs10734732 rs884441 rs10842311 rs10842315 rs518576 rs518576 rs10842327 rs775012 chr12_24550258_C_T rs7295036 rs4554985 rs7953698 chr12_24900271_A_C rs2200509 chr12_25130599_C_T chr12_25130793_C_T chr12_25130793_C_T rs10771158 rs859202 rs17473423 rs4281557 chr12_25507704_A_G rs7953410 rs11047987 rs11047992 chr12_25551695_C_T chr12_25600369_A_G chr12_25600369_A_G chr12_25613802_A_G rs11048057 rs2666789 rs1397603 rs10129050 rs10842663 chr12_26385611_A_G rs1464054 chr12_26554780_C_G rs12426143 rs7136153 rs9738098 rs2306677 rs2230376 rs7310913 chr12_26959504_A_G

genotype difference Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_16_IF Col_33_IF Col_33_IF Col_52_IF Col_59_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_34_CB Col_59_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_12_CB Col_52_IF Col_34_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_08_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

415

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT TOP PLUS BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT MINUS MINUS BOT PLUS TOP BOT BOT BOT TOP BOT BOT BOT BOT

[A/G] [A/G] [T/G] [T/C] [T/G] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/C] [A/G] [A/G] [A/T] [T/C] [A/G] [T/C] [T/C] [T/A] [T/G] [T/C] [A/G] [D/I] [T/C] [T/C] [T/C] [T/A] [T/C] [T/C] [T/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [I/D] [D/I] [T/C] [D/I] [C/G] [T/G] [T/G] [T/G] [C/G] [T/C] [G/C] [T/G] [T/C]

12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12

27111321 27199180 27236285 27371379 27373096 27425366 27501679 27529219 27592842 27592842 27715713 27733836 27746753 27800446 27819463 27828608 27902194 27902194 27902194 27902194 27949283 27995047 28119561 28134344 28152648 28165457 28167601 28167635 28172545 28188247 28189501 28190652 28247540 28252090 28269834 28272301 28272301 28279576 28283351 28283557 28331694 28333108 28345395 28349057 28349594 28357691 28408365 28418566 28423057 28443772 28451671 28470847 28475045 28475045 28475045 28517852 28537110 28543151 28544644 28564261

SC

M AN U TE D

AC C

EP

rs840896 rs1388659 rs10842851 kgp4056812 kgp7793639 rs10771328 rs4964053 rs4964059 rs12297276 rs12297276 chr12_27715713_A_G chr12_27733836_A_G rs3751229 chr12_27800446_C_T chr12_27819463_A_G chr12_27828608_A_G chr12_27902194_C_T chr12_27902194_C_T chr12_27902194_C_T chr12_27902194_C_T chr12_27949283_C_T rs11049193 rs997200 chr12_28134344_C_T chr12_28152648_A_T rs2619434 chr12_28167601_A_G chr12_28167635_A_G chr12_28172545_A_G rs7968338 chr12_28189501_A_C chr12_28190652_A_G chr12_28247540_A_G chr12_28252090_G_INDEL chr12_28269834_A_G chr12_28272301_A_G chr12_28272301_A_G chr12_28279576_A_T chr12_28283351_C_T chr12_28283557_C_T rs1551987 chr12_28333108_C_T chr12_28345395_A_G rs34378873 chr12_28349594_A_G chr12_28357691_A_G chr12_28408365_A_G chr12_28418566_INDEL_T chr12_28423057_G_INDEL chr12_28443772_A_G chr12_28451671_C_INDEL chr12_28470847_C_G rs7295132 rs7295132 rs7295132 chr12_28517852_C_G rs10506032 chr12_28543151_C_G chr12_28544644_G_T chr12_28564261_A_G

genotype difference Col_38_CB Col_33_CB Col_33_IF Col_52_CB Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_34_TS Col_33_IF Col_52_CB Col_12_CB Col_52_CB Col_33_IF Col_52_CB Col_16_CB Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_34_TS Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_45_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_38_TS Col_52_TS Col_33_IF Col_16_TS Col_52_CB Col_16_IF Col_52_CB Col_52_CB Col_34_CB Col_52_IF Col_34_IF Col_33_IF Col_52_IF Col_16_TS Col_38_IF Col_52_TS Col_16_IF Col_38_CB Col_45_CB Col_34_IF Col_45_IF Col_34_CB Col_33_IF Col_52_IF

RI PT


Marker ID

416

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP BOT TOP BOT TOP TOP BOT TOP BOT BOT BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT BOT TOP BOT TOP BOT BOT TOP BOT TOP TOP BOT BOT TOP BOT TOP TOP BOT TOP TOP TOP BOT BOT TOP BOT TOP BOT TOP TOP

[T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/C] [A/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [A/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/G] [A/C] [T/C] [C/G] [T/C] [T/A] [A/C] [T/C] [A/G] [A/G] [T/G] [T/G] [A/G] [G/C] [A/G] [A/G] [T/C] [A/G] [A/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G]

12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12

28584962 28624093 28627245 28627245 28628452 28633435 28635854 28637595 28637595 28649071 28688644 28957623 29100629 29100629 29113888 29200201 29345880 29576517 29576517 29788143 29945185 29999299 30097843 30097843 30384308 30395940 30398957 30399829 30399829 30474937 30550181 30706597 30938922 31013127 31134302 32056055 32056577 32135186 32156306 32223555 32263042 32263042 32289655 32289655 32380949 32395897 32428175 32428175 32438757 32459508 32468481 32476727 32531220 32533730 32535100 32543325 32689580 32723323 32748917 32791460

SC

M AN U TE D

AC C

EP

rs78818241 chr12_28624093_A_G chr12_28627245_C_T chr12_28627245_C_T chr12_28628452_C_T chr12_28633435_A_G chr12_28635854_A_G chr12_28637595_A_C chr12_28637595_A_C chr12_28649071_A_G chr12_28688644_A_G chr12_28957623_A_G rs11049939 rs11049939 chr12_29113888_A_C rs7132376 rs11830434 rs2042512 rs2042512 rs11050332 corect_rs117909055 rs16934976 rs7958129 rs7958129 rs1485420 rs1038489 rs17461559 rs7295563 rs7295563 rs4032080 rs16906347 rs1258275 rs1485354 chr12_31013127_A_C rs4931403 rs12320118 rs7298353 rs3759302 rs7296677 rs16919225 rs12229250 rs12229250 rs76597494 rs76597494 rs12579433 rs11612914 rs78623345 rs78623345 rs813784 rs2593993 rs1239608 rs261902 rs12229856 rs10844194 rs1872829 rs56670459 rs7967302 rs6488066 chr12_32748917_A_G corect_rs117293129

genotype difference Col_33_IF Col_52_TS Col_33_IF Col_38_TS Col_38_CB Col_34_IF Col_16_IF Col_16_IF Col_52_IF Col_45_IF Col_34_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_52_TS Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_IF Col_33_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_38_CB Col_52_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_52_CB Col_33_IF

RI PT


Marker ID

417

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP BOT TOP TOP TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT TOP BOT TOP BOT TOP TOP TOP BOT TOP TOP BOT TOP TOP PLUS PLUS TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP BOT BOT TOP BOT BOT TOP BOT BOT BOT

[T/C] [T/C] [A/C] [T/C] [A/G] [A/C] [A/G] [A/C] [G/C] [A/G] [A/G] [A/G] [T/G] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/C] [T/C] [A/C] [A/C] [A/C] [T/C] [A/C] [A/G] [T/C] [A/G] [A/G] [I/D] [I/D] [A/G] [A/G] [A/G] [A/G] [G/C] [G/C] [A/G] [A/G] [A/G] [A/G] [T/G] [T/C] [A/G] [A/T] [A/G] [T/G] [A/G] [T/C] [T/C] [A/G] [T/G] [T/G] [A/G] [T/C] [T/G] [T/C]

12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12

32803972 33138186 33210552 33236418 33270199 33405314 33405354 33458768 33504845 33553199 33559524 33706521 34036902 34078260 34106380 34106380 34460029 34645749 34647171 34704005 38132172 38347638 38416139 38432009 38495012 38495012 38497511 38588392 38647828 38653605 38762141 38767793 38941082 38941082 39065064 39070576 39130885 39159441 39215652 39215652 39238430 39238430 39373975 39376685 39435183 39568650 39581433 39636815 39709378 39806171 39967854 40012297 40034699 40042940 40236092 40238469 40277086 40321846 40440483 40441494

SC

M AN U TE D

AC C

EP

chr12_32803972_C_T chr12_33138186_C_T rs12817273 rs7957719 chr12_33270199_C_T rs1457665 rs1840971 rs13377955 chr12_33504845_C_G rs10844579 rs2389197 chr12_33706521_A_G kgp2412053 chr12_34078260_A_C rs814662 rs814662 rs11053208 kgp18810869 kgp9427032 rs9705952 rs1733410 rs8186746 rs1589390 rs1915393 chr12_38495012_G_T chr12_38495012_G_T rs75864119 rs11182667 rs1601745 rs1906262 rs7976308 chr12_38767793_C_T chr12_38941083_INDEL_T chr12_38941083_INDEL_T rs10875959 rs10783318 rs1352122 rs1719833 rs12424244 rs12424244 rs35792180 rs35792180 chr12_39373975_A_G rs7958118 rs1375797 chr12_39568650_A_G chr12_39581433_A_G rs4534622 chr12_39709378_C_T rs7980532 chr12_39967854_C_T rs10877201 chr12_40034699_A_G chr12_40042940_C_T rs4293188 chr12_40238469_A_C rs12310523 rs6581439 rs11174928 corect_rs149009274

genotype difference Col_33_IF Col_33_IF Col_12_CB Col_52_CB Col_12_CB Col_33_CB Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_52_CB Col_33_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_08_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_08_IF Col_16_IF Col_33_IF Col_34_IF Col_33_CB Col_16_TS Col_12_IF Col_33_IF Col_33_IF Col_52_CB Col_52_IF Col_33_IF Col_52_CB Col_16_IF Col_38_TS Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_33_IF

RI PT


Marker ID

418

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP TOP BOT

[T/C] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/C] [A/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/G] [A/G] [A/G] [A/T] [T/C] [T/C] [T/G] [T/G] [A/C] [A/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/G] [T/C] [G/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/A]

12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12

40481823 40489084 40527395 40684692 40738097 40745181 40758291 40929743 41085726 41313575 41313575 41366155 41387812 41387812 41412212 41462234 41561374 41685271 41693838 41700764 41807859 41885680 41895813 41921665 41921665 42013167 42022186 42183271 42291928 42475888 42481732 42566106 42770289 43018709 43085286 43122944 43164112 43427308 43445003 43532973 43532973 43731526 43731526 43731526 43747549 43747549 43755048 43755048 43926132 43933271 44002268 44110564 44238903 44317599 44468877 44579133 44579133 44579133 44579133 44583545

SC

M AN U TE D

AC C

EP

chr12_40481823_C_T chr12_40489084_G_T rs1031996 chr12_40684692_A_G chr12_40738097_C_T rs7307310 rs10878434 chr12_40929743_C_T rs12231964 rs10879360 rs10879360 rs10879443 chr12_41387812_C_T chr12_41387812_C_T rs17624000 rs166806 rs11180092 rs7304429 rs7134405 rs7296503 rs1598893 rs1458158 chr12_41895813_A_G chr12_41921665_A_G chr12_41921665_A_G rs287044 rs286996 rs7132979 rs11181232 rs3229 rs7972986 chr12_42566106_G_T rs60092462 rs7296915 chr12_43085286_A_T rs61926680 rs1878578 rs12315706 chr12_43445003_A_C corect_rs117746300 corect_rs117746300 rs4601844 rs4601844 rs4601844 rs11612738 rs11612738 rs10880471 rs10880471 rs7960952 chr12_43933271_G_T rs277241 chr12_44110564_C_G rs7965635 rs11182332 chr12_44468877_A_G rs17094187 rs17094187 rs17094187 rs17094187 chr12_44583545_A_T

genotype difference Col_16_TS Col_52_TS Col_33_IF Col_12_CB Col_38_IF Col_33_IF Col_52_IF Col_33_CB Col_33_IF Col_33_IF Col_38_CB Col_38_CB Col_34_TS Col_12_IF Col_33_IF Col_52_TS Col_33_IF Col_38_CB Col_16_IF Col_12_CB Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_38_TS Col_45_IF Col_38_IF Col_52_IF Col_52_IF Col_12_CB Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_16_IF Col_38_TS Col_52_IF Col_12_IF Col_33_IF

RI PT


Marker ID

419

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP BOT MINUS MINUS TOP TOP BOT TOP TOP BOT TOP BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP TOP MINUS TOP MINUS BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP PLUS TOP BOT BOT TOP

[T/C] [T/C] [A/G] [A/G] [T/G] [T/G] [T/G] [T/C] [A/G] [T/C] [A/C] [A/G] [T/C] [D/I] [D/I] [A/G] [A/C] [T/C] [A/G] [A/G] [T/C] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/A] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [G/C] [A/G] [A/G] [I/D] [A/G] [I/D] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [T/C] [A/G] [A/G] [A/G] [A/G] [D/I] [A/G] [T/C] [T/G] [A/G]

12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12

44729627 44729627 44854404 44886633 45035350 45035350 45035350 45040446 45353679 45525711 45655064 45691823 46000924 46152009 46152009 46345447 46516129 46578010 46995847 47265408 47326293 47355169 47378610 47631229 47758618 47789577 47814159 48119955 48288246 48309855 48319920 48330941 48477197 48761096 48761096 48774568 48927541 49125564 49314917 49335656 49335656 49383555 49525884 49591277 49600610 49600610 49626490 49645240 49669475 49753219 49756665 49762399 49797468 49840480 49899635 49925928 49934565 50142463 50165690 50247468

SC

M AN U

TE D

chr12_44729627_A_G chr12_44729627_A_G rs1493749 rs17094695 rs7295303 rs7295303 rs7295303 rs966383 chr12_45353679_C_T rs2058973 rs4768085 chr12_45691823_C_T rs7958336 chr12_46152009_INDEL_TAAG chr12_46152009_INDEL_TAAG exm996752 rs10880923 rs3742057 chr12_46995847_C_T rs75512042 chr12_47326293_C_T chr12_47355169_G_T rs12830652 rs2140842 chr12_47758618_A_G chr12_47789577_C_T rs2521979 rs7306680 chr12_48288246_A_G rs12827401 rs11168308 chr12_48330941_A_G rs886589 chr12_48761096_A_G chr12_48761096_A_G corect_rs150701086 rs4409884 chr12_49125564_C_T rs79263537 rs11831294 rs11831294 chr12_49383555_A_INDEL chr12_49525884_A_G chr12_49591277_A_INDEL chr12_49600610_C_T chr12_49600610_C_T chr12_49626490_C_T rs11168936 chr12_49669475_C_T chr12_49753219_G_T chr12_49756665_C_T chr12_49762399_A_G rs76969526 chr12_49840480_A_G chr12_49899635_C_T rs67001009 rs7132792 chr12_50142463_A_G rs17123981 rs7138803

genotype difference Col_34_IF Col_52_IF Col_33_IF Col_33_CB Col_08_TS Col_16_TS Col_38_TS Col_33_IF Col_33_IF Col_16_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_45_IF Col_33_CB Col_52_TS Col_34_CB Col_12_CB Col_33_IF Col_38_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_52_CB Col_52_CB Col_33_IF Col_52_CB Col_52_IF Col_12_CB Col_33_IF Col_52_CB

RI PT


Marker ID

420

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP BOT BOT TOP BOT TOP TOP BOT TOP BOT BOT BOT BOT MINUS TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP MINUS BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT TOP TOP BOT BOT BOT

[A/G] [A/G] [T/C] [T/C] [A/G] [T/G] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [G/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [A/T] [T/C] [A/G] [T/C] [T/C] [T/C] [T/A] [I/D] [A/G] [T/C] [T/C] [G/C] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [A/G] [D/I] [T/C] [T/C] [T/A] [T/C] [T/C] [A/C] [A/C] [T/C] [T/G] [A/G] [A/G] [T/G] [A/C] [A/G] [T/G] [T/C] [T/C]

12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12

50305007 50539589 50569262 50723993 50757473 50763484 50817150 50821551 50907258 50952366 51004109 51036840 51070554 51159225 51232615 51247815 51284104 51475353 51481215 51621910 51982903 52113943 52704025 52759239 52793483 52846090 52880956 52881261 52881363 52906586 52907240 52907595 53048094 53133568 53134695 53184559 53273779 53273779 53273779 53273779 53276433 53652885 53733540 53990206 53990206 54164553 55258470 55395712 55416041 55416041 55573754 55611060 55617387 55617387 55732963 55845415 55991108 55999747 56115585 57046990

SC

M AN U TE D

AC C

EP

rs394119 rs12819192 rs74493606 rs7489214 chr12_50757473_A_G rs10876027 rs73111692 chr12_50821551_G_T chr12_50907258_A_G rs76562384 rs10876071 rs9788159 rs10506294 chr12_51159225_C_G rs1659375 rs1101404 rs10876110 rs2018022 rs7953867 rs10783424 chr12_51982903_A_T rs501324 chr12_52704025_A_G chr12_52759239_A_G chr12_52793483_C_T chr12_52846090_C_T chr12_52880956_A_T chr12_52881261_AA_INDEL chr12_52881363_C_T chr12_52906586_A_G chr12_52907240_C_T chr12_52907595_C_G c12_pos51334361 chr12_53133568_C_T rs7969242 chr12_53184559_C_T chr12_53273779_A_G chr12_53273779_A_G chr12_53273779_A_G chr12_53273779_A_G chr12_53276433_G_T chr12_53652885_C_T chr12_53733540_C_INDEL chr12_53990206_C_T chr12_53990206_C_T chr12_54164553_A_T rs17116487 rs7315993 rs1532833 rs1532833 rs11171358 rs1871261 rs11171375 rs11171375 rs7955088 rs7952853 chr12_55991108_C_T rs12371123 rs3138142 chr12_57046990_C_T

genotype difference Col_52_CB Col_33_IF Col_33_IF Col_08_TS Col_38_TS Col_12_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_38_CB Col_45_TS Col_33_IF Col_16_IF Col_33_IF Col_38_CB Col_45_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_16_TS Col_33_IF Col_52_CB Col_52_CB Col_16_TS Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF

RI PT


Marker ID

421

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT BOT TOP TOP BOT TOP TOP BOT TOP BOT BOT BOT TOP BOT TOP BOT BOT BOT TOP BOT BOT BOT TOP TOP BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT TOP TOP BOT BOT TOP BOT BOT TOP BOT BOT BOT TOP TOP

[A/G] [A/T] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/C] [T/G] [T/C] [T/C] [A/C] [A/G] [T/G] [T/G] [T/C] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/G] [A/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G]

12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12

57266313 57753793 58361983 58417789 58417789 58438953 58569801 58767649 58842262 58862091 58876634 58894819 58903669 59276930 59284850 59348088 59412604 59597122 59609889 59681417 59731901 59735221 59765665 59951456 60180948 60180948 60239632 60244639 60338155 60338155 60459370 60508714 60613910 60614110 60739674 60807261 60823755 60829905 61034074 61252528 61304925 61304925 61304925 61316609 61320899 61329639 61411190 61469224 61525036 61586973 61604963 61672165 61697371 61708116 61756110 61798905 61831876 61861337 61893566 61965946

SC

M AN U TE D

AC C

EP

rs10783807 corect_rs187096571 chr12_58361983_A_G rs10506392 rs10506392 rs1506884 rs17120420 chr12_58767649_C_T rs11612018 rs2355002 rs4366530 kgp10942422 chr12_58903669_A_G rs4142996 rs13377741 rs12368752 chr12_59412604_A_C rs12298411 chr12_59609889_A_G rs7963299 rs10877263 rs7959955 chr12_59765665_A_C rs274459 rs17123031 rs17123031 rs12049994 rs10431559 chr12_60338155_G_T chr12_60338155_G_T rs7297578 rs7137335 rs7962272 kgp12139113 rs11173416 chr12_60807261_C_T rs7978392 rs4451769 rs2654657 rs7299650 rs11173664 rs11173664 rs11173664 chr12_61316609_A_G rs1383188 rs7136522 chr12_61411190_C_T rs2659810 rs7972458 rs1395538 rs10784186 rs7963956 chr12_61697371_A_G rs7979835 rs10747930 rs2971181 chr12_61831876_A_G rs11174030 rs1901887 rs11174080

genotype difference Col_33_IF Col_52_CB Col_33_IF Col_34_TS Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_33_CB Col_52_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_34_TS Col_52_CB Col_52_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_38_IF Col_45_CB Col_38_TS Col_52_CB Col_33_IF Col_12_CB Col_59_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_52_IF Col_08_TS Col_38_TS Col_12_TS Col_33_IF Col_38_TS Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF

RI PT


Marker ID

422

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT TOP TOP BOT TOP TOP TOP TOP BOT BOT TOP TOP BOT TOP BOT BOT MINUS MINUS MINUS BOT MINUS TOP BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP

[A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/G] [A/C] [T/C] [T/C] [A/T] [A/C] [A/G] [A/C] [T/C] [T/C] [T/C] [A/C] [T/G] [T/G] [A/G] [A/G] [T/C] [A/G] [A/C] [A/G] [A/G] [T/A] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [D/I] [D/I] [D/I] [T/C] [D/I] [A/C] [T/C] [A/G] [T/A] [A/G] [A/T] [A/G] [A/G] [T/G] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/C]

12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12

62229333 62261410 62269717 62271118 62271118 62297301 62406171 62447532 62455711 62525828 62552919 62552919 62555841 62567495 62592104 62885703 62919453 62928633 63456041 63503650 63613005 63705922 63849115 63849115 64062979 64088345 64168113 64231636 64254533 64340767 64627059 64915197 64984369 64992436 65091031 65102065 65102065 65438289 65438289 65438289 65454614 65494882 65534624 65543135 65548587 65708328 66170639 66225004 66252294 66698895 66797353 66816139 66945123 67119704 67171039 67171039 67171039 67249238 67281200 67391409

SC

M AN U TE D

AC C

EP

chr12_62229333_A_G rs3759287 rs4763175 rs10877755 rs10877755 rs12582688 rs1732362 rs348631 rs348660 rs1245438 rs1358706 rs1358706 rs1920099 rs7973394 rs3759290 chr12_62885703_A_C rs7136696 rs10219555 rs3913038 rs4547160 rs10878007 rs1840662 rs11174984 rs11174984 chr12_64062979_A_G rs4107159 rs1983148 chr12_64231636_A_G chr12_64254533_C_T chr12_64340767_A_T rs1657050 rs1317533 rs1520765 rs1079470 chr12_65091031_A_G rs1147100 rs1147100 chr12_65438289_C_INDEL chr12_65438289_C_INDEL chr12_65438289_C_INDEL chr12_65454614_C_T chr12_65494882_ATG_INDEL rs6581612 rs7975588 rs12424237 chr12_65708328_A_T chr12_66170639_A_G rs71450831 rs189339 rs4430553 rs7307368 rs10748045 rs10878450 rs4506729 chr12_67171039_A_G chr12_67171039_A_G chr12_67171039_A_G chr12_67249238_A_G chr12_67281200_A_G rs17103134

genotype difference Col_33_IF Col_12_IF Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_12_IF Col_12_CB Col_52_CB Col_12_IF Col_16_IF Col_52_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_CB Col_38_CB Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_16_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_38_IF Col_33_CB Col_38_IF Col_52_TS Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_38_CB Col_16_TS Col_38_TS Col_45_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

423

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP TOP BOT TOP MINUS BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP

[T/C] [A/G] [A/G] [A/C] [A/G] [T/C] [A/G] [I/D] [T/G] [T/G] [A/C] [A/C] [T/G] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [T/C] [T/C] [T/G] [T/G] [A/G] [A/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [A/G] [T/C] [T/G] [T/C] [T/C] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G]

12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12

67404872 67497102 67956004 68005058 68183273 68195319 68447643 68533794 68534441 68534441 68876787 68876787 68877237 69128684 69175793 69198112 69340369 69566855 69577933 69757429 69901232 70195293 70195293 70225778 70350469 70427865 70635597 70757341 70775326 70779714 70805198 70806551 70819638 70837122 70905258 71036390 71142539 71167528 71192128 71280849 71322921 71352965 71387093 71622449 71832246 72179072 72227777 72286116 72500765 72568585 72568585 72598602 72628575 72652615 72761594 72761594 72815932 72935584 72985977 72997779

SC

M AN U TE D

AC C

EP

rs12316091 rs7962241 chr12_67956004_C_T rs2700104 rs17104382 rs10878663 rs10878735 chr12_68533795_A_INDEL chr12_68534441_A_C chr12_68534441_A_C chr12_68876787_A_C chr12_68876787_A_C rs2160891 rs74839420 rs11177370 rs2088578 rs3906871 rs7956759 rs12829970 rs6581889 rs10878997 rs10879014 rs10879014 rs1240252 rs10879063 rs10879076 rs3759152 rs10784838 rs1691580 rs710664 rs11178229 rs10879135 rs11178234 rs7138344 rs417988 rs1867006 chr12_71142539_C_T rs7297717 rs10879198 rs4332610 rs10879220 rs79997242 rs10784885 rs1606057 rs11178795 rs328739 rs328759 rs7309856 rs73146385 chr12_72568585_A_G chr12_72568585_A_G rs10784953 chr12_72628575_C_T rs11179133 rs725409 rs725409 rs1348576 chr12_72935584_C_T rs1214903 rs7969680

genotype difference Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_34_CB Col_52_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_34_TS Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_52_IF Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_12_CB Col_08_CB Col_33_IF Col_52_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_38_CB Col_33_IF Col_12_IF Col_33_IF Col_33_CB Col_52_TS Col_33_IF Col_38_TS Col_33_IF Col_33_IF

RI PT


Marker ID

424

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP MINUS BOT TOP BOT BOT TOP BOT TOP BOT BOT PLUS TOP TOP TOP BOT TOP BOT BOT TOP BOT TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP BOT TOP BOT TOP TOP BOT BOT

[A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [A/G] [D/I] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [D/I] [A/G] [A/G] [A/G] [T/C] [C/G] [T/C] [T/C] [A/G] [T/C] [A/T] [T/C] [T/C] [T/C] [A/G] [A/C] [C/G] [T/C] [T/C] [T/G] [T/C] [T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/C] [T/G] [A/G] [T/C] [A/C] [A/G] [T/C] [T/C]

12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12

73070546 73198428 73405043 73423998 73491174 73497747 73502964 73502964 73585986 73697262 73865029 74027462 74087808 74360904 74382356 74402900 74528830 74681898 74742590 74749858 74888100 74986008 75014962 75102770 75127315 75162157 75162157 75195244 75318512 75556254 75590378 75819844 75925776 75980260 76096630 76133475 76279317 76293660 76313528 76396371 76413494 76420006 76518531 76604910 76699126 77031759 77405194 77405194 77405194 77417344 77478048 77501909 77591349 77591416 77892859 78107519 78152522 78253891 78315081 78315081

SC

M AN U TE D

AC C

EP

chr12_73070546_A_G rs7302677 rs11179503 rs10879537 rs11179541 rs1878121 rs10879550 rs10879550 rs17112102 rs1159109 chr12_73865029_A_G rs1899686 rs7964120 chr12_74360904_INDEL_TC chr12_74382356_C_T rs12817026 kgp12212205 rs10128762 rs73352823 rs1834670 rs10879792 rs631620 rs2172600 chr12_75102770_C_INDEL rs7300216 rs7965596 rs7965596 rs11180235 chr12_75318512_C_G rs1458621 rs2471645 rs10785190 rs10879928 chr12_75980260_A_T rs11180644 rs7976295 chr12_76279317_C_T rs11180738 rs4334090 chr12_76396371_C_G rs7297654 chr12_76420006_C_T rs12229914 chr12_76604910_C_T rs7977224 chr12_77031759_A_C chr12_77405194_C_T chr12_77405194_C_T chr12_77405194_C_T rs2279575 chr12_77478048_A_G rs11117132 rs11104156 rs10858504 rs11105445 rs797431 chr12_78152522_A_C rs11615513 rs1920428 rs1920428

genotype difference Col_33_IF Col_12_CB Col_33_IF Col_45_IF Col_33_IF Col_33_IF Col_38_TS Col_52_IF Col_33_IF Col_33_IF Col_16_TS Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_12_IF Col_45_IF Col_52_IF Col_59_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_52_CB Col_33_CB Col_12_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_52_IF Col_33_IF Col_08_IF Col_16_IF Col_12_IF Col_16_TS Col_33_IF Col_12_CB Col_16_TS Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_34_TS Col_08_CB Col_52_CB

RI PT


Marker ID

425

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP PLUS PLUS PLUS PLUS PLUS TOP TOP MINUS MINUS BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT BOT PLUS PLUS TOP TOP

[A/G] [A/T] [A/G] [T/G] [T/G] [T/A] [T/C] [T/C] [T/C] [A/G] [A/G] [I/D] [I/D] [I/D] [I/D] [I/D] [A/C] [A/G] [D/I] [D/I] [T/A] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/C] [A/G] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [I/D] [I/D] [A/G] [A/G]

12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12

78528052 78564772 78618563 78728727 78776371 78822041 78894384 78958896 78988996 78992140 78992140 79039135 79039135 79039135 79039135 79039135 79293986 79432941 79499681 79499681 79511492 79728867 79951566 80108416 80121079 80324801 80691747 80714040 80750659 80771734 80772603 80826187 80943669 80951301 80951301 80951301 81035063 81062958 81088023 81140284 81145811 81146954 81266363 81432884 81530779 81536273 81588174 81588174 81588174 81588174 81594930 81628459 81784609 81879276 81908189 81952609 82014211 82014211 82091713 82236828

SC

M AN U TE D

AC C

EP

rs1471237 chr12_78564772_A_T rs1527094 rs10506781 rs985830 rs7962938 rs1521388 rs1357096 rs11615894 rs17254816 rs17254816 chr12_79039136_INDEL_T chr12_79039136_INDEL_T chr12_79039136_INDEL_T chr12_79039136_INDEL_T chr12_79039136_INDEL_T chr12_79293986_A_C rs7294674 chr12_79499681_AG_INDEL chr12_79499681_AG_INDEL chr12_79511492_A_T chr12_79728867_C_T rs4842266 rs711159 rs11114233 rs7296839 rs11114391 chr12_80714040_C_T rs11836060 exm1023982 rs12298202 rs11114439 rs1358476 chr12_80951301_A_G chr12_80951301_A_G chr12_80951301_A_G rs10862177 rs11114558 rs1163285 rs1305281 rs2464135 chr12_81146954_A_G rs1920990 rs6539544 rs2574730 chr12_81536273_G_T rs7956603 rs7956603 rs7956603 rs7956603 rs6539563 corect_rs113520441 rs7970434 chr12_81879276_C_T rs12819442 rs12230030 chr12_82014212_INDEL_T chr12_82014212_INDEL_T chr12_82091713_C_T rs7955253

genotype difference Col_33_IF Col_16_TS Col_33_CB Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_08_IF Col_16_IF Col_34_TS Col_52_CB Col_59_TS Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_52_IF Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_08_CB Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_IF Col_38_CB Col_59_TS Col_12_IF Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_38_TS Col_38_CB Col_52_IF Col_33_IF Col_33_IF

RI PT


Marker ID

426

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP BOT TOP BOT TOP BOT TOP BOT TOP BOT TOP TOP BOT TOP TOP TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT TOP MINUS TOP TOP TOP TOP TOP TOP BOT BOT

[A/G] [T/C] [T/C] [A/G] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/C] [A/G] [A/C] [T/A] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [A/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/G] [T/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [A/G] [A/C] [A/C] [A/G] [T/C] [A/G] [D/I] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C]

12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12

82323580 82336601 82337275 82342596 82395279 82426466 82430283 82434628 82479348 82543274 82570025 82591896 82611844 82611844 82992478 83219757 83239281 83360445 83370404 83475171 83693021 83744519 83788931 83854627 83905113 84132842 84155936 84206503 84215246 84245400 84354367 84356791 84444037 84444037 84477383 84570410 84834124 84928412 85012448 85024528 85024528 85095731 85218850 85365651 85377870 85554497 85973023 86000290 86031486 86064697 86071858 86165253 86177763 86201997 86308791 86372270 86372270 86372270 86813440 86813440

SC

M AN U TE D

AC C

EP

corect_rs118075332 chr12_82336601_A_G rs7299713 chr12_82342596_A_G rs11829752 rs11115162 rs959275 rs2256274 rs10778860 rs1986437 chr12_82570025_C_T rs4319581 chr12_82611844_C_T chr12_82611844_C_T rs12425854 chr12_83219757_G_T chr12_83239281_A_G chr12_83360445_G_T chr12_83370404_A_T rs11115570 chr12_83693021_C_T rs7980737 chr12_83788931_A_G rs4084722 rs964846 chr12_84132842_A_G rs7307897 rs17813210 rs10779048 rs11116073 rs10862804 rs12823001 rs11116180 rs11116180 rs10746307 rs7970932 rs17041890 chr12_84928412_A_G rs12231402 chr12_85024528_C_T chr12_85024528_C_T rs4630338 rs4761100 chr12_85365651_A_C rs12309229 variant.26272 rs11116898 rs2169573 rs9651976 rs6539905 chr12_86071858_C_T chr12_86165254_C_INDEL rs4131243 chr12_86201997_C_T rs7970008 rs7300102 rs7300102 rs7300102 rs17014005 rs17014005

genotype difference Col_12_CB Col_33_IF Col_38_IF Col_52_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_34_TS Col_33_CB Col_52_IF Col_38_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_12_TS Col_33_CB Col_52_CB Col_12_CB Col_16_IF Col_52_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_52_CB Col_16_IF Col_33_IF Col_33_IF Col_38_IF Col_12_CB Col_16_IF Col_34_TS Col_52_IF Col_33_IF Col_12_CB

RI PT


Marker ID

427

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP PLUS BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT BOT TOP BOT TOP BOT BOT TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT TOP TOP BOT TOP TOP BOT BOT

[T/C] [T/C] [A/G] [T/G] [T/C] [A/G] [A/T] [A/G] [A/G] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [D/I] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/C] [A/C] [T/C] [T/C] [T/C] [A/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/G] [T/C] [A/G] [A/G] [T/G] [A/C] [A/C] [T/C] [T/C]

12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12

86924891 86924891 87156713 87198946 87204630 87308897 87315164 87376679 87408336 87430209 87459912 87459912 87488390 87506910 87574239 87574239 87583291 87607901 87722701 87946488 88185792 88505078 88505078 88615257 88615257 88783374 88925973 89178196 89186564 89340293 89366763 89914261 90155769 90220442 90231386 90412549 90412549 90433567 90643279 90676997 90723886 90723886 90723886 90992438 91053671 91053846 91303997 91374478 91374478 91397179 91398634 91506953 91630155 91644664 91716319 91730776 92173506 92217638 92377558 92383550

SC

M AN U

TE D

chr12_86924891_C_T chr12_86924891_C_T rs977781 rs11104096 rs10858494 kgp8873787 chr12_87315164_A_T rs11104217 rs11104234 rs2117018 rs17314381 rs17314381 rs11104274 rs2053091 rs1326740 rs1326740 chr12_87583291_GTGTGTATATATATA_INDEL rs10858565 rs4842553 rs12305338 rs12370008 rs2468255 rs2468255 chr12_88615257_C_T chr12_88615257_C_T rs759483 chr12_88925973_C_T rs2199544 rs7310378 rs114873 rs2058343 rs10858894 rs7972706 chr12_90220442_A_G rs17783015 rs10858942 rs10858942 rs6538218 rs17250405 rs1948689 rs12818395 rs12818395 rs12818395 rs17018083 rs17837034 rs10859013 chr12_91303997_C_T rs1920777 rs1920777 rs2141678 rs2293754 rs3759222 rs1522430 chr12_91644664_C_T rs4842762 rs2131377 rs7959601 rs7966017 rs4842814 chr12_92383550_A_G

genotype difference Col_33_IF Col_59_TS Col_52_TS Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_38_CB Col_12_IF Col_33_IF Col_52_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_38_IF Col_52_CB Col_12_CB Col_33_IF Col_52_TS Col_12_IF Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_52_IF Col_33_IF Col_33_IF Col_16_IF Col_38_CB Col_45_CB Col_52_IF Col_52_TS Col_12_TS Col_33_IF Col_33_CB Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_59_TS Col_33_IF Col_33_IF Col_33_CB Col_33_CB

RI PT


Marker ID

428

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP BOT BOT PLUS BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP PLUS MINUS MINUS TOP TOP TOP TOP MINUS TOP TOP TOP BOT TOP BOT BOT TOP PLUS BOT BOT TOP

[T/C] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/T] [T/C] [T/C] [D/I] [T/G] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [T/G] [T/G] [A/C] [A/T] [D/I] [I/D] [I/D] [A/G] [A/G] [A/G] [A/G] [I/D] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/G] [A/G] [I/D] [T/C] [T/C] [A/C]

12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12

92779898 92836721 92848066 93022836 93022836 93099756 93196332 93196332 93405652 93405652 93525908 93525908 93682137 93712879 93747731 93767568 93767568 93768342 93789929 93924509 93977000 94055369 94055369 94158487 94238804 94253033 94355510 94595384 94600706 94696528 94742537 94797739 94875344 95309820 95551164 95582330 95585836 95585836 95682681 95929374 95929805 95979143 95979143 95986202 95986202 96021033 96027873 96049529 96062399 96196642 96204253 96259992 96261605 96310639 96335782 96343115 96344653 96375682 96386138 96453396

SC

M AN U

TE D

rs432771 chr12_92836721_A_G rs503262 chr12_93022836_C_T chr12_93022836_C_T rs1394585 chr12_93196332_C_T chr12_93196332_C_T rs12308734 rs12308734 chr12_93525908_C_T chr12_93525908_C_T rs11106945 rs6538408 rs12422304 rs11107000 rs11107000 rs12426738 rs7977140 rs11107072 chr12_93977000_A_G rs7294562 rs7294562 rs903173 rs10745664 rs10859603 rs11107299 rs4761591 chr12_94600706_C_INDEL rs1918309 rs11615536 rs4761614 chr12_94875344_A_G rs6538574 chr12_95551164_A_G chr12_95582330_C_T chr12_95585836_A_C chr12_95585836_A_C rs11107962 chr12_95929374_A_T chr12_95929805_CTTT_INDEL chr12_95979144_A_INDEL chr12_95979144_A_INDEL rs7965831 rs7965831 chr12_96021033_C_T chr12_96027873_C_T chr12_96049529_CTAT_INDEL chr12_96062399_A_G rs17289784 rs1561092 rs703693 rs10777746 chr12_96310639_A_G chr12_96335782_G_T chr12_96343115_A_G rs63031561 chr12_96375682_C_T rs11108368 rs17025133

genotype difference Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_52_CB Col_52_CB Col_12_TS Col_16_TS Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_52_IF Col_33_IF Col_33_IF Col_33_CB Col_52_CB Col_12_IF Col_33_IF Col_33_CB Col_16_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_52_CB Col_33_IF Col_59_TS Col_38_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_38_CB Col_52_IF Col_33_IF Col_52_CB Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_TS Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_33_IF

RI PT


Marker ID

429

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP TOP TOP TOP BOT TOP TOP BOT TOP TOP BOT TOP TOP BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP MINUS MINUS TOP TOP BOT TOP BOT TOP TOP BOT TOP TOP TOP TOP

[A/G] [T/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [C/G] [C/G] [A/G] [A/G] [D/I] [D/I] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/C] [A/C] [A/C] [A/C]

12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12

96459967 96728227 96772717 96830278 96942299 96942299 96978443 97041461 97041461 97338928 97394138 97394138 97416200 97463989 97604787 97644988 97651841 97729691 97814055 97855084 98030312 98168612 98172445 98310179 98342834 98351508 98379399 98584412 98780167 98919807 99365596 99377640 99568395 99586180 99586180 99638276 99693251 99756532 99812732 99872660 100057524 100152136 100160353 100160353 100215417 100373107 100443618 100443618 100454177 100454177 100481020 100549033 100729318 100995849 101016042 101016071 101076105 101076105 101128071 101132577

SC

M AN U TE D

AC C

EP

chr12_96459967_C_T rs10777785 rs7307534 chr12_96830278_C_T rs10777800 rs10777800 rs2368080 rs11108612 rs11108612 chr12_97338928_A_G chr12_97394138_C_T chr12_97394138_C_T chr12_97416200_C_T chr12_97463989_C_T chr12_97604787_A_G chr12_97644988_C_T rs741336 chr12_97729691_A_G rs17026926 rs12227359 rs1901242 rs4762423 rs4762425 rs12230245 rs11109289 rs1116874 rs2192792 rs10431441 rs7134104 rs78830853 rs10507104 rs1523097 rs2035882 rs11836131 rs11836131 rs2712643 rs1032390 rs12315631 rs10467005 rs7137194 rs10745866 rs6538945 chr12_100160353_C_G chr12_100160353_C_G rs1488724 rs2373116 chr12_100443618_AC_INDEL chr12_100443618_AC_INDEL rs2888546 rs2888546 rs10492356 chr12_100549033_C_T chr12_100729318_C_T rs17030333 rs10860612 exm1029455 rs11110461 rs11110461 rs1106877 rs1399457

genotype difference Col_52_IF Col_33_IF Col_16_IF Col_33_IF Col_16_TS Col_38_TS Col_33_IF Col_33_IF Col_12_CB Col_33_TS Col_52_IF Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_38_TS Col_33_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_12_TS Col_38_TS Col_52_CB Col_33_IF Col_33_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_CB Col_12_CB Col_08_CB Col_34_IF Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_CB Col_12_CB Col_33_IF Col_12_CB

RI PT


Marker ID

430

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP MINUS TOP TOP TOP BOT TOP TOP TOP TOP BOT BOT TOP BOT TOP BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT BOT

[A/G] [A/G] [T/C] [T/C] [T/G] [T/G] [T/C] [T/C] [A/G] [T/C] [T/G] [A/G] [A/G] [A/G] [T/G] [A/G] [A/C] [A/C] [A/C] [I/D] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/G] [T/C] [A/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [T/C] [T/C] [A/G] [T/C] [T/G] [T/C]

12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12

101221375 101286407 101421625 101549838 101560328 101634568 101870804 101992823 102015901 102122500 102127262 102219619 102308190 102517804 102542200 102758783 103119509 103119509 103119509 103154085 103173310 103591376 103656343 103761292 103889419 103912506 104506318 104506318 104510676 104510676 104706031 104741561 104958306 105113447 105366800 105509604 105660043 105820971 106044031 106077858 106271686 106281066 106360851 106397541 106455696 106690990 106949987 106958055 107165637 107345750 108086351 108174205 108208437 108227299 108267651 108575563 108973517 109331162 109432616 109519188

SC

M AN U TE D

AC C

EP

rs1399440 chr12_101286407_A_G rs7315568 rs2625152 exm1029660 chr12_101634568_A_C rs7979430 chr12_101992823_C_T rs825097 chr12_102122500_C_T rs10860779 rs7960795 rs6539020 rs2036771 exm1030674 rs7303350 chr12_103119509_A_C chr12_103119509_A_C chr12_103119509_A_C chr12_103154086_INDEL_T chr12_103173310_C_T rs12316992 chr12_103656343_C_T rs11111539 chr12_103889419_A_G rs10861032 rs10861159 rs10861159 rs11111900 rs11111900 rs10861197 rs17035372 rs10861233 chr12_105113447_A_C rs12301850 chr12_105509604_G_T rs11112435 rs10746030 rs2374529 rs11112660 rs12581796 rs1421442 chr12_106360851_C_T chr12_106397541_A_G chr12_106455696_C_T chr12_106690990_C_T rs4964469 chr12_106958055_A_G chr12_107165637_C_T rs7975954 rs10778567 rs1816009 chr12_108208437_C_T rs2374728 rs6539389 rs2374969 chr12_108973517_A_G rs3918305 rs1865147 exm1034636

genotype difference Col_38_CB Col_33_IF Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_33_IF Col_59_TS Col_33_CB Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_08_CB Col_33_IF Col_38_IF Col_52_CB Col_33_IF Col_33_IF Col_52_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_52_CB Col_12_CB Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_12_TS Col_52_CB Col_52_CB Col_33_IF Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_52_IF Col_12_IF Col_33_IF Col_33_IF Col_33_CB Col_33_CB Col_12_IF Col_12_CB Col_52_CB Col_08_TS Col_52_CB Col_33_IF Col_33_IF

RI PT


Marker ID

431

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT TOP BOT BOT BOT TOP BOT BOT TOP TOP BOT BOT TOP BOT TOP BOT TOP TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT MINUS BOT TOP TOP PLUS BOT TOP BOT TOP BOT TOP

[T/C] [A/G] [T/C] [A/G] [T/A] [T/A] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/C] [A/C] [A/G] [T/C] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [G/C] [T/C] [T/G] [T/C] [T/C] [A/G] [A/G] [A/C] [T/C] [T/C] [T/G] [T/C] [T/C] [A/G] [A/G] [A/T] [T/G] [D/I] [G/C] [A/G] [A/G] [D/I] [T/G] [A/C] [T/C] [A/G] [T/C] [A/G]

12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12

109580342 109935081 110170028 110602173 111814556 111814556 111953704 111991926 111993571 111993571 112461160 112464631 112518803 112718198 112775350 112910219 112915232 112928596 112978204 113112680 113122037 113231912 113267819 113273050 113280018 113303694 113319600 113379509 113379509 113379509 113409794 113596866 114246965 114251342 114259725 114304418 114362632 114423299 114462405 114577640 114592949 114592949 114607299 114635226 114675995 114681552 114685437 114697688 114698537 114720683 114749691 114754382 114781013 114825042 114839956 114863209 114868138 114871691 114888309 114979696

SC

M AN U TE D

AC C

EP

rs2300461 rs10850274 chr12_110170028_A_G rs10492229 rs61228624 rs61228624 rs16941541 corect_rs192536857 rs11610849 rs11610849 rs76501894 rs10431388 rs11066150 rs10161290 rs80112099 rs80279219 rs73209632 rs73209633 rs7138688 rs232929 chr12_113122037_A_G chr12_113231912_A_G rs7961650 rs10492025 rs10492027 rs61942350 rs2240194 chr12_113379509_A_G chr12_113379509_A_G chr12_113379509_A_G rs10744790 chr12_113596866_A_G rs2059599 rs4767133 rs3782422 rs4766704 rs3782458 rs36113736 rs12424926 rs10850280 rs28660108 rs28660108 rs759926 rs76078492 rs1269790 rs1270885 rs2253207 rs2701105 rs11829386 rs67576923 rs7968251 rs76986559 rs10507245 chr12_114825042_C_INDEL chr12_114839956_A_C rs6489958 rs1265507 rs7955305 rs17676517 rs16944465

genotype difference Col_33_IF Col_45_IF Col_33_IF Col_38_IF Col_33_IF Col_34_TS Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_52_IF Col_08_TS Col_16_TS Col_33_IF Col_33_CB Col_33_CB Col_52_IF Col_12_CB Col_12_CB Col_52_CB Col_34_IF Col_52_IF Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_CB Col_38_TS Col_16_TS Col_52_CB Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB

RI PT


Marker ID

432

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP TOP BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT TOP BOT

[T/C] [T/C] [T/C] [T/C] [T/A] [A/G] [A/C] [T/C] [C/G] [T/A] [T/G] [A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [T/C] [T/C] [T/G] [G/C] [T/C] [A/G] [A/G] [T/C] [A/T] [A/G] [T/C] [A/C] [A/G] [T/G] [T/G] [G/C] [T/G] [T/C] [T/C] [T/C] [A/G] [T/G] [T/C] [A/G] [A/G] [T/C] [A/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C]

12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12

115011083 115079720 115089711 115108136 115116352 115139768 115147613 115162946 115357705 115395655 115450336 115457520 115498809 115506708 115506812 115544823 115554889 115554889 115555749 115650492 115668392 115711483 115779025 115822243 115830539 115853661 115853724 115859741 115861954 115875547 115992754 116026545 116077950 116118306 116130584 116130584 116180372 116214309 116214850 116254493 116265033 116265033 116270701 116289847 116304932 116304932 116385472 116412922 116495273 116792092 116833070 116833070 116924787 117168618 117361155 117443591 117569719 117607748 117675227 117747687

SC

M AN U TE D

AC C

EP

rs838346 chr12_115079720_A_G rs4073171 rs1061657 rs59336 rs11067242 rs2047752 rs12579743 rs2114669 chr12_115395655_A_T rs58142595 rs254688 rs78205093 rs10459144 rs12422311 rs2216475 rs10850440 rs10850440 rs35431 rs1018244 rs16945187 rs1634137 chr12_115779025_A_G rs11067561 rs10850498 rs11067586 rs11067587 rs79226152 rs7316326 rs76016335 rs1976344 rs10850537 rs78205875 rs3909788 rs6490032 rs6490032 rs780874 rs16946245 rs4584625 rs4081018 rs73392990 rs73392990 rs708840 rs697876 rs733553 rs733553 rs11067860 chr12_116412922_C_T chr12_116495273_A_G rs3851650 rs10774854 rs10774854 rs2733631 chr12_117168618_A_G chr12_117361155_C_T rs7297848 rs10732612 rs77135251 corect_rs139528570 rs11068447

genotype difference Col_52_CB Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_16_TS Col_38_CB Col_33_IF Col_33_IF Col_52_CB Col_52_IF Col_33_IF Col_52_IF Col_52_IF Col_38_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_52_CB Col_12_TS Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_34_IF Col_52_IF Col_34_TS Col_08_TS Col_12_TS Col_52_CB Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_34_TS Col_52_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_CB Col_12_CB

RI PT


Marker ID

433

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT TOP BOT TOP BOT BOT TOP BOT TOP TOP BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP PLUS TOP TOP BOT BOT TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT

[T/C] [A/G] [T/C] [T/G] [A/G] [T/G] [A/C] [T/C] [T/C] [A/C] [T/C] [A/G] [A/G] [G/C] [T/C] [A/G] [T/C] [C/G] [T/C] [T/G] [T/C] [T/C] [T/G] [A/C] [T/C] [A/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/C] [A/G] [T/G] [T/C] [T/C] [T/G] [A/G] [I/D] [A/G] [A/C] [T/G] [T/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C]

12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12

117777049 117787171 117799221 117836812 117865061 117920694 117923817 117937340 117941674 117973118 117974728 118036810 118226173 118372548 118376918 118435252 118456285 118680063 118870714 119130333 119240453 119240453 119629032 119740528 119906985 120393756 121368468 121595186 121600953 121620145 122392038 122900460 123064182 123079035 123124702 123279158 123796238 123824852 123857540 123957640 124531394 124635937 124737009 124839540 125232897 125261389 125640799 125759268 125763928 125778841 125782065 125973476 126036203 126093058 126093058 126093058 126107480 126295083 126323399 126354335

SC

M AN U TE D

AC C

EP

rs545654 rs61938733 corect_rs190627438 rs11068467 rs10850824 rs10850833 rs1093310 rs73210113 corect_rs112375262 rs10850839 rs7342408 rs7976621 rs10774953 chr12_118372548_C_G rs11068751 chr12_118435252_C_T rs5745807 chr12_118680063_C_G chr12_118870714_C_T chr12_119130333_A_C rs10851038 rs10851038 rs6490244 rs10849644 rs73219409 rs11829123 chr12_121368468_C_T chr12_121595186_A_G rs208296 rs12304035 rs11043265 rs4758648 rs7316509 chr12_123079035_A_G rs11059100 rs2649895 rs4759375 chr12_123824852_A_G rs28595660 rs11535679 chr12_124531394_G_T rs7303161 rs7138673 rs2271139 chr12_125232897_A_G chr12_125261390_A_INDEL rs2086673 rs34906588 corect_rs924433 rs12146745 rs55896284 rs12371764 rs7311690 chr12_126093058_C_T chr12_126093058_C_T chr12_126093058_C_T rs11610341 rs7313371 chr12_126323399_A_G rs1859946

genotype difference Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_52_IF Col_16_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_TS Col_38_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_16_TS Col_52_IF Col_33_CB Col_33_IF Col_38_CB Col_59_TS Col_12_IF Col_52_IF Col_33_IF Col_33_IF Col_12_TS

RI PT


Marker ID

434

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT TOP BOT BOT BOT TOP BOT BOT BOT TOP TOP BOT PLUS BOT TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT TOP BOT BOT TOP TOP BOT BOT BOT TOP BOT TOP TOP TOP BOT TOP BOT BOT BOT

[T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [T/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/G] [A/G] [A/G] [T/C] [I/D] [T/C] [A/C] [A/C] [A/G] [T/C] [T/C] [T/C] [A/C] [A/G] [C/G] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/G] [T/C]

12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12 12

126451511 126505617 126505617 126505617 126549248 126591949 126614694 126627630 126695933 126939798 126953092 126956126 127075147 127147035 127247590 127553272 127692717 127742532 127759291 127796975 127860333 127875884 127922252 128035306 128061788 128061788 128106951 128380890 128485584 128611553 128858494 129173253 129191324 129207353 129277490 129334814 129397132 129475939 129705832 130006585 130127178 130444945 130596396 130632619 130671877 130753999 130805820 130868327 130985182 131057666 131085923 131199583 131252551 131836281 131932578 132039213 132058029 132093024 132220385 132638421

SC

M AN U TE D

AC C

EP

chr12_126451511_A_G rs16919933 rs16919933 rs16919933 rs11058487 rs7962639 chr12_126614694_A_G rs2191172 rs7975523 rs2109148 rs991827 rs7308273 chr12_127075147_A_G rs1706487 rs1194046 rs2347910 chr12_127692717_C_T chr12_127742532_A_G rs10847306 rs1026059 rs11059093 rs1875951 chr12_127922253_INDEL_T rs345643 rs345684 rs345684 rs1553404 rs1488166 chr12_128485584_A_G rs9669592 rs1683689 rs11059832 rs3763990 rs1077443 rs12305142 rs11059973 rs11060013 rs643473 rs7304563 rs11060389 rs12828837 chr12_130444945_A_G rs7137346 rs11060741 chr12_130671877_C_T rs1007880 rs10744458 rs1983314 rs1877978 rs7307029 rs10773799 rs11061102 rs12318582 rs10848359 rs941155 rs6598218 rs7397935 chr12_132093024_A_G rs12426142 rs12297511

genotype difference Col_33_IF Col_16_TS Col_33_CB Col_45_IF Col_38_TS Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_34_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_52_TS Col_12_CB Col_16_TS Col_52_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_52_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_CB Col_33_IF Col_52_CB Col_33_CB Col_33_CB Col_52_CB Col_12_CB Col_52_IF Col_33_IF Col_12_CB Col_33_CB

RI PT


Marker ID

435

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP MINUS TOP BOT TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP

[T/G] [A/G] [A/G] [I/D] [A/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/C] [T/G] [T/G] [A/G] [T/C] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/C] [T/A] [T/C] [A/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/C] [A/G] [A/G] [A/G] [T/G] [T/C] [A/G] [A/C] [T/G] [T/G] [A/C] [T/C] [T/C] [T/C] [C/G] [C/G] [A/G] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G]

12 12 12 12 12 12 12 12 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13

132838034 133028011 133028011 133133449 133136791 133146701 133312412 133499738 19177014 19517420 19536067 19584477 19591944 19612262 19618079 19666481 19719615 19771535 19843834 19953111 20411701 20411701 20609558 20796497 20959955 21189941 21215636 21581439 21674899 21753255 21813257 21814873 21823607 22190992 22241354 22276668 22493371 22551419 22617265 22795864 22825369 22825369 22875838 22903685 23072501 23072501 23247948 23247948 23277817 23341126 23416203 23611311 23704635 23704635 23737920 23737920 23743036 23755892 23765100 23768214

SC

M AN U TE D

AC C

EP

rs28623158 chr12_133028011_A_G chr12_133028011_A_G chr12_133133449_A_INDEL chr12_133136791_G_T rs3751315 rs11147035 chr12_133499738_C_T kgp588573 rs9510729 chr13_19536067_C_T rs1334954 rs9511099 rs17061548 rs17062065 rs4769387 rs9319225 rs9511997 rs528196 corect_rs148805516 rs7988277 rs7988277 chr13_20609558_A_G rs7333214 chr13_20959955_A_T rs2442455 chr13_21215636_G_T rs2585890 rs7994886 rs7335237 rs2152244 rs9509614 chr13_21823607_C_T rs12583972 chr13_22241354_C_T chr13_22276668_C_T rs2031421 rs7327237 chr13_22617265_A_G rs9506807 chr13_22825369_G_T chr13_22825369_G_T rs9506831 rs289964 chr13_23072501_A_G chr13_23072501_A_G chr13_23247948_C_G chr13_23247948_C_G chr13_23277817_C_T rs9317196 rs9580448 chr13_23611311_A_C chr13_23704635_A_G chr13_23704635_A_G rs677156 rs677156 chr13_23743036_A_G rs9317535 rs3829357 chr13_23768214_A_G

genotype difference Col_33_CB Col_08_TS Col_52_TS Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_52_TS Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_16_CB Col_52_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_16_TS Col_33_IF Col_52_IF Col_52_TS Col_33_IF Col_33_IF Col_34_IF Col_12_IF Col_16_IF Col_38_CB Col_12_CB Col_33_IF Col_52_IF Col_33_IF

RI PT


Marker ID

436

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP TOP BOT TOP BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP BOT TOP BOT TOP BOT TOP BOT TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP BOT TOP BOT TOP TOP TOP BOT TOP TOP BOT TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP

[A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/G] [T/C] [T/G] [A/G] [T/C] [G/C] [A/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [T/C] [A/C] [A/G] [T/C] [A/C] [T/C] [A/G] [A/G] [A/G] [T/G] [A/G] [A/G] [G/C] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/G] [A/G] [T/G] [A/G] [A/G]

13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13

23768214 23885336 23991376 24043069 24163339 24326754 24387412 24400858 24431745 24456436 24482933 24652549 24672222 24880675 24943905 24948927 25003883 25084235 25237504 25296859 25404386 25526357 25821603 25873440 25957433 25957433 25972769 25982888 26152314 26242069 26250177 26250177 26307895 26476362 26851948 26966369 27060687 27290986 27331103 27468906 27480516 27527644 27780072 27900204 28017782 28224988 28263836 28439194 28572685 28577688 28584648 28761592 28973703 29050843 29499442 29515875 29720215 29813633 29861379 29863365

SC

M AN U TE D

AC C

EP

chr13_23768214_A_G chr13_23885336_C_T rs10747165 rs3764070 rs765606 rs4770489 rs7319884 chr13_24400858_A_C chr13_24431745_A_G chr13_24456436_A_C rs7333092 rs912151 chr13_24672222_C_G chr13_24880675_A_C rs9318492 rs9553272 rs4770676 rs73154400 rs7331491 rs7323115 chr13_25404386_A_C rs7333197 rs8262 rs17498731 chr13_25957433_A_G chr13_25957433_A_G rs1924776 chr13_25982888_C_T rs6491070 rs7329213 rs7987148 rs7987148 rs9511905 rs1000575 rs17083622 rs79551137 chr13_27060687_A_G chr13_27290986_A_C rs9579035 rs11838893 chr13_27480516_A_C chr13_27527644_A_G rs7999563 rs1333347 rs12016871 chr13_28224988_A_C rs984112 chr13_28439194_C_T rs2481954 rs3829382 rs17086212 chr13_28761592_A_G rs9319429 rs655024 rs7319165 rs189009 rs12864718 rs1999716 rs3011450 rs7319242

genotype difference Col_52_IF Col_33_IF Col_33_IF Col_52_CB Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_16_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF

RI PT


Marker ID

437

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP TOP BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT TOP BOT BOT TOP TOP TOP BOT TOP TOP BOT BOT TOP BOT TOP BOT TOP BOT MINUS

[T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [T/A] [T/A] [A/G] [T/C] [A/G] [A/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [T/A] [T/C] [T/C] [A/G] [A/G] [T/G] [A/G] [A/G] [T/C] [T/G] [T/C] [T/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/C] [A/G] [A/G] [G/C] [A/C] [A/G] [T/C] [G/C] [A/G] [T/A] [A/G] [T/C] [A/C] [T/C] [I/D]

13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13

29884423 30224861 30226498 30258872 30278687 30290947 30608954 30631647 31078511 31138971 31149368 31149368 31165908 31275913 31473663 31722129 32010601 32302028 32311582 32311582 32312161 32487323 32498725 32517709 32529111 32540047 32554532 32587853 32641978 32654379 32655523 32656283 32667636 32673350 32673837 32680648 32686956 32708680 32710545 32715802 32733327 32781014 32800816 32817926 32830706 32840680 32860424 32861770 32893321 32900376 32906415 32907411 32910456 32911375 32911452 32911551 32911565 32912750 32913320 32913366

SC

M AN U TE D

AC C

EP

rs9508344 rs539485 rs2263207 rs1023162 rs17073799 rs9551722 rs9579519 rs9550517 rs9315015 chr13_31138971_G_T rs74802087 rs74802087 rs6490468 rs9508819 rs4943311 exm1061142 rs11842809 rs9576871 chr13_32311582_C_T chr13_32311582_C_T rs9603599 chr13_32487323_C_T chr13_32498725_G_T chr13_32517709_A_G chr13_32529111_A_T rs169410 rs427671 chr13_32587853_A_G chr13_32641978_C_T rs17691046 chr13_32655523_A_G chr13_32656283_A_G rs7992602 rs453774 rs438998 chr13_32680648_G_T rs2021947 rs55936312 chr13_32710545_C_T rs7330056 rs11841900 rs76035998 rs7992848 rs77216304 rs11617972 chr13_32840680_G_T chr13_32860424_C_T chr13_32861770_A_G chr13_32893321_C_G chr13_32900376_A_C chr13_32906415_A_G rs1046984 chr13_32910456_C_G chr13_32911375_A_G chr13_32911452_A_T chr13_32911551_C_T chr13_32911565_A_G chr13_32912750_G_T chr13_32913320_A_G chr13_32913365_AA_INDEL

genotype difference Col_12_CB Col_16_TS Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_33_CB Col_16_IF Col_12_CB Col_33_IF Col_33_IF Col_12_IF Col_08_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_CB Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_59_TS Col_33_IF Col_16_CB Col_12_CB Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_08_CB Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_52_IF Col_52_CB

RI PT


Marker ID

438

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP PLUS TOP BOT TOP BOT BOT TOP BOT BOT TOP BOT TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP BOT BOT TOP BOT BOT TOP TOP TOP BOT TOP BOT BOT TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT

[G/C] [A/G] [A/G] [A/G] [A/G] [C/G] [A/T] [A/G] [T/A] [A/G] [A/C] [I/D] [A/G] [T/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [T/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/A] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/G] [T/C] [A/G] [A/C] [A/G] [T/C]

13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13

32913381 32913469 32913690 32913691 32914236 32915005 32915187 32918695 32918788 32918790 32919384 32920321 32920618 32926830 32929387 32937450 32937670 32944642 32953652 32971042 32983087 33086341 33087959 33098830 33203656 33206083 33207534 33232435 33275438 33280675 33280675 33306627 33314042 33334491 33343649 33429793 33536084 33592777 33611114 33776183 33947222 34102067 34202106 34235125 34295916 34410531 34465740 34726266 34764094 34769430 34816522 34847737 34892664 35011445 35011445 35041355 35230083 35252290 35348258 35351431

SC

M AN U TE D

AC C

EP

chr13_32913381_C_G chr13_32913469_C_T chr13_32913690_C_T chr13_32913691_C_T rs4987117 chr13_32915005_C_G chr13_32915187_A_T chr13_32918695_A_G chr13_32918788_A_T chr13_32918790_A_G chr13_32919384_G_T chr13_32920322_INDEL_T chr13_32920618_A_G chr13_32926830_G_T chr13_32929387_C_T c13_pos31835450 chr13_32937670_A_G c13_pos31842642 chr13_32953652_A_G chr13_32971042_A_G chr13_32983087_C_T chr13_33086341_C_T chr13_33087959_C_T chr13_33098830_C_T chr13_33203656_A_G rs208411 rs9591191 rs2301393 chr13_33275438_A_G chr13_33280675_C_T chr13_33280675_C_T chr13_33306627_A_G chr13_33314042_A_G chr13_33334491_A_G chr13_33343649_A_G chr13_33429793_G_T chr13_33536084_A_C chr13_33592777_C_T rs569546 chr13_33776183_A_G rs9597332 rs77289003 rs57600029 rs2477455 rs2321481 rs3135635 chr13_34465740_A_T rs4142811 chr13_34764094_C_T chr13_34769430_A_G rs12583075 rs7997709 rs795910 rs1324758 rs1324758 rs17081336 rs12861763 rs9315303 chr13_35348258_A_G rs9315310

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_34_IF Col_12_TS Col_45_IF Col_34_CB Col_38_TS Col_12_CB Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_12_CB Col_12_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF

RI PT


Marker ID

439

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT BOT TOP TOP BOT TOP TOP TOP BOT TOP BOT BOT TOP BOT BOT BOT TOP BOT MINUS BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT

[T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [A/C] [A/G] [A/G] [A/C] [A/C] [A/G] [T/C] [T/C] [A/C] [A/C] [A/G] [T/C] [T/C] [A/C] [A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [A/G] [T/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/C] [T/C] [A/G] [T/C] [T/G] [A/G] [T/C] [T/C] [T/C] [A/C] [T/C] [I/D] [T/C] [T/G] [T/G] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C]

13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13

35427126 35504951 35712155 35862493 35980006 36117258 36123289 36150959 36150959 36167429 36167429 36201315 36201315 36207828 36214398 36216658 36220005 36220005 36364791 36389058 36400849 36461717 36688445 36721724 36750509 36983192 37012017 37116461 37162918 37584732 37769014 37805005 37877499 37913681 38007731 38103501 38103622 38122835 38143586 38153351 38163262 38201657 38203427 38243182 38243182 38248655 38282470 38299057 38321649 38353070 38440568 38441548 38441548 38500239 38506441 38506441 38769427 38823634 39250586 39391766

SC

M AN U TE D

AC C

EP

rs9542528 rs1323950 chr13_35712155_A_G rs3920813 rs9530540 rs1578831 rs1547839 rs9574151 rs9574151 rs12865768 rs12865768 rs12876625 rs12876625 chr13_36207828_A_G rs12172796 rs7992752 newrs138771641 newrs138771641 chr13_36364791_C_T rs9574659 chr13_36400849_A_G chr13_36461717_A_C rs9575307 rs1887829 chr13_36750509_A_G corect_rs141083253 newrs61755284 rs9576081 chr13_37162918_A_G exm1063738 rs9532012 rs1924451 rs7336888 rs17055354 chr13_38007731_C_T rs1358993 rs9576293 rs4544121 rs9603226 rs7323378 rs9576310 rs6563564 rs1924288 rs12583344 rs12583344 rs1924304 rs9548026 chr13_38299057_A_G chr13_38321650_A_INDEL rs9315512 rs1415601 chr13_38441548_G_T chr13_38441548_G_T rs4943548 chr13_38506441_C_T chr13_38506441_C_T rs9548234 rs1910034 rs2442376 rs4587834

genotype difference Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_16_CB Col_52_IF Col_16_TS Col_33_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_12_TS Col_12_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_52_CB Col_12_CB Col_52_IF Col_33_IF Col_52_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_52_CB Col_12_CB Col_38_TS Col_38_TS Col_52_CB Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_52_CB Col_33_IF Col_16_IF Col_38_CB Col_12_IF Col_12_CB Col_08_CB Col_33_IF

RI PT


Marker ID

440

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT TOP TOP TOP BOT TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP BOT TOP

[T/A] [T/A] [T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [T/G] [T/G] [A/G] [T/C] [T/G] [T/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/G] [T/G] [T/G] [A/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/C] [A/G] [T/C] [T/C] [T/C] [T/C] [C/G] [T/C] [T/C] [T/C] [T/C] [A/C] [T/G] [A/G] [A/G] [A/C] [A/G] [T/C] [A/G]

13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13

39399554 39399554 39459484 39858444 39990356 40081111 40123073 40129765 40189028 40206175 40292978 40300203 40326282 40391182 40448013 40448013 40866430 40955479 40956846 40956846 41215696 41215696 41223110 41596290 41663556 41969553 42105599 42105599 42246277 42270305 42275473 42275473 42349482 42461622 42589041 42589041 42705808 42838674 42838864 42882762 43032027 43051514 43210400 43493219 43550021 44000631 44034633 44071537 44081178 44086186 44086186 44327751 44433630 44528846 44556326 44644067 44698682 44813700 44873416 44889015

SC

M AN U TE D

AC C

EP

chr13_39399554_A_T chr13_39399554_A_T rs2225623 rs1333439 rs579270 rs9315693 rs7333587 corect_rs138099718 chr13_40189028_C_T chr13_40206175_C_T rs4294679 chr13_40300203_C_T rs9943 chr13_40391182_A_G chr13_40448013_A_C chr13_40448013_A_C chr13_40866430_A_G chr13_40955479_C_T rs1751860 rs1751860 rs7989711 rs7989711 rs1334241 chr13_41596290_A_G rs12585788 rs9532802 rs9532877 rs9532877 rs17637518 rs9634767 rs7322461 rs7322461 rs7999970 rs7334298 rs17062718 rs17062718 rs1170178 chr13_42838674_A_G rs10492434 rs238314 rs12430303 chr13_43051514_G_T chr13_43210400_A_G rs7983172 rs1886152 rs1323161 rs9525778 chr13_44071537_C_G chr13_44081178_C_T chr13_44086186_C_T chr13_44086186_C_T rs7336782 rs3088362 chr13_44528846_G_T chr13_44556326_C_T rs4942273 chr13_44698682_G_T rs9595087 rs1175207 rs12430180

genotype difference Col_08_CB Col_12_CB Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_52_IF Col_52_IF Col_33_IF Col_16_TS Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_33_CB Col_33_IF Col_33_CB Col_38_TS Col_16_TS Col_45_IF Col_45_IF Col_33_IF Col_52_IF Col_33_IF Col_59_TS Col_12_IF Col_52_IF Col_38_CB Col_08_CB Col_33_IF Col_33_IF Col_16_TS Col_08_TS Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_52_CB Col_33_IF Col_33_IF Col_52_CB Col_12_TS Col_52_TS Col_12_CB Col_33_IF Col_38_IF Col_08_CB Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF

RI PT


Marker ID

441

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT MINUS BOT TOP TOP TOP TOP TOP TOP BOT TOP BOT BOT BOT TOP BOT TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP BOT

[A/G] [A/G] [T/C] [D/I] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [G/C] [A/C] [T/C] [T/C] [T/C] [A/G] [T/A] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [A/T] [T/C] [A/G] [T/C] [T/C] [T/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/G] [T/G] [T/C] [A/G] [A/G] [A/C] [A/C] [A/G] [C/G] [A/G] [G/C] [A/G] [A/G] [T/C]

13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13

45062259 45103129 45714730 45755339 45811273 45889212 46006512 46510675 46566423 46642668 46686034 46690423 46715745 46802668 46853201 47094750 47097226 47159085 47219780 47252742 47252782 47270592 47323718 47381430 47381430 47971698 47971698 47973276 48020294 48060033 48137543 48919246 49378829 49556055 49570215 49643890 49674143 49745533 49803641 49836183 49906514 49930369 49981050 50029380 50029380 50034684 50034684 50086266 50111581 50184874 50184874 50190246 50190246 50294056 50306221 50487993 50618948 50680453 50724957 50736491

SC

M AN U TE D

AC C

EP

rs76747960 chr13_45103129_C_T rs9595247 chr13_45755339_C_INDEL rs9316125 rs68060270 rs9526073 chr13_46510675_C_T rs9534271 chr13_46642668_A_G chr13_46686034_A_G chr13_46690423_C_G chr13_46715745_A_C rs625052 rs2765618 rs12870900 rs4942546 chr13_47159085_A_T rs9526209 rs9567718 chr13_47252782_C_T rs842405 rs2794661 chr13_47381430_A_G chr13_47381430_A_G rs1890882 rs1890882 rs11619222 chr13_48020294_A_G rs4300533 rs9670039 chr13_48919246_A_T rs10400612 chr13_49556055_C_T chr13_49570215_A_G rs2994378 chr13_49674143_A_C chr13_49745533_A_G chr13_49803641_C_T rs9535179 rs7336018 rs7981156 rs11148144 rs9568211 rs9568211 rs1543513 rs1543513 rs4430650 chr13_50111581_C_T rs9568280 rs9568280 rs9591288 rs9591288 rs2273816 rs3736830 rs9568354 chr13_50618948_C_G rs790929 chr13_50724957_A_G rs1015878

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_59_TS Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_12_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_34_CB Col_33_IF Col_12_TS Col_08_IF Col_59_TS Col_33_IF Col_12_CB Col_33_IF Col_16_TS Col_12_CB Col_52_IF Col_08_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_16_IF Col_52_TS Col_33_IF Col_34_TS Col_33_IF Col_33_IF Col_16_IF Col_52_IF Col_16_TS Col_52_TS Col_52_IF Col_33_IF Col_33_IF Col_59_TS Col_52_CB Col_33_IF Col_33_CB

RI PT


Marker ID

442

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP MINUS BOT BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP BOT TOP BOT TOP BOT TOP BOT BOT BOT BOT BOT

[A/G] [T/C] [A/C] [D/I] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [A/C] [A/C] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/C] [T/C] [A/C] [T/C] [A/G] [T/G] [C/G] [T/G] [T/G] [T/C] [T/G] [T/C]

13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13

50855594 50889881 50948523 51088453 51108372 51118449 51398466 51457623 51474206 51524780 51524780 51736083 51907799 51907799 51977205 51986694 51986694 52092247 52095585 52095585 52095585 52343391 52343391 52365354 52365354 52998697 53053768 53325928 53346606 53509457 53784083 53907427 53930811 54195972 54484786 54514731 54687221 54693093 54812498 54970922 54998879 54998879 55013831 55018769 55019796 55044198 55536441 55563725 55581528 55666639 55750401 55832667 55912389 55922259 55953227 55969770 56100889 56377854 56392108 56420877

SC

M AN U TE D

AC C

EP

chr13_50855594_A_G chr13_50889881_C_T rs2812219 chr13_51088453_G_INDEL chr13_51108372_C_T chr13_51118449_A_G rs7326839 rs7992624 chr13_51474206_C_T chr13_51524780_A_G chr13_51524780_A_G rs7318961 chr13_51907799_C_T chr13_51907799_C_T rs2408364 corect_rs192179813 corect_rs192179813 rs11616977 chr13_52095585_C_T chr13_52095585_C_T chr13_52095585_C_T chr13_52343391_C_T chr13_52343391_C_T chr13_52365354_G_T chr13_52365354_G_T rs4886077 rs4884522 rs11148265 rs460736 rs7330967 rs2491124 rs1373278 rs1373271 rs9316642 rs9568958 rs1334217 rs9568986 corect_rs117947362 rs797060 rs6561774 rs17089436 rs17089436 rs9536725 rs9591592 chr13_55019796_C_T rs9569039 chr13_55536441_C_T rs263811 chr13_55581528_A_C rs4609724 rs9597130 rs7333724 chr13_55912389_A_G rs1697497 chr13_55953227_C_G rs3124407 rs9537154 rs4242996 chr13_56392108_G_T chr13_56420877_A_G

genotype difference Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_16_CB Col_33_IF Col_33_IF Col_16_IF Col_12_CB Col_33_CB Col_08_IF Col_12_IF Col_52_IF Col_16_IF Col_33_CB Col_12_CB Col_16_TS Col_33_IF Col_59_TS Col_33_CB Col_38_TS Col_16_IF Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_59_TS Col_16_IF Col_12_CB Col_52_IF Col_33_IF Col_08_TS Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_CB Col_16_IF Col_16_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_12_CB Col_38_IF Col_59_TS Col_12_CB Col_33_IF Col_16_IF Col_33_IF

RI PT


Marker ID

443

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP MINUS BOT BOT

[A/G] [T/C] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [A/C] [A/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [T/G] [T/C] [A/G] [A/C] [T/C] [T/C] [A/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/G] [T/G] [T/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/G] [T/G] [T/C] [T/C] [A/C] [I/D] [T/C] [T/C]

13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13

56489444 56571631 56578765 56600801 56646056 56719424 56794741 56807345 56833349 56914330 56987206 57358169 57363806 57371988 57427364 57562629 57564928 57566485 57607489 57607489 57664320 57820895 57920936 57989421 58000353 58202208 58280885 58334359 58365712 58511221 58538304 58538304 58538304 58599404 58600904 58605508 58605508 58668703 58687874 58977716 58984804 58984804 58984804 58996441 58996856 58996856 59103355 59128526 59246251 59451706 59545685 59738470 59815247 59825271 59841918 59860535 59891147 60105153 60160041 60163668

SC

M AN U TE D

AC C

EP

rs9537297 rs9563369 rs11840438 chr13_56600801_G_T rs157829 rs2942346 chr13_56794741_C_T rs9569446 rs1932431 rs1577538 rs2803488 rs9537475 chr13_57363806_C_T chr13_57371988_A_G rs7329610 rs1336933 rs7995965 rs9316881 rs9597487 rs9597487 rs4520734 rs959746 rs1317699 rs17570172 rs9569686 chr13_58202208_G_T rs7328666 rs73207492 rs7996008 rs4886041 rs1326520 rs1326520 rs1326520 chr13_58599404_A_C rs9537921 rs11148419 rs11148419 rs637432 chr13_58687874_C_T rs9597717 rs4534710 rs4534710 rs4534710 chr13_58996441_A_G rs9527796 rs9527796 rs4886083 rs4886088 rs12431280 rs2321885 chr13_59545685_C_T rs2322369 chr13_59815247_A_C rs17056224 rs9527958 rs9570085 rs1409261 chr13_60105163_A_INDEL rs595315 rs571049

genotype difference Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_16_IF Col_33_IF Col_33_IF Col_38_CB Col_16_IF Col_16_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_CB Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_59_IF Col_38_IF Col_08_TS Col_16_IF Col_52_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_12_IF Col_33_IF Col_52_CB Col_38_TS Col_52_IF Col_12_IF Col_12_CB Col_52_IF Col_12_CB Col_12_CB Col_16_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_59_TS Col_38_IF Col_33_IF Col_16_TS Col_08_CB Col_52_IF

RI PT


Marker ID

444

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT PLUS BOT BOT BOT TOP TOP BOT TOP TOP TOP TOP BOT TOP BOT TOP TOP BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT PLUS TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT

[T/C] [T/C] [T/C] [I/D] [T/A] [T/A] [T/C] [A/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/G] [A/G] [T/G] [A/G] [A/G] [A/G] [T/G] [T/G] [T/G] [T/C] [T/C] [T/C] [T/G] [A/G] [A/G] [T/C] [T/G] [I/D] [A/C] [A/T] [A/G] [T/C] [G/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C]

13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13

60163668 60271625 60587466 60964521 61063970 61063970 61116447 61275531 61283685 61364156 61416886 61420358 61459308 61541210 61604736 61629964 61647990 61676435 61768626 61925472 61952920 61954997 61977349 62000820 62047768 62087198 62087198 62087198 62095636 62095636 62095636 62130253 62178016 62179197 62393583 62584020 62608159 62618616 62631820 62633281 62782140 62853549 62936541 63070879 63110606 63242341 63246737 63250900 63250900 63251699 63355521 63487629 63582763 63582763 63661960 63666149 63778688 63833281 63867523 63867523

SC

M AN U TE D

AC C

EP

rs571049 chr13_60271625_A_G rs3809332 chr13_60964522_A_INDEL chr13_61063970_A_T chr13_61063970_A_T corect_rs184437988 rs17058611 rs7327175 rs9285228 rs2671284 rs7330848 chr13_61459308_A_G rs9538992 chr13_61604736_A_G chr13_61629964_C_T rs9539033 rs9592091 rs3102202 rs9317182 rs1330592 rs1590923 rs9539155 rs9570576 rs7994590 rs7996563 rs7996563 rs7996563 chr13_62095636_C_T chr13_62095636_C_T chr13_62095636_C_T chr13_62130253_G_T rs4884384 corect_rs188283468 rs2151037 chr13_62584020_G_T chr13_62608168_INDEL_T rs9528446 rs9570639 chr13_62633281_C_T rs308537 chr13_62853549_C_G rs421269 kgp9643478 rs428328 rs11842438 rs2649166 rs2649162 rs2649162 chr13_63251699_G_T rs7984015 rs1335686 rs7992864 rs7992864 rs3119944 rs1398517 rs12184522 rs371582 rs298834 rs298834

genotype difference Col_59_TS Col_38_TS Col_08_TS Col_33_IF Col_16_IF Col_59_TS Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_16_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_34_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_59_TS Col_16_IF Col_38_TS Col_12_IF Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_IF Col_33_IF Col_52_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_16_IF Col_59_TS

RI PT


Marker ID

445

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP TOP BOT TOP BOT TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT MINUS BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT

[A/G] [T/C] [A/G] [A/G] [T/C] [A/C] [T/C] [A/C] [A/G] [A/G] [T/C] [A/G] [T/G] [T/G] [T/G] [T/G] [T/C] [A/G] [A/G] [T/G] [T/G] [T/C] [A/G] [A/G] [A/G] [T/G] [T/G] [A/G] [A/C] [T/C] [T/C] [T/G] [T/G] [A/G] [T/C] [T/C] [T/G] [T/C] [A/G] [A/G] [T/C] [G/C] [G/C] [G/C] [I/D] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/T] [T/C] [T/C] [T/G] [T/G] [T/G] [T/C] [T/C]

13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13

63977447 64008018 64008555 64066696 64093098 64094066 64133015 64141913 64192061 64192061 64205685 64279866 64346536 64346536 64346536 64346536 64381089 64432922 64432922 64488513 64488513 64516543 64552805 64553688 64563207 64591709 64591709 64617871 64928419 64993852 65089469 65157346 65157346 65177335 65275154 65296926 65431237 65432790 65457651 65461511 65691393 65714425 65714425 65714425 65878478 66001937 66043202 66043202 66082476 66102269 66149008 66149008 66296543 66338922 66355635 66399841 66399841 66409834 66462309 66656800

SC

M AN U TE D

AC C

EP

rs2185439 rs597240 rs9528630 rs502550 chr13_64093098_C_T rs1564751 chr13_64133015_C_T rs1000589 rs2810851 rs2810851 rs1373303 rs7982715 rs4883721 rs4883721 rs4883721 rs4883721 chr13_64381089_C_T rs275913 rs275913 rs568583 rs568583 rs12429620 rs7993407 rs4883727 rs77367332 rs1360873 rs1360873 rs269634 rs4592538 rs17086646 rs10507711 rs11843687 rs11843687 chr13_65177335_C_T rs359338 rs9528816 rs9317447 rs967958 rs983391 rs7996773 rs9528890 chr13_65714425_C_G chr13_65714425_C_G chr13_65714425_C_G chr13_65878479_INDEL_T chr13_66001937_A_G rs9571409 rs9571409 rs1333027 rs9540464 rs1930583 rs1930583 chr13_66296543_A_T rs7326856 rs9317534 corect_rs139410799 corect_rs139410799 rs1041607 chr13_66462309_A_G chr13_66656800_A_G

genotype difference Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_52_IF Col_12_IF Col_52_TS Col_33_IF Col_16_IF Col_52_IF Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_16_IF Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_59_TS Col_12_CB Col_33_IF Col_16_IF Col_12_CB Col_33_IF Col_33_IF Col_59_TS Col_33_IF Col_33_IF Col_16_IF Col_38_IF Col_52_IF Col_33_IF Col_33_IF Col_16_IF Col_38_TS Col_16_IF Col_12_CB Col_08_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_CB Col_38_IF Col_33_IF Col_12_CB Col_33_CB

RI PT


Marker ID

446

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT TOP BOT TOP TOP BOT BOT TOP TOP BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP PLUS TOP BOT MINUS BOT TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT

[A/C] [A/C] [T/C] [A/C] [T/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/G] [T/G] [T/G] [A/G] [T/C] [A/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [D/I] [A/C] [T/C] [D/I] [T/C] [A/G] [A/G] [A/G] [C/G] [T/C] [A/C] [T/C] [T/G] [T/C] [T/A] [A/G] [A/G] [A/G] [A/G] [A/C] [A/G] [A/G] [T/C]

13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13

66657660 66657660 66748190 66765269 66798610 66859440 66931094 66999732 67010818 67094058 67187840 67204131 67235611 67332336 67332336 67392298 67527387 67572221 67749871 67749871 67749871 67767717 67770315 67774520 67842588 67948627 67959370 68125620 68141716 68184828 68195307 68340875 68429944 68445850 68456578 68471414 68518831 68610828 68629805 68660216 68704591 68713255 68733657 68925352 68925352 69027117 69041310 69050615 69113402 69115840 69180223 69236478 69344134 69344134 69349816 69448114 69478734 69529365 69557398 69580065

SC

M AN U TE D

AC C

EP

corect_rs192981336 corect_rs192981336 chr13_66748190_C_T rs17080922 rs2183456 rs1413572 rs9540724 rs430972 rs1036995 rs2324916 chr13_67187840_A_G rs9571607 rs4884684 rs7317545 rs7317545 rs1886314 rs9540954 rs1323929 rs4883799 rs4883799 rs4883799 chr13_67767717_A_G chr13_67770315_A_G rs9317650 chr13_67842588_C_T rs7321808 rs1173131 rs7992379 rs9564411 kgp8910165 chr13_68195307_C_T rs11843180 rs167021 rs288778 rs288768 rs289038 rs2175815 chr13_68610828_CTC_INDEL chr13_68629805_A_C chr13_68660216_A_G chr13_68704591_INDEL_TG chr13_68713255_C_T chr13_68733657_C_T chr13_68925352_C_T chr13_68925352_C_T rs1391999 rs483418 rs2769554 chr13_69113402_A_G rs525327 rs10507749 rs73206137 rs7338774 rs7338774 rs7983662 rs9592570 rs1370946 rs1954141 rs9541672 rs1340724

genotype difference Col_33_IF Col_52_CB Col_34_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_16_CB Col_33_CB Col_52_IF Col_16_IF Col_33_IF Col_33_CB Col_38_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_33_IF Col_33_IF Col_08_CB Col_12_CB Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_12_CB Col_38_TS Col_52_CB Col_16_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_16_TS Col_33_IF

RI PT


Marker ID

447

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP TOP BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT BOT TOP TOP TOP BOT TOP BOT TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP

[A/C] [A/G] [A/C] [A/C] [T/G] [T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/C] [T/C] [A/C] [A/G] [A/G] [T/G] [A/G] [A/C] [T/C] [T/C] [T/G] [A/G] [A/G] [T/C] [A/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/G] [A/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/C] [A/G] [T/C] [A/C] [T/G] [A/G] [C/G] [A/G] [A/G] [A/G] [T/G] [A/T] [A/T] [A/T] [A/G]

13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13

69633096 69633423 69648491 69648491 69683174 69686028 69745622 70015260 70113022 70114200 70171358 70251852 70364274 70397216 70397216 70426650 70442246 70455661 70549126 70571514 70756313 70766028 70844661 70894396 70916286 70928498 70946423 70946423 70953314 70965594 70983390 71114081 71129065 71136143 71196461 71199972 71308731 71331838 71335558 71349751 71352046 71437599 71437599 71533316 71578459 71584914 71614713 71741392 71797243 71802322 71812947 71838318 71892572 71917236 71917236 72091863 72124132 72124132 72124132 72174353

SC

M AN U TE D

AC C

EP

rs1953650 chr13_69633423_A_G rs9317766 rs9317766 rs10220253 rs9599407 rs9592624 chr13_70015260_C_T rs9317822 rs1854744 rs356941 rs4377044 rs9572286 rs17085441 rs17085441 chr13_70426650_G_T chr13_70442246_A_G rs7984606 rs9542142 rs3003202 rs2479924 rs9542210 chr13_70844661_A_C rs1935108 rs9592702 rs17086885 chr13_70946423_A_G chr13_70946423_A_G rs1572077 rs12871614 rs7990185 chr13_71114081_C_T chr13_71129065_A_G rs9542387 rs7139986 chr13_71199972_G_T chr13_71308731_G_T rs9542492 chr13_71335558_C_T rs17087508 rs17087515 rs9572564 rs9572564 rs1937074 rs803853 chr13_71584914_A_C rs9634981 rs10492467 rs9572692 rs12561046 rs2325401 rs7327801 rs1005066 rs1931438 rs1931438 rs2026290 corect_rs116737796 corect_rs116737796 corect_rs116737796 rs9919839

genotype difference Col_12_CB Col_52_CB Col_08_TS Col_52_IF Col_16_TS Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_52_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_16_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_16_TS Col_33_IF Col_16_CB Col_34_IF Col_33_IF Col_33_IF Col_33_IF Col_08_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_CB Col_33_IF Col_12_CB Col_38_IF Col_33_IF Col_52_TS Col_33_IF Col_38_TS Col_33_IF Col_16_TS Col_33_IF Col_12_TS Col_16_TS Col_33_IF Col_33_IF Col_08_TS Col_16_TS Col_12_IF Col_52_CB

RI PT


Marker ID

448

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT TOP TOP BOT BOT BOT TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP MINUS TOP TOP TOP BOT BOT MINUS TOP TOP TOP BOT TOP TOP BOT BOT TOP TOP BOT TOP TOP BOT PLUS TOP TOP TOP BOT BOT BOT

[T/C] [A/G] [T/C] [T/C] [T/C] [A/C] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [A/C] [A/G] [T/C] [T/G] [T/C] [A/G] [T/G] [T/C] [A/G] [A/G] [T/G] [T/G] [T/G] [T/C] [A/G] [A/G] [I/D] [A/G] [A/G] [A/G] [T/A] [T/A] [D/I] [A/G] [A/G] [C/G] [T/C] [A/T] [A/G] [T/C] [T/C] [A/T] [A/T] [T/C] [A/G] [A/G] [T/C] [I/D] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C]

13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13

72212976 72237405 72262816 72300532 72300532 72386157 72386157 72405662 72461129 72461129 72465952 72610915 72661436 72722978 72751359 72898528 72910800 72975694 73047229 73090484 73130726 73136378 73169901 73176451 73194027 73251505 73254305 73270879 73335383 73341704 73343046 73343046 73345735 73349527 73349527 73365160 73366704 73366704 73377405 73408123 73409497 73414267 73414619 73448778 73462744 73481966 73489391 73490994 73500367 73500451 73500710 73502928 73503903 73510898 73524206 73544065 73563385 73567517 73580793 73600277

SC

M AN U TE D

AC C

EP

rs17088358 chr13_72237405_C_T rs17088400 chr13_72300532_C_T chr13_72300532_C_T chr13_72386157_G_T chr13_72386157_G_T chr13_72405662_A_G rs1853791 rs1853791 rs2057588 rs17088724 rs1022958 rs1326685 rs7334564 rs532167 rs521218 rs7319520 rs1886484 chr13_73090484_G_T rs9543000 rs9543004 corect_rs141357234 rs17174681 rs7329746 chr13_73251505_A_G rs7320212 chr13_73270879_A_C chr13_73335383_G_T chr13_73341704_A_G chr13_73343046_A_G chr13_73343046_A_G chr13_73345735_INDEL_T chr13_73349527_C_T chr13_73349527_C_T rs7332615 chr13_73366704_A_T chr13_73366704_A_T chr13_73377405_INDEL_TG chr13_73408123_A_G chr13_73409497_A_G chr13_73414267_C_G chr13_73414619_C_T chr13_73448778_A_T chr13_73462744_A_G chr13_73481966_A_G rs73218772 chr13_73490994_A_T chr13_73500367_A_T chr13_73500451_A_G chr13_73500710_A_G chr13_73502928_C_T chr13_73503903_C_T chr13_73510898_INDEL_T chr13_73524206_C_T rs10492653 chr13_73563385_C_T chr13_73567517_A_G chr13_73580793_A_G chr13_73600277_C_T

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_34_CB Col_38_TS Col_52_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_12_IF Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_16_IF Col_52_IF Col_16_TS Col_52_IF Col_38_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_52_CB Col_16_IF Col_52_IF Col_38_IF Col_38_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_52_TS Col_33_IF Col_52_CB Col_16_TS Col_33_IF Col_16_IF Col_33_CB Col_12_CB Col_33_IF Col_59_TS Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_12_IF Col_33_IF

RI PT


Marker ID

449

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP BOT TOP PLUS TOP TOP BOT TOP TOP TOP BOT TOP BOT BOT TOP BOT TOP BOT TOP TOP BOT TOP BOT BOT TOP TOP TOP

[T/C] [T/C] [A/C] [C/G] [A/T] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/A] [A/G] [A/G] [T/C] [T/G] [T/C] [A/C] [T/G] [T/A] [T/G] [T/G] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [D/I] [A/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/A] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [C/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G]

13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13

73609258 73614573 73623089 73630015 73630033 73641750 73649333 73649333 73649333 73655894 73658447 73658447 73685694 73699989 73708249 73761496 73762433 73770218 73771999 73789378 73816458 73818728 73822240 73822240 73825575 73829235 73829245 73829299 73841986 73841986 73843655 73843655 73858568 73877302 73896567 73905165 73909319 73909322 73913305 73920678 73924902 73946009 73955189 73956912 73962794 73962862 73964367 73967315 74084684 74118175 74165172 74172077 74181971 74196887 74345584 74351996 74373785 74374265 74374265 74386169

SC

M AN U TE D

AC C

EP

chr13_73609258_C_T chr13_73614573_C_T chr13_73623089_G_T chr13_73630015_C_G chr13_73630033_A_T chr13_73641750_C_T rs9573096 rs9573096 rs9573096 chr13_73655894_C_T chr13_73658447_A_G chr13_73658447_A_G chr13_73685694_C_T chr13_73699989_A_T chr13_73708249_A_G rs9600087 chr13_73762433_C_T chr13_73770218_A_C chr13_73771999_C_T chr13_73789378_G_T chr13_73816458_A_C chr13_73818728_A_T chr13_73822240_A_C chr13_73822240_G_T chr13_73825575_C_T chr13_73829235_C_T chr13_73829245_C_T chr13_73829299_C_T chr13_73841986_C_T chr13_73841986_C_T rs4883926 rs4883926 rs6562756 chr13_73877302_A_G chr13_73896567_A_G rs287551 chr13_73909319_G_INDEL chr13_73909322_G_T chr13_73913305_C_T chr13_73920678_C_T chr13_73924902_C_T rs9543335 chr13_73955189_C_T chr13_73956912_A_T chr13_73962794_A_G chr13_73962862_A_G chr13_73964367_C_T chr13_73967315_A_G chr13_74084684_A_G chr13_74118175_C_T chr13_74165172_C_T chr13_74172077_C_G chr13_74181971_C_T chr13_74196887_A_G chr13_74345584_A_G rs61957283 chr13_74373785_A_G chr13_74374265_C_T chr13_74374265_C_T chr13_74386169_C_T

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_38_TS Col_52_TS Col_12_CB Col_52_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_52_IF Col_52_IF Col_12_IF Col_33_IF

RI PT


Marker ID

450

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT TOP TOP BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT TOP TOP TOP TOP TOP BOT TOP BOT TOP BOT TOP TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP

[A/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/C] [T/A] [T/G] [T/G] [A/G] [A/G] [A/G] [T/C] [T/G] [A/G] [T/C] [T/C] [T/A] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [G/C] [T/C] [T/C] [C/G] [C/G] [C/G] [A/G] [A/G] [T/C] [A/G] [T/G] [A/C] [T/G] [A/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G]

13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13

74386833 74386989 74396751 74432322 74436799 74439238 74441345 74441345 74449988 74479290 74530279 74569006 74635988 74729276 74758886 74771739 74790093 74979676 74990369 75138201 75183579 75288544 75361555 75371881 75424980 75425827 75431091 75792189 75825210 75859067 75871453 76003707 76104956 76139267 76154098 76154098 76154098 76184929 76394459 76514239 76560599 76583074 76668715 76726422 76804369 76829562 76829562 76881041 76905589 76926295 76926992 76934497 76937109 76937109 77045531 77045531 77045531 77103335 77134940 77348213

SC

M AN U TE D

AC C

EP

rs1998572 chr13_74386989_A_G rs17061524 chr13_74432322_C_T chr13_74436799_C_T chr13_74439238_C_T chr13_74441345_A_G chr13_74441345_A_G chr13_74449988_C_T chr13_74479290_A_G rs9318232 rs1886514 chr13_74635988_A_T rs10220214 rs17062289 rs7997957 chr13_74790093_A_G rs1931944 rs4883969 rs9318289 rs1326700 rs2328906 rs7999084 chr13_75371881_A_T chr13_75424980_G_T rs2876700 rs10492515 rs9573490 rs1864726 rs11566 chr13_75871453_C_T chr13_76003707_C_G rs9573578 rs75531503 corect_rs117431302 corect_rs117431302 corect_rs117431302 rs1535726 rs9318376 rs9600607 rs9565212 rs7993854 rs2169442 rs9573798 rs1929756 rs1929743 rs1929743 chr13_76881041_A_G rs10507852 rs1757880 chr13_76926992_C_T rs1164517 rs12866529 rs12866529 rs283960 rs283960 rs283960 rs449520 rs17682912 rs12585000

genotype difference Col_52_IF Col_33_IF Col_33_CB Col_59_TS Col_33_CB Col_33_IF Col_38_TS Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_TS Col_52_CB Col_12_TS Col_33_IF Col_33_IF Col_33_CB Col_52_IF Col_16_IF Col_33_IF Col_33_IF Col_33_CB Col_16_IF Col_33_IF Col_38_TS Col_52_IF Col_33_CB Col_33_CB Col_33_IF Col_52_CB Col_08_IF Col_38_TS Col_33_IF Col_16_CB Col_38_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_16_IF Col_52_CB Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_CB Col_52_IF Col_12_IF Col_52_IF Col_12_CB Col_33_IF

RI PT


Marker ID

451

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP TOP TOP BOT BOT BOT BOT MINUS BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP BOT TOP BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP BOT TOP

[A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/G] [I/D] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/C] [A/G] [T/C] [T/G] [T/C] [A/C] [A/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/T] [A/T] [A/T] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/G] [A/G] [A/C] [T/G] [T/C] [A/G] [A/G] [A/G] [T/G] [A/C]

13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13

77348213 77647089 77671144 77949478 78021218 78023511 78023511 78201036 78357782 78398823 78455230 78651299 78687828 78728847 78746265 78778227 78904797 79081458 79198249 79251406 79344968 79396606 79565016 79603929 79729765 79754928 79800102 79824974 79924236 79924236 80000038 80008957 80259570 80460751 80609500 80674615 80677015 80824990 80839644 80901939 81003844 81063521 81063521 81063521 81140566 81141484 81260150 81270998 81284435 81320334 81480220 81529694 81610387 81650046 81740673 81783189 81976638 82083660 82137523 82162860

SC

M AN U TE D

AC C

EP

rs12585000 chr13_77647089_C_T chr13_77671144_C_T rs1927405 rs7317940 rs7335894 rs7335894 rs1323616 rs1144383 chr13_78398824_INDEL_T rs1360371 rs2775118 rs9670070 chr13_78728847_C_T rs2585560 rs4313708 rs2243517 chr13_79081458_C_T rs2296499 rs9601116 rs9565438 rs9574311 rs944512 rs9574348 chr13_79729765_A_C rs2991478 rs7987655 rs9601203 chr13_79924236_C_T chr13_79924236_C_T rs2265381 rs314690 rs28468602 rs7329614 chr13_80609500_A_G chr13_80674615_C_T rs1327310 rs9531036 rs2574780 rs12876395 rs477878 corect_rs117977646 corect_rs117977646 corect_rs117977646 rs2096347 rs2876759 rs9531104 rs7320590 rs1341476 rs1341473 rs4408423 rs7336590 rs1333417 corect_rs118096113 rs17073814 rs7321904 chr13_81976638_A_G rs7985055 rs7318830 rs7321119

genotype difference Col_52_CB Col_12_IF Col_12_CB Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_52_CB Col_16_IF Col_33_IF Col_33_IF Col_12_IF Col_33_CB Col_33_IF Col_16_TS Col_52_CB Col_33_IF Col_12_CB Col_52_IF Col_33_CB Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_45_IF Col_33_CB Col_52_IF Col_34_TS Col_52_CB Col_12_TS Col_33_IF Col_33_IF Col_38_TS Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_52_IF Col_52_CB

RI PT


Marker ID

452

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP BOT TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT TOP TOP TOP BOT TOP TOP BOT BOT TOP TOP BOT BOT TOP TOP BOT TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT TOP BOT

[T/C] [A/G] [A/G] [T/A] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/C] [T/C] [A/G] [A/C] [A/C] [T/A] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/C] [A/C] [A/C] [T/G] [A/G] [T/G] [T/C] [T/C] [T/C] [T/C] [A/C] [T/C]

13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13

82164986 82181945 82192399 82315374 82330081 82330081 82408871 82588741 82662193 82960297 82986268 83011975 83114599 83145481 83157206 83212880 83215812 83215812 83232469 83261323 83460857 83460857 83584806 83631261 83631261 83723963 83791615 83797405 83797405 83809357 83833241 83837607 83862267 84084751 84116860 84116860 84157927 84288341 84342855 84372911 84422029 84422029 84578614 84578614 84674517 84681407 84681407 84681407 84705987 84705987 84705987 84718023 84747196 84762831 84882700 84901724 84901724 84997581 85013168 85052477

SC

M AN U TE D

AC C

EP

rs1413561 rs10507922 rs10467648 chr13_82315374_A_T rs7984951 rs7984951 chr13_82408871_A_G rs17074997 rs7327311 chr13_82960297_C_T rs9575097 rs6563284 rs4128764 rs9565794 rs2000363 rs7999591 rs9546202 rs9546202 chr13_83232469_A_T rs1572097 rs9546257 rs9546257 rs7139684 rs2807409 rs2807409 rs2819255 rs1857665 rs1355654 rs1355654 rs2669191 rs1606404 rs2819239 rs2819247 chr13_84084751_C_T rs9546436 rs9546436 rs9805405 rs2184154 rs9531514 rs79660800 rs11839649 rs11839649 chr13_84578614_A_G chr13_84578614_A_G chr13_84674517_C_T rs9531551 rs9531551 rs9531551 corect_rs147958704 corect_rs147958704 corect_rs147958704 corect_rs150119832 rs9602384 rs7994343 chr13_84882700_C_T rs9546651 rs9546651 chr13_84997581_A_G rs2329329 rs9546709

genotype difference Col_16_IF Col_33_IF Col_52_IF Col_33_IF Col_16_IF Col_52_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_38_CB Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_52_TS Col_16_IF Col_59_TS Col_52_TS Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_12_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_59_TS Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_38_TS Col_52_IF Col_33_IF Col_16_IF Col_38_TS Col_52_IF Col_38_TS Col_45_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_38_TS Col_52_CB

RI PT


Marker ID

453

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT TOP BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP BOT BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT TOP TOP BOT TOP TOP BOT TOP BOT TOP TOP BOT TOP BOT BOT

[T/C] [A/G] [T/C] [A/C] [T/C] [A/T] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [A/C] [T/C] [A/G] [T/G] [T/C] [T/C] [A/C] [T/G] [A/G] [A/C] [A/C] [A/C] [T/A] [T/G] [T/C] [A/G] [A/C] [T/C] [T/C] [T/G] [T/G] [T/G] [A/G] [A/C] [A/G] [A/G] [T/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/C] [T/C] [A/C] [T/C] [A/C] [A/C] [T/C] [A/G] [T/C] [T/G]

13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13

85103540 85125778 85160784 85167691 85251717 85274936 85475383 85572420 85598986 85824831 85849251 85859751 85874689 86237717 86237717 86386087 86444121 86515857 86540939 86540939 86555764 86581820 86592646 86641372 86660314 86660314 86953915 86963707 86976449 87002553 87005528 87068836 87147777 87168039 87168039 87168039 87237714 87319596 87424814 87424814 87473692 87496155 87526241 87582059 87641756 87641756 87740516 87780625 87977036 88003455 88145354 88221212 88284595 88305836 88452682 88578671 88605127 88622740 88731761 88736744

SC

M AN U TE D

AC C

EP

rs1374419 rs1446756 chr13_85160784_C_T rs1012862 rs9565964 rs78035902 rs1526014 rs17078997 chr13_85598986_A_G rs9531720 rs7984088 rs2497394 rs2497405 rs1753768 rs1753768 rs17080149 rs10161634 rs4499132 rs7331515 rs7331515 rs7337342 chr13_86581820_G_T rs7999501 chr13_86641372_A_C rs4911031 rs4911031 rs12585842 rs4772827 rs9589644 rs9302073 chr13_87005528_A_C rs1502060 rs9555661 rs9560180 rs9560180 rs9560180 rs7324246 rs9522938 rs78344312 rs78344312 chr13_87473692_G_T rs4098228 chr13_87526241_A_G rs4773693 rs9589777 rs9589777 rs6492715 rs9516498 rs9513196 rs9300394 chr13_88145354_G_T chr13_88221212_A_G rs3013624 rs1414007 rs2027158 rs12866357 chr13_88605127_A_G rs9586149 chr13_88731761_A_G rs1413279

genotype difference Col_33_IF Col_12_CB Col_52_IF Col_52_IF Col_33_IF Col_52_TS Col_33_IF Col_52_TS Col_12_CB Col_52_IF Col_52_IF Col_33_IF Col_52_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_08_TS Col_33_TS Col_33_IF Col_33_IF Col_08_TS Col_33_CB Col_16_IF Col_52_IF Col_12_CB Col_12_CB Col_38_TS Col_52_TS Col_33_IF Col_33_IF Col_52_IF Col_08_IF Col_16_IF Col_52_IF Col_38_TS Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_38_CB Col_59_TS Col_33_IF Col_52_IF Col_52_IF Col_33_IF Col_52_IF Col_33_IF Col_45_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

454

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

MINUS MINUS BOT TOP BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT TOP BOT TOP BOT BOT TOP BOT TOP BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT TOP TOP TOP BOT TOP BOT

[D/I] [D/I] [T/C] [A/G] [T/C] [T/C] [A/G] [T/G] [A/G] [T/G] [T/C] [T/C] [G/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [T/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/A] [A/G] [T/G] [A/C] [T/C] [T/C] [A/C] [T/A] [T/A] [T/C] [T/C] [A/C] [T/C] [A/C] [A/C] [A/G] [T/G] [A/G] [A/G] [A/G] [G/C] [A/C] [T/G]

13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13

88907784 88907784 88954258 88960710 89002387 89063985 89159334 89192085 89193343 89230193 89240807 89250736 89319839 89323544 89362463 89430466 89430466 89516229 89547173 89684262 89732251 89817399 89833568 89855595 89898500 90072819 90072819 90085219 90121026 90192152 90230057 90234944 90252671 90427950 90465893 90475036 90567204 90667343 90691075 90711524 90732315 90763957 90768888 90916444 90965684 90965684 91036455 91113541 91180473 91188066 91431589 91515582 91553313 91563159 91575904 91612826 91613419 91625236 91641396 91648440

SC

M AN U

TE D

chr13_88907784_INDEL_TAATGG chr13_88907784_INDEL_TAATGG rs7998069 rs9520170 rs9520317 rs2347141 rs12584112 rs4387460 rs9559492 rs1413457 rs10467236 rs4520697 rs75037814 chr13_89323544_C_T chr13_89362463_C_T chr13_89430466_C_T chr13_89430466_C_T chr13_89516229_A_G kgp9440151 rs1411562 rs7999197 rs9522451 rs9670057 rs2166202 rs314565 chr13_90072819_C_T chr13_90072819_C_T chr13_90085219_A_G chr13_90121026_A_C rs9301581 rs883616 rs9560398 rs12865763 chr13_90427950_A_G rs7987642 rs9560453 rs10507980 rs9588835 rs9583770 chr13_90711524_G_T rs9560548 rs9583786 rs9805500 rs3903916 chr13_90965684_A_T chr13_90965684_A_T rs12855016 rs2065212 rs1929048 rs1929045 rs272079 rs7998196 chr13_91553313_A_G rs55962639 rs9523195 rs7331965 rs9523211 rs9523215 rs4238294 rs7985642

genotype difference Col_16_IF Col_59_TS Col_33_IF Col_33_IF Col_08_CB Col_52_IF Col_38_TS Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_52_IF Col_16_TS Col_33_IF Col_33_CB Col_38_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_TS Col_33_IF Col_52_IF Col_52_TS Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_16_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB

RI PT


Marker ID

455

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP BOT TOP TOP TOP BOT TOP BOT BOT TOP TOP TOP TOP BOT TOP TOP BOT TOP BOT TOP BOT BOT

[T/G] [A/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [A/G] [T/C] [T/C] [T/C] [A/C] [A/C] [A/G] [T/C] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [A/C] [A/G] [A/C] [A/G] [A/G] [A/G] [T/G] [T/G] [A/G] [C/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/G] [T/G] [A/C] [A/C] [A/C] [A/C] [T/C] [A/C] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C]

13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13

91769463 91857856 91990799 92035329 92135437 92149352 92190146 92210051 92268295 92268846 92287315 92297886 92319454 92319454 92509181 92527649 92554839 92554839 92554839 92610004 92621568 92733984 92800625 92890333 92902619 92939398 92939398 92939398 93088651 93145448 93213476 93218565 93298523 93356886 93369869 93462285 93462285 93477843 93495513 93649767 93678771 93678771 93729285 94046788 94139382 94148882 94148882 94233129 94233129 94391588 94396563 94399256 94792504 94826895 94880219 94969140 95013920 95262116 95465834 95465982

SC

M AN U TE D

AC C

EP

rs515097 chr13_91857856_G_T rs7324952 chr13_92035329_C_T rs9515931 rs950725 rs1414721 rs1414720 rs10492615 rs725040 rs9301747 rs57341317 rs1365874 rs1365874 rs7992519 chr13_92527649_A_G chr13_92554839_C_T chr13_92554839_C_T chr13_92554839_C_T rs1411516 rs9583976 rs7992170 chr13_92800625_A_G rs7997543 chr13_92902619_A_C chr13_92939398_A_G chr13_92939398_A_G chr13_92939398_A_G rs4771859 rs2149062 rs1413191 rs16947802 chr13_93298523_A_G rs17233808 rs1933192 chr13_93462285_G_T chr13_93462285_G_T rs913005 chr13_93495513_C_G rs79684128 rs11070039 rs11070039 rs9561252 rs2762115 rs12020313 rs6492664 rs6492664 rs7998314 rs7998314 rs12584151 rs7139537 rs4773758 chr13_94792504_A_C chr13_94826895_C_T rs944838 rs4281581 rs12584548 rs6492722 kgp16620362 kgp16759923

genotype difference Col_33_IF Col_16_TS Col_33_IF Col_16_CB Col_12_IF Col_34_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_52_CB Col_12_TS Col_52_IF Col_16_TS Col_33_CB Col_12_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_34_CB Col_12_IF Col_12_CB Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_33_TS Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_12_TS Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_16_TS Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF

RI PT


Marker ID

456

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT TOP BOT BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP

[G/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/C] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [G/C] [T/G] [T/C] [T/G] [T/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/T] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/G] [A/C] [A/G] [A/G] [A/G] [A/T] [A/C] [A/G] [A/C] [A/G] [A/G]

13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13

95564854 95589571 95634313 95634313 95647008 95672171 95673361 95673361 95673518 95815415 95822873 95839040 95849597 95973747 96001349 96004144 96045643 96163350 96186575 96234753 96830749 96851824 97031280 97113999 97238553 97399014 97418188 97418188 97515015 97753278 97893771 97901005 97983768 98142657 98710672 98953619 98961316 99011437 99123029 99315793 99340771 99353439 99356612 99521326 100317494 100648099 100648099 100692439 100782092 100787374 101036028 101241987 101303875 101421328 101523781 101535111 101550773 101578518 101615538 101789681

SC

M AN U TE D

AC C

EP

rs9590116 chr13_95589571_C_T rs2148065 rs2148065 rs9556447 kgp16762959 kgp16691471 kgp16691471 rs4148551 rs3765534 rs11568664 rs11568668 rs1751021 rs7330559 rs9524937 rs1113424 rs2992894 rs4771918 rs9561897 rs7324781 rs7338183 rs943560 chr13_97031280_C_T chr13_97113999_C_T kgp10775946 rs7983691 rs17697212 rs17697212 chr13_97515015_A_G chr13_97753278_C_T chr13_97893771_C_T chr13_97901005_A_T rs9556701 chr13_98142657_C_T chr13_98710672_A_G rs7334751 rs2772357 rs12020194 chr13_99123029_A_G rs4412849 kgp5708669 chr13_99353439_G_T kgp5525764 chr13_99521326_C_T rs12427494 rs1347190 rs1347190 rs9557367 rs1890139 rs9557389 rs2253446 corect_rs149416600 rs9518124 chr13_101421328_A_G chr13_101523781_A_T rs639606 rs11069418 rs3886516 rs9557565 rs652498

genotype difference Col_34_TS Col_33_IF Col_52_IF Col_12_IF Col_33_IF Col_52_CB Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_38_CB Col_12_CB Col_33_IF Col_38_IF Col_52_TS Col_33_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_TS Col_52_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_12_CB Col_12_CB Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_16_IF Col_16_TS Col_12_CB Col_33_IF

RI PT


Marker ID

457

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP BOT TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP BOT BOT BOT TOP BOT BOT TOP BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP

[T/C] [T/C] [T/C] [A/G] [A/C] [A/G] [T/C] [T/C] [T/C] [T/A] [A/G] [A/G] [A/G] [T/C] [A/C] [T/C] [C/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [T/G] [A/G] [T/C] [T/G] [A/G] [T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [A/C] [T/G] [T/G] [T/C] [A/C] [T/C] [A/C] [T/C] [T/C] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G] [T/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G]

13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13

101889659 101926493 102057787 102128322 102183928 102226219 102298969 102318970 102318970 102407311 102444621 102444621 102444621 102493223 102637160 102665794 102710976 102737812 102776065 102778965 102779944 102862657 102901403 102977374 103103615 103104224 103135443 103187140 103194007 103315467 103410710 103449630 103543243 103588159 103781493 103839122 103896040 103896399 103896492 103978779 103995014 104057214 104093490 104127101 104141150 104141150 104141150 104202819 104233132 104281438 104346132 104618944 104643542 104686362 104718344 104718344 104735744 104735744 104750929 104880695

SC

M AN U TE D

AC C

EP

rs76381069 rs517505 chr13_102057787_A_G rs7998783 rs9300677 rs9557703 rs1436262 rs7994613 rs7994613 chr13_102407311_A_T rs978268 rs978268 rs978268 chr13_102493223_A_G rs2476211 rs9557787 chr13_102710976_C_G chr13_102737812_C_T chr13_102776065_A_G rs615746 chr13_102779944_A_G rs1336700 rs1415060 rs9518702 rs9518729 chr13_103104224_C_T rs1927369 rs7993988 rs9518768 chr13_103315467_G_T rs9585989 rs12585042 rs12870278 chr13_103588159_A_G rs2699338 rs9518949 chr13_103896040_A_G chr13_103896399_A_C chr13_103896492_G_T rs3918334 rs10162035 rs9582698 rs9805483 rs9519051 corect_rs115841030 corect_rs115841030 corect_rs115841030 rs2390908 rs16962695 rs7317234 rs1331519 rs1336608 chr13_104643542_G_T chr13_104686362_C_T rs7985719 rs7985719 rs2575108 rs2575108 rs713607 rs7321683

genotype difference Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_12_IF Col_33_IF Col_16_IF Col_38_TS Col_45_TS Col_34_CB Col_12_CB Col_12_CB Col_52_CB Col_34_CB Col_33_IF Col_08_CB Col_33_CB Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_12_IF Col_52_TS Col_33_IF Col_16_IF Col_16_TS Col_38_TS Col_59_TS Col_38_TS Col_16_IF Col_33_IF Col_16_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_TS Col_16_TS Col_52_TS Col_12_CB Col_34_CB

RI PT


Marker ID

458

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP BOT BOT BOT BOT TOP BOT TOP BOT TOP TOP TOP TOP BOT TOP TOP TOP PLUS

[T/C] [A/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/G] [T/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [G/C] [G/C] [A/G] [T/C] [A/G] [T/G] [G/C] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [A/C] [T/G] [T/C] [T/C] [T/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/C] [A/G] [A/G] [T/C] [A/C] [A/G] [A/G] [D/I]

13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13

104935038 105033724 105036861 105069064 105119100 105162139 105247086 105310908 105386461 105409934 105409934 105523811 105585149 105588931 105618641 105628137 105672514 105767386 105801422 105883929 105908875 106028435 106143282 106249309 106446477 106651616 106651616 106672155 106862224 106913330 106931017 106937974 107018547 107193761 107418058 107509719 107566858 107640752 107682425 107732423 107812595 107921060 107936632 107955634 108035568 108035568 108108804 108121676 108222677 108385341 108412131 108416681 108554706 108591472 108661809 108692984 108714780 108863591 108927503 108960381

SC

M AN U

TE D

rs7993171 chr13_105033724_A_C rs7489359 chr13_105069064_C_T rs5012127 rs9558312 rs9514296 chr13_105310908_A_G rs10492584 rs16965301 rs16965301 rs2031638 rs725818 rs7998181 chr13_105618641_C_T rs4414341 chr13_105672514_A_G rs7330661 rs7986013 rs16966144 rs4485213 chr13_106028435_A_G rs56158118 rs1549059 rs2025924 chr13_106651616_C_G chr13_106651616_C_G chr13_106672155_A_G rs7338679 rs354468 rs7983975 chr13_106937974_C_G chr13_107018547_A_C chr13_107193761_A_G rs8002967 rs2629861 rs840225 rs1333187 chr13_107682425_C_T rs2769896 rs4772854 rs9555338 rs9520362 rs9555343 rs9670033 rs9670033 rs2274041 chr13_108121676_A_G rs9520493 rs16971011 chr13_108412131_A_G rs17445433 rs1771090 rs843839 rs9520696 rs9555430 rs4426221 rs1805388 rs17564816 chr13_108960381_GCTG_INDEL

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_52_CB Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_08_IF Col_52_IF Col_33_IF Col_16_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_38_IF Col_52_IF Col_33_IF Col_12_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_34_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_16_IF Col_45_IF Col_16_IF Col_34_CB Col_33_IF Col_33_CB Col_33_IF Col_52_IF Col_33_IF

RI PT


Marker ID

459

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT MINUS BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT BOT PLUS TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT

[T/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [A/G] [T/C] [I/D] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [A/G] [T/G] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/G] [T/G] [C/G] [A/C] [T/C] [T/C] [D/I] [A/G] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [A/G] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/A]

13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 13 14 14 14 14 14 14

109077137 109222947 109276151 109293358 109293358 109293358 109326104 109327788 109552380 109602395 109605541 109650530 109658341 109782568 109827038 109827038 109827038 109833855 109846326 109901997 110129583 110198930 110268254 110324112 110352302 110548423 110582921 110800326 110950035 110984609 111073422 111203481 111246255 111273307 111657053 111928712 112027966 112027966 112186283 112245133 112285873 112326384 112629455 112663451 112679137 112693236 112693236 112812337 113501954 113536467 113745402 113790269 113861606 114318239 20213937 20452460 20486424 20492492 20613169 20650246

SC

M AN U TE D

AC C

EP

rs2391646 rs9587617 chr13_109276151_A_G rs16972864 rs16972864 rs16972864 rs8002348 rs9284246 chr13_109552380_G_T chr13_109602395_A_G rs4773013 chr13_109650530_INDEL_T rs7990382 rs9521184 chr13_109827038_C_T chr13_109827038_C_T chr13_109827038_C_T chr13_109833855_A_G rs9301355 rs8002089 rs7985759 rs9521421 chr13_110268254_A_C rs331980 chr13_110352302_A_G rs9515125 rs8000641 chr13_110800326_G_T chr13_110950035_A_G chr13_110984609_A_G corect_rs9521754 rs2182271 rs7334268 chr13_111273307_C_T rs9522055 chr13_111928712_C_T rs2770240 rs2770240 chr13_112186283_C_G chr13_112245133_G_T rs9522321 rs7323244 chr13_112629455_GT_INDEL chr13_112663451_C_T chr13_112679137_C_T rs11164143 rs11164143 rs7989963 chr13_113501954_A_G rs36048052 chr13_113745402_C_T chr13_113790269_C_T rs9549691 chr13_114318239_A_G rs17114296 rs1959607 rs12882698 rs12882648 corect_rs138608043 chr14_20650246_A_T

genotype difference Col_33_IF Col_33_CB Col_33_IF Col_16_IF Col_38_TS Col_52_IF Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_38_TS Col_12_IF Col_33_CB Col_33_CB Col_33_IF Col_38_TS Col_12_CB Col_12_CB Col_12_CB Col_52_TS Col_33_CB Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_16_TS Col_08_TS Col_38_TS Col_33_IF Col_33_CB Col_33_IF Col_52_IF Col_12_IF Col_12_CB Col_33_IF Col_12_TS Col_08_TS Col_16_TS Col_12_CB Col_12_CB Col_16_TS Col_38_TS Col_12_TS Col_33_IF Col_33_CB Col_16_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_TS

RI PT


Marker ID

460

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP BOT BOT BOT BOT TOP TOP BOT TOP TOP BOT TOP TOP TOP BOT TOP BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT TOP TOP BOT BOT TOP BOT BOT TOP BOT BOT TOP BOT TOP BOT BOT BOT

[T/A] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/C] [A/G] [T/C] [A/G] [A/C] [A/C] [T/C] [A/C] [T/C] [A/G] [T/G] [T/G] [T/G] [T/C] [T/C] [A/G] [A/C] [A/C] [A/C] [T/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/C] [A/G] [T/C] [A/C] [A/G] [T/C] [T/C] [A/G] [T/G] [T/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/A] [T/C] [T/C]

14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14

20650246 20867489 20867489 20940626 20982909 21060565 21168084 21184482 21206023 21424048 21473015 21665502 21683674 22010960 22076610 22091105 22101945 22218156 22246805 22331196 22350389 22350389 22350389 22387839 22590996 22778072 22844970 23007033 23007033 23009498 23305649 23576611 23628466 23661068 23661068 24147729 24156410 24186221 24186221 24718515 24765684 24796813 24830850 25246553 25300510 25383572 25453920 25504988 26107742 26133060 26133060 26150510 26175996 26191633 26298109 26320661 26347026 26471244 26491366 26538918

SC

M AN U TE D

AC C

EP

chr14_20650246_A_T rs938892 rs938892 rs1130650 rs10139456 rs4981264 chr14_21168084_C_T rs8015364 rs8019026 chr14_21424048_A_G chr14_21473015_A_C rs8006593 chr14_21683674_C_T rs1041856 chr14_22076610_A_C rs2049786 rs4982475 chr14_22218156_G_T rs12897392 rs2293710 chr14_22350389_G_T chr14_22350389_G_T chr14_22350389_G_T rs7493100 rs2178785 rs10151567 rs4982619 chr14_23007033_A_C chr14_23007033_A_C chr14_23009498_G_T chr14_23305649_C_T chr14_23576611_C_T rs4982736 rs17256106 rs17256106 rs1015731 rs11849787 rs7161478 rs7161478 rs2229463 rs2295306 chr14_24796813_A_C chr14_24830850_C_T rs854347 rs7143576 rs1957764 rs7157481 rs10141197 rs4141720 rs10873327 rs10873327 rs12893752 rs2145512 rs11159473 rs75507314 rs8016126 rs7149685 chr14_26471244_A_T chr14_26491366_A_G rs12432888

genotype difference Col_12_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_45_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_52_TS Col_33_IF Col_34_TS Col_33_IF Col_38_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_38_IF Col_33_IF Col_33_IF Col_08_CB Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_59_TS Col_33_IF Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_52_CB

RI PT


Marker ID

461

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP BOT BOT PLUS BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT TOP TOP BOT TOP BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP BOT TOP BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT

[A/T] [A/G] [A/C] [A/G] [A/G] [A/G] [C/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [D/I] [T/C] [A/G] [A/G] [A/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/C] [A/C] [T/C] [A/G] [T/C] [T/G] [A/G] [A/G] [T/C] [T/G] [T/C] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/C] [T/C] [A/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/G] [T/G] [T/A] [T/C]

14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14

26625415 26710271 26719152 26794580 27002379 27002379 27036930 27176244 27187098 27192237 27192237 27252783 27259487 27279456 27299892 27375233 27375233 27441159 27466799 27487414 27596242 27645698 27654462 27786671 27857578 27894155 27955331 28091333 28333418 28335122 28347045 28484921 28500775 28554374 28591117 28624052 28626409 28691428 28723795 28744493 28744493 28744493 28837590 28868211 28875740 28914670 28984189 29069545 29203701 29278843 29500106 29723614 29735061 29735061 29800691 29800691 29836773 29836773 29840609 30032637

SC

M AN U TE D

AC C

EP

rs60631866 rs1950857 rs10133359 rs77810036 chr14_27002379_C_T chr14_27002379_C_T chr14_27036930_C_G rs1950415 rs2207558 rs17111632 rs17111632 rs61639227 rs12883738 chr14_27279456_C_INDEL rs8021626 rs73609727 rs73609727 rs1028530 rs17112061 rs12880634 rs1951762 chr14_27645698_A_G rs12435892 chr14_27786671_A_G rs1955205 rs10142990 rs1892554 rs4983260 rs4143693 rs10132723 rs8008404 rs2807822 rs17095485 rs12894838 rs1191373 chr14_28624052_A_C chr14_28626409_A_G chr14_28691428_A_G chr14_28723795_C_T rs10140960 rs10140960 rs10140960 rs10483336 rs996912 rs8008977 rs996766 rs12893088 chr14_29069545_G_T rs1955452 rs17549431 rs7141236 rs11625899 chr14_29735061_C_T chr14_29735061_C_T rs7151485 rs7151485 rs11161052 rs11161052 chr14_29840609_A_T rs7160881

genotype difference Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_45_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_12_CB Col_38_TS Col_52_IF Col_33_IF Col_52_IF Col_16_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_12_CB Col_16_IF Col_33_IF Col_38_TS Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_16_IF Col_33_IF Col_52_IF Col_34_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_38_IF Col_12_CB Col_52_IF Col_12_IF Col_33_IF Col_52_TS Col_38_IF Col_52_IF

RI PT


Marker ID

462

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP TOP BOT BOT BOT TOP BOT TOP BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT

[T/C] [T/C] [A/C] [A/C] [A/C] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/C] [T/G] [T/G] [T/G] [A/G] [T/G] [A/T] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [T/C] [T/C]

14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14

30038255 30270030 30412439 30450769 30489965 30489965 30540709 30551605 30587928 30594657 30656078 30656078 30927619 30943040 31092937 31233659 31271487 31294502 31532203 31958566 32019884 32019884 32203068 32327950 32495466 32510319 32512709 32534297 32562522 32562522 32586914 32695421 32816363 32888245 32925432 32939228 32941522 32942539 32942539 32964338 32998038 33076327 33082025 33082025 33207522 33252855 33302882 33357350 33381098 33578103 33578918 33606407 33606407 33606407 33608237 33608237 33613040 33614303 33807653 33815800

SC

M AN U TE D

AC C

EP

chr14_30038255_C_T chr14_30270030_C_T chr14_30412439_A_C chr14_30450769_A_C rs10138555 rs10138555 chr14_30540709_A_G rs4981064 rs8011977 rs225848 rs1956461 rs1956461 chr14_30927619_A_G chr14_30943040_A_G chr14_31092937_G_T rs179539 rs2518659 rs7144413 rs12892791 rs10872853 chr14_32019884_A_G chr14_32019884_A_G chr14_32203068_A_G chr14_32327950_C_T chr14_32495466_C_T chr14_32510319_G_T chr14_32512709_C_T rs17477697 chr14_32562522_A_G chr14_32562522_A_G chr14_32586914_C_T rs17098611 chr14_32816363_A_G rs12050166 rs17410904 rs9285570 chr14_32941522_A_G rs1111692 rs1111692 rs6571530 rs10149121 chr14_33076327_A_C chr14_33082025_G_T chr14_33082025_G_T rs2300835 chr14_33252855_A_G chr14_33302882_G_T chr14_33357350_A_T rs12146962 rs969112 rs10483423 rs7158594 rs7158594 rs7158594 rs8011345 rs8011345 rs72676785 chr14_33614303_A_C rs4981187 rs8018810

genotype difference Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_08_TS Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_52_IF Col_33_IF Col_52_TS Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_45_IF Col_52_CB Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_52_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_38_IF Col_52_IF Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_52_CB Col_33_IF Col_52_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

463

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT TOP TOP TOP

[T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [A/C] [A/G] [A/C] [A/T] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G]

14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14

33867774 33891677 34186045 34192427 34200151 34322746 34467340 34941298 34969433 35334555 35408548 35408548 35830938 35928836 36001418 36069923 36249574 36371632 36398888 36661897 36672026 36720733 36726409 36726409 36783118 36819183 36954088 36954088 36980700 36990291 37050484 37239005 37256859 37278322 37308840 37389296 37396600 37425029 37583758 37995269 38111870 38111870 38146748 38248936 38277999 38357864 38357864 38419315 38478384 38590205 38625943 38798583 38958967 38970364 39041292 39129964 39208712 39351577 39351577 39355462

SC

M AN U TE D

AC C

EP

chr14_33867774_A_G chr14_33891677_A_C rs9806087 chr14_34192427_C_T rs8014172 rs10498324 rs7147170 rs10135853 rs7151149 rs10136352 rs712314 rs712314 rs12879818 rs1185837 chr14_36001418_C_T chr14_36069923_C_T rs1169032 rs723204 rs11626914 rs1755768 rs1114852 rs2244414 chr14_36726409_C_T chr14_36726409_C_T chr14_36783118_C_T chr14_36819183_G_T rs11851246 rs11851246 rs11626201 chr14_36990291_A_G chr14_37050484_A_C chr14_37239005_A_T chr14_37256859_A_G rs7144852 rs4539512 rs712399 chr14_37396600_C_T chr14_37425029_A_G chr14_37583758_C_T chr14_37995269_A_G rs177852 rs177852 rs1951646 rs1040952 rs4901284 rs11156974 rs11156974 rs12432452 chr14_38478384_A_C rs4901596 rs2803921 rs928102 rs2415482 rs11849615 rs10136113 chr14_39129964_C_T rs12897869 rs2145604 rs2145604 rs4902223

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_52_IF Col_33_IF Col_33_CB Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_34_TS Col_33_IF Col_38_CB Col_33_CB Col_38_TS Col_38_CB Col_33_CB Col_33_CB Col_08_CB Col_16_TS Col_33_IF Col_16_TS Col_33_IF Col_38_CB Col_16_IF Col_33_IF Col_52_IF Col_33_IF Col_52_IF Col_52_CB Col_33_IF Col_33_TS Col_16_TS Col_52_IF Col_52_CB Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_38_IF Col_52_IF Col_08_TS

RI PT


Marker ID

464

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT TOP TOP BOT TOP BOT TOP BOT BOT TOP BOT BOT TOP BOT TOP BOT TOP BOT TOP TOP TOP TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP BOT TOP

[A/G] [A/G] [T/C] [T/C] [A/G] [A/C] [T/C] [A/C] [T/C] [A/G] [T/A] [T/C] [A/G] [T/C] [G/C] [A/C] [T/C] [A/G] [T/C] [A/C] [T/C] [A/G] [A/C] [A/G] [A/C] [A/G] [T/G] [T/G] [A/G] [T/C] [A/C] [A/G] [A/C] [A/G] [T/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/G] [T/G] [A/C] [T/C] [T/G] [T/G] [A/G] [A/G] [A/G] [T/G] [A/C] [A/C] [A/C] [A/C] [A/G] [T/C] [A/G]

14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14

39355462 39376260 39539941 39539941 39721979 40088351 40092345 40110065 40410279 40460206 40493711 40506299 40605718 40664273 40793080 40824636 40864697 40864806 40913662 40938636 40941475 41104162 41220049 41293308 41347156 41373700 41505942 41505942 41535299 41547184 41554600 41561217 41714717 41715348 41715396 41720074 41724908 41724908 41725138 41727929 41727929 41749630 41749630 41752700 41775149 41881857 41906289 41935052 41941632 42029782 42420968 42593041 42718728 42950533 42950533 42950533 42950533 42963333 42980846 43014023

SC

M AN U TE D

AC C

EP

rs4902223 rs12717274 rs7140282 rs7140282 exm1098204 rs8004337 rs7155109 rs4243636 rs10146802 rs438079 chr14_40493711_A_T chr14_40506299_A_G rs4625645 rs10220530 chr14_40793080_C_G rs12891221 rs2210311 chr14_40864806_C_T rs1952951 chr14_40938636_A_C chr14_40941475_A_G rs12590223 rs1037229 rs12588150 rs7154359 rs1158542 rs61983996 rs61983996 rs1959928 rs8011820 chr14_41554600_G_T rs7148798 rs1779522 chr14_41715348_A_G chr14_41715396_A_C chr14_41720074_A_G chr14_41724908_A_G chr14_41724908_A_G chr14_41725138_A_G chr14_41727929_C_T chr14_41727929_C_T rs1652931 rs1652931 rs7144520 chr14_41775149_G_T rs1431034 rs17781222 rs10131062 rs78749338 kgp6890522 chr14_42420968_C_T rs8014476 chr14_42718728_A_C chr14_42950533_G_T chr14_42950533_G_T chr14_42950533_G_T chr14_42950533_G_T chr14_42963333_C_T rs75329409 rs1909459

genotype difference Col_52_IF Col_16_TS Col_16_TS Col_45_IF Col_16_TS Col_16_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_45_TS Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_33_CB Col_16_TS Col_52_IF Col_33_IF Col_33_IF Col_16_IF Col_12_CB Col_33_IF Col_38_CB Col_45_TS Col_38_TS Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_38_CB Col_12_IF Col_52_IF Col_33_IF Col_12_CB Col_38_CB Col_12_CB Col_33_IF Col_33_IF Col_16_TS Col_16_IF Col_33_IF Col_52_IF Col_52_IF Col_12_IF Col_33_IF Col_33_IF Col_38_TS Col_45_TS Col_52_TS Col_12_CB Col_52_CB Col_33_IF Col_52_IF

RI PT


Marker ID

465

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT PLUS BOT BOT BOT BOT TOP BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT TOP MINUS BOT TOP BOT BOT BOT BOT

[A/G] [T/C] [A/C] [T/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/G] [T/C] [T/C] [A/C] [A/C] [A/C] [A/G] [A/G] [T/G] [T/G] [T/G] [T/G] [A/C] [T/C] [A/G] [G/C] [T/G] [T/G] [T/C] [A/G] [C/G] [C/G] [A/G] [T/G] [T/C] [I/D] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [I/D] [T/G] [A/G] [T/C] [G/C] [G/C] [T/C]

14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14

43085583 43087011 43118714 43207572 43277107 43519088 43568639 43696331 43773651 43801743 43854103 43901600 43930714 43930714 43970288 44207416 44207416 44331104 44581629 44651628 44751053 44751053 44751053 44844572 44862795 45149773 45161799 45254884 45254884 45458324 45578043 45623938 45623938 45636336 45644816 45654531 45671899 46096991 46096991 46156680 46212510 46271706 46376259 46474288 46620980 46629104 46732338 46732338 46781200 46786935 46808469 46808469 46825242 46861672 46906052 46962969 46963280 46971147 46971147 47087315

SC

M AN U TE D

AC C

EP

rs8009697 rs10138772 rs8006558 chr14_43207572_G_T rs17113522 rs1888374 chr14_43568639_A_G rs3919704 rs6572191 rs12883037 rs2131783 corect_rs113441979 chr14_43930714_A_G chr14_43930714_A_G chr14_43970288_G_T rs8012882 rs8012882 rs8016223 rs1950548 rs2415842 corect_rs117550297 corect_rs117550297 corect_rs117550297 rs1958500 rs12433092 rs8013665 chr14_45161799_C_G chr14_45254884_A_C chr14_45254884_A_C chr14_45458324_A_G rs11847336 chr14_45623938_C_G chr14_45623938_C_G chr14_45636336_C_T chr14_45644816_A_C chr14_45654531_C_T chr14_45671899_INDEL_T chr14_46096991_C_T chr14_46096991_C_T rs2130181 rs1266227 rs1958167 rs10872993 rs1957139 rs2218098 rs1256224 rs858893 rs858893 rs12147827 rs8004890 rs72670520 rs72670520 rs12879458 chr14_46861673_A_INDEL rs1669794 rs754960 rs2642103 chr14_46971147_C_G chr14_46971147_C_G rs79619803

genotype difference Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_16_IF Col_38_CB Col_33_IF Col_34_CB Col_52_CB Col_33_IF Col_34_IF Col_33_IF Col_38_CB Col_12_IF Col_33_IF Col_16_IF Col_33_IF Col_08_CB Col_34_TS Col_52_IF Col_38_CB Col_33_IF Col_52_IF Col_12_CB Col_16_TS Col_52_IF Col_52_CB Col_12_CB Col_16_TS Col_12_CB Col_33_IF Col_34_CB Col_33_IF Col_16_CB Col_08_CB Col_33_IF Col_33_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_TS Col_52_CB Col_33_IF Col_12_CB Col_52_IF Col_12_CB Col_33_IF

RI PT


Marker ID

466

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP BOT BOT TOP TOP TOP BOT TOP BOT TOP BOT BOT BOT TOP TOP BOT TOP BOT TOP TOP BOT TOP BOT MINUS BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT TOP

[T/C] [A/C] [A/C] [T/C] [T/C] [A/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/G] [A/G] [A/G] [T/G] [A/G] [T/C] [D/I] [T/C] [T/G] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [T/G] [A/C] [A/C] [T/C] [T/C] [T/C] [T/C] [T/G] [T/G] [A/C] [T/C] [T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G]

14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14

47290636 47386441 47395801 47396215 47504832 47613681 47637781 47702350 47879170 47901745 47937849 48005148 48271636 48271636 48271636 48413039 48423639 48451906 48467133 48510590 48554933 48561599 48742231 48999212 49082812 49123402 49154469 49184558 49249877 49310623 49395873 49395873 49742926 49886697 49886697 49886697 50131846 50251369 50429179 50449704 50571472 50571472 50714985 50845850 50911001 50911878 50946850 50946850 51248863 51372606 51549451 51549451 51552126 51606541 51734779 51792719 51830366 51867607 51867875 51900599

SC

M AN U

TE D

chr14_47290636_A_G rs2933192 rs12888829 rs12893532 rs17117935 rs10145691 rs9323126 rs10148628 chr14_47879170_C_T rs17682114 rs2207538 chr14_48005148_A_C rs10131739 rs10131739 rs10131739 rs8014848 rs2139832 rs696525 rs712450 rs712476 rs1543745 rs10136533 rs4424839 rs12586499 rs10498410 chr14_49123402_INDEL_TAAAC rs1953917 rs1953913 rs2816722 rs7159588 rs12147817 rs12147817 rs2790613 rs74045923 rs74045923 rs74045923 rs3218791 rs10143621 rs17121913 chr14_50449704_A_C rs4900987 rs4900987 rs743075 chr14_50845850_A_G chr14_50911001_C_T rs34818002 chr14_50946850_G_T chr14_50946850_G_T chr14_51248863_G_T rs2027341 chr14_51549451_C_T chr14_51549451_C_T rs4901076 rs4594175 chr14_51734779_C_T chr14_51792719_A_G rs8019638 rs17123869 chr14_51867875_A_G rs7156042

genotype difference Col_12_CB Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_52_CB Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_16_CB Col_33_TS Col_38_CB Col_33_IF Col_16_TS Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_34_IF Col_38_CB Col_33_IF Col_33_IF Col_38_IF Col_52_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_33_IF Col_33_CB Col_52_IF Col_33_IF Col_52_IF Col_33_IF Col_12_IF Col_34_TS Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

467

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT TOP TOP BOT BOT BOT TOP BOT BOT PLUS TOP BOT TOP MINUS BOT BOT TOP TOP MINUS MINUS TOP PLUS TOP TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT PLUS TOP BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP BOT TOP TOP TOP TOP

[A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/C] [T/G] [T/G] [D/I] [A/C] [T/C] [A/G] [D/I] [T/C] [T/C] [A/C] [A/C] [D/I] [I/D] [A/G] [D/I] [A/G] [A/G] [A/G] [A/T] [T/C] [A/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [D/I] [C/G] [T/C] [T/C] [C/G] [T/C] [A/G] [A/C] [A/G] [A/G] [A/T] [A/G] [T/C] [T/A] [A/G] [A/G] [T/A] [A/G] [A/G] [A/G] [A/G]

14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14

51916763 51961642 51965307 52003903 52011650 52214983 52250365 52331224 52336682 52564970 52788472 52890955 52898667 52927155 52954804 52958323 53077358 53079198 53178303 53196348 53211348 53241256 53313405 53349505 53399337 53399337 53399337 53407180 53427174 53455487 53470916 53501292 53531085 53537999 53540374 53772291 53774625 53774625 53825551 53847671 53869516 53872374 53872374 53927865 53928865 53951054 53997831 54001235 54065665 54092916 54121160 54149309 54155963 54180470 54182738 54192900 54196841 54196841 54196841 54196841

SC

M AN U

TE D

rs7158425 chr14_51961642_A_G rs1956571 rs4901134 chr14_52011650_C_T rs11621312 rs4441186 rs7152036 rs12878420 rs17125102 rs1254593 rs36223991 chr14_52898667_G_T chr14_52927155_A_G rs77656929 chr14_52958323_AAAC_INDEL rs7161013 rs71422094 rs10483616 rs12893498 chr14_53211348_AAC_INDEL chr14_53241257_INDEL_T chr14_53313405_C_T chr14_53349505_AAGCA_INDEL rs8012109 rs8012109 rs8012109 rs11621741 rs57151582 chr14_53455487_G_T chr14_53470916_A_G chr14_53501292_A_G chr14_53531085_C_T chr14_53537999_C_T chr14_53540374_C_T chr14_53772291_A_G chr14_53774625_A_G rs4143691 rs1255296 chr14_53847671_G_INDEL rs72675706 rs78847210 rs78847210 rs11157971 rs17126546 rs17126582 rs72675756 rs77602022 rs210328 chr14_54092916_A_T rs58090473 rs11622391 rs210374 rs17635203 rs210339 rs28624598 chr14_54196841_C_T chr14_54196841_C_T chr14_54196841_C_T chr14_54196841_C_T

genotype difference Col_33_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_52_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_52_IF Col_38_IF Col_33_CB Col_33_IF Col_33_IF Col_08_CB Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_16_TS Col_52_IF Col_38_CB Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_38_IF Col_16_TS Col_33_IF Col_38_TS Col_45_IF

RI PT


Marker ID

468

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP PLUS BOT TOP TOP BOT BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT BOT MINUS TOP TOP BOT TOP TOP PLUS BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT

[A/G] [A/C] [T/C] [T/C] [A/C] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/T] [A/G] [I/D] [T/C] [A/C] [A/G] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [T/A] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [D/I] [A/G] [A/G] [T/C] [A/G] [A/C] [I/D] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [T/C]

14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14

54202262 54228617 54229945 54231091 54243884 54271466 54323359 54343685 54343685 54343685 54358685 54371582 54371582 54406388 54443339 54458599 54463334 54463354 54479110 54510483 54515021 54523091 54554234 54554234 54554234 54556511 54568959 54569247 54584142 54585843 54586040 54588772 54592962 54598965 54602303 54658055 54658402 54661615 54661897 54692957 54777745 54807414 54807541 54827982 54857286 54876184 54900521 54900521 54943727 54996630 54997751 54997751 54998523 55005535 55310492 55310492 55315908 55617844 55618767 55880047

SC

M AN U

TE D

rs7161711 rs79288025 chr14_54229945_C_T chr14_54231091_C_T rs4901450 chr14_54271466_A_C chr14_54323359_A_G rs35280621 rs35280621 rs35280621 rs8010333 rs10498464 rs10498464 rs2181735 rs8011798 chr14_54458599_INDEL_TGA rs7141833 rs17127137 rs11621010 rs75629731 rs12434106 rs61984774 rs1570405 rs1570405 rs1570405 rs1885717 rs7150340 rs1951674 rs2050671 rs12588241 rs1572614 rs17636839 rs12890619 rs11622022 rs7155216 rs2358480 rs10129794 rs8011813 rs8012357 rs79026784 rs7147119 chr14_54807414_ACACCC_INDEL rs2358662 rs8018917 rs4293296 chr14_54876184_C_T chr14_54900521_A_C chr14_54900521_AC_INDEL rs17253480 rs17127622 rs34839928 rs34839928 chr14_54998523_A_G rs17832137 rs841 rs841 rs10131232 rs11622740 rs79682078 rs1009647

genotype difference Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_CB Col_52_TS Col_59_CB Col_34_CB Col_08_IF Col_16_TS Col_34_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_59_TS Col_33_IF Col_12_CB Col_33_IF Col_16_IF Col_52_IF Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_38_CB Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_16_IF Col_52_IF Col_33_IF Col_34_TS Col_33_IF Col_33_IF Col_33_IF Col_38_CB

RI PT


Marker ID

469

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP BOT TOP TOP BOT TOP MINUS BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT BOT TOP BOT TOP

[T/C] [T/C] [A/G] [A/G] [A/T] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/A] [T/A] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/C] [A/C] [T/C] [A/G] [D/I] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/G] [A/G] [T/C] [T/G] [T/G] [A/T] [T/C] [A/G]

14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14

56034108 56147696 56208747 56427972 56431404 56522061 56764934 56882605 57221139 57309063 57441980 57586212 57598022 57662776 57913994 58182848 58229845 58229845 58290779 58460588 58493944 58742095 59000262 59031281 59044676 59111742 59117595 59117595 59184529 59208640 59208640 59214954 59235190 59236425 59261099 59324562 59324562 59324562 59333930 59360782 59419753 59492768 59500972 59544697 59677937 59738829 59760405 59979823 59979823 60309485 60426228 60426228 60498579 60750365 60811999 60856105 61022789 61105635 61176485 61200585

SC

M AN U TE D

AC C

EP

chr14_56034108_C_T rs17128677 chr14_56208747_C_T chr14_56427972_C_T chr14_56431404_A_T rs1152455 chr14_56764934_A_G rs10149783 chr14_57221139_A_G rs7161116 rs7144734 chr14_57586212_A_G rs4898927 corect_rs112292237 rs77172135 rs7151111 chr14_58229845_A_T chr14_58229845_A_T rs10142654 rs1046451 rs11847792 chr14_58742095_A_G rs12895026 rs74334978 rs78495778 chr14_59111742_C_T rs74521617 rs74521617 rs7141538 rs856381 rs856381 rs7142082 rs77761127 rs7146277 rs78345495 rs77825385 rs77825385 rs77825385 rs2042770 rs8014737 rs12589340 rs10135889 rs2064770 chr14_59544697_A_G chr14_59677937_G_INDEL chr14_59738829_G_T rs1252993 chr14_59979823_A_G chr14_59979823_A_G rs10137605 rs150682 rs150682 rs17834334 rs8012816 rs8015152 chr14_60856105_A_C rs1950317 chr14_61105635_A_T rs2180830 kgp4394111

genotype difference Col_12_CB Col_33_IF Col_33_CB Col_34_CB Col_52_CB Col_33_CB Col_16_TS Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_34_CB Col_33_IF Col_38_TS Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_08_CB Col_33_IF Col_34_IF Col_33_IF Col_08_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_CB Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_34_CB Col_38_TS Col_33_IF Col_33_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF

RI PT


Marker ID

470

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT BOT TOP TOP BOT TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP BOT BOT TOP TOP MINUS BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT

[T/C] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/G] [T/G] [A/G] [T/C] [T/A] [T/A] [T/A] [A/G] [T/A] [T/C] [A/G] [A/G] [T/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [I/D] [T/C] [T/C] [T/A] [T/A] [A/C] [A/C] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C]

14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14

61283970 61284500 61316264 61316264 61333363 61336550 61336550 61665733 61742945 61744462 61744462 61898580 61898580 61998143 62112641 62185295 62185295 62185295 62189531 62231799 62357416 62495582 62520869 62526170 62533165 62540356 62557328 62585953 62611803 62611803 62611803 62619654 62953477 62954445 63091941 63220051 63322347 63642726 63652792 63930242 63967502 64185532 64263373 64284467 64561570 64714003 64714003 64873599 65379146 65379146 65719805 65836377 65853273 65961867 66048872 66418032 66558515 66725775 66898156 67114438

SC

M AN U TE D

AC C

EP

rs10148248 chr14_61284500_A_C rs3783819 rs3783819 rs2025967 chr14_61336550_A_G chr14_61336550_A_G chr14_61665733_A_G chr14_61742945_A_G rs74541115 rs74541115 rs17098351 rs17098351 chr14_61998143_C_T rs11845359 chr14_62185295_A_T chr14_62185295_A_T chr14_62185295_A_T rs4899056 rs55892309 rs73258426 rs10143188 rs10138060 rs7148675 chr14_62533165_A_G chr14_62540356_C_T chr14_62557328_A_G rs10150174 rs12147829 rs12147829 rs12147829 chr14_62619654_A_G rs8007616 rs7150844 rs9788478 rs7161467 rs8012941 rs12147456 rs10483764 chr14_63930242_C_T chr14_63967502_C_T chr14_64185532_C_T chr14_64263374_INDEL_T chr14_64284467_C_T corect_rs147576799 corect_rs139594265 corect_rs139594265 rs8003379 chr14_65379146_A_C chr14_65379146_A_C rs12588253 chr14_65836377_C_T rs10083346 chr14_65961867_C_T rs7146993 chr14_66418032_C_T rs12588780 rs17103412 rs1902644 corect_rs116223058

genotype difference Col_08_IF Col_33_IF Col_33_IF Col_52_CB Col_52_IF Col_38_CB Col_52_CB Col_33_IF Col_34_CB Col_34_CB Col_12_CB Col_16_TS Col_33_CB Col_12_IF Col_33_IF Col_34_CB Col_38_IF Col_12_CB Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_TS Col_38_CB Col_12_CB Col_52_IF Col_33_IF Col_52_TS Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_38_IF Col_52_IF Col_08_TS Col_12_CB Col_33_IF Col_52_CB Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF

RI PT


Marker ID

471

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT TOP BOT TOP BOT TOP TOP TOP BOT BOT BOT TOP BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP MINUS TOP BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT MINUS TOP TOP

[T/C] [A/G] [T/C] [A/G] [T/C] [A/C] [T/C] [A/G] [A/C] [A/G] [T/C] [T/C] [T/A] [C/G] [T/C] [A/C] [T/C] [T/G] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/G] [T/G] [A/G] [A/G] [A/G] [A/G] [D/I] [A/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/C] [A/C] [T/C] [T/G] [T/G] [T/C] [A/G] [T/C] [A/C] [T/C] [T/C] [T/C] [I/D] [A/G] [A/G]

14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14

67114438 67224071 67300549 67349390 67405412 67677375 68059834 68060533 68207889 68277209 68329020 68384790 68389043 68401945 68409355 68413769 68414810 68450277 68458677 68473243 68476880 68477263 68477263 68477263 68477263 68481382 68484775 68484775 68485001 68485103 68485127 68485127 68488324 68488324 68500427 68500427 68535719 68546338 68550295 68570429 68570429 68573219 68581256 68583179 68588310 68592471 68592476 68606222 68608754 68608754 68637465 68641788 68671605 68671723 68710630 68714351 68716121 68808223 68919613 68923501

SC

M AN U TE D

AC C

EP

corect_rs116223058 chr14_67224071_C_T kgp19471225 chr14_67349390_C_T chr14_67405412_C_T rs6573760 chr14_68059834_A_G chr14_68060533_A_G rs12587408 rs181566 rs72725119 rs4902536 rs7145044 rs10136790 chr14_68409355_A_G rs7151917 rs12894539 rs72725149 rs10143843 rs11622787 rs72725158 rs72725159 rs72725159 rs72725159 rs72725159 rs7158544 rs72725163 rs72725163 rs10140097 rs10129355 rs79623674 rs79623674 rs72725165 rs72725165 rs11621638 rs11621638 rs34316302 rs1548264 rs10139236 rs8014524 rs8014524 rs373918 rs408156 rs440627 rs411547 rs418467 rs418462 rs2588831 chr14_68608754_G_T chr14_68608754_G_T rs959039 rs2588815 rs12588124 rs1028842 chr14_68710630_A_G chr14_68714351_C_T chr14_68716121_C_T rs72244192 chr14_68919613_A_G chr14_68923501_C_T

genotype difference Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_52_IF Col_33_IF Col_08_IF Col_33_TS Col_38_CB Col_52_IF Col_38_CB Col_33_IF Col_52_CB Col_33_IF Col_52_TS Col_33_IF Col_34_CB Col_33_CB Col_38_TS Col_38_TS Col_45_IF Col_33_IF Col_12_TS Col_33_IF Col_38_TS Col_52_IF Col_33_IF Col_38_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_45_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_08_CB Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

472

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP BOT TOP BOT TOP BOT TOP BOT MINUS TOP BOT BOT TOP BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT TOP BOT BOT BOT TOP TOP PLUS BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP MINUS TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT TOP

[T/G] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [A/C] [T/C] [I/D] [A/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/T] [T/A] [T/C] [A/C] [T/C] [T/C] [T/G] [A/G] [A/G] [I/D] [T/C] [T/C] [T/C] [A/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [A/C] [A/C] [A/G] [A/G] [A/G] [D/I] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [A/G] [C/G] [T/A] [A/G]

14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14

68925093 68959711 68982793 68986157 68996564 69077688 69131962 69311842 69350528 69493375 69494352 69553221 69592209 69592209 69777216 69826159 69826159 69866838 70218714 70479157 70642278 70753475 71086918 71102540 71111874 71136540 71172013 71342414 71343331 71441858 71842729 71887452 72319271 72492771 72512248 72849509 72882983 73689629 73689629 73689629 73689629 73791197 73847907 74103616 74103616 74315163 74317000 74843427 74979651 75164845 75178693 75801084 75912479 75947726 75947726 75978121 76144828 76259681 76340772 76586364

SC

M AN U TE D

AC C

EP

rs1468279 rs4899244 rs72727496 rs11624164 rs9323514 rs17834971 rs17835218 chr14_69311842_A_G rs12431732 rs910846 rs35143122 chr14_69553221_G_T rs1275405 rs1275405 rs897325 rs12884802 rs12884802 rs12385913 corect_rs112263580 rs11628857 rs715305 chr14_70753475_C_T chr14_71086918_A_T rs76539701 rs7140236 chr14_71136540_A_C rs12589041 chr14_71342414_C_T rs12589331 rs12892577 rs8015644 chr14_71887453_INDEL_T rs7141201 rs11849254 chr14_72512248_A_G rs2239223 rs2877796 rs362393 rs362393 rs362393 rs362393 chr14_73791197_A_G chr14_73847907_G_T rs17182446 rs17182446 rs12431457 rs17092737 chr14_74843427_A_G chr14_74979651_G_INDEL chr14_75164845_C_T rs12434646 rs12879500 rs2359795 rs11620943 rs11620943 rs175707 chr14_76144828_A_G chr14_76259681_C_G chr14_76340772_A_T rs2543352

genotype difference Col_33_IF Col_33_IF Col_38_IF Col_34_TS Col_38_TS Col_33_IF Col_52_TS Col_33_IF Col_38_IF Col_33_IF Col_16_TS Col_33_IF Col_33_CB Col_38_TS Col_52_TS Col_33_CB Col_52_TS Col_33_IF Col_33_IF Col_34_CB Col_34_TS Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_16_IF Col_38_TS Col_52_CB Col_12_IF Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_CB Col_33_CB Col_38_TS Col_52_CB Col_33_IF Col_52_IF Col_08_TS Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

473

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP BOT BOT BOT TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP MINUS BOT TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP TOP BOT TOP TOP BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT

[T/C] [A/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/C] [T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [T/G] [T/G] [T/G] [C/G] [C/G] [D/I] [T/G] [A/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [G/C] [C/G] [C/G] [T/C] [A/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [G/C] [G/C] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/A] [G/C] [A/G] [T/A] [T/A] [T/C] [A/G] [T/C]

14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14

76639020 76938089 76983007 77169428 77169428 77169428 77287411 77507205 77616002 77680624 77794283 78448241 78796967 79016243 79076952 79076952 79076952 79101989 79101989 79105127 79404084 79419128 79527040 79656536 79890677 79890677 80057755 80157796 80373231 80381002 80381002 80461046 80893007 80893007 80915590 80950307 80971261 81008723 81014905 81053008 81124336 81124336 81192479 81239929 81366183 81366183 81501957 81534440 81546601 81590327 81594380 81836996 81869491 81889500 81953242 82048576 82048576 82137009 82159365 82171783

SC

M AN U TE D

AC C

EP

chr14_76639020_C_T chr14_76938089_G_T chr14_76983007_A_G corect_rs111363066 corect_rs111363066 corect_rs111363066 rs10136518 chr14_77507205_G_T rs158120 rs454840 rs1046428 rs12894888 rs11623035 rs12892757 rs17835333 rs17835333 rs17835333 rs7142482 rs7142482 chr14_79105127_G_INDEL chr14_79404084_G_T rs2272293 rs1566675 rs17108889 rs2370982 rs2370982 rs7149260 rs2160919 rs10483936 chr14_80381002_A_G chr14_80381002_A_G chr14_80461046_C_G chr14_80893007_C_G chr14_80893007_C_G rs6574575 rs12147045 chr14_80971261_C_T rs11851154 rs7160604 rs2044772 rs10498546 rs10498546 rs2619676 rs12590477 chr14_81366183_C_G chr14_81366183_C_G rs1005292 chr14_81534440_C_T chr14_81546601_A_G rs6574628 rs3783938 chr14_81836996_C_T rs4290414 rs10134500 rs2236179 corect_rs113217859 corect_rs113217859 rs10131960 chr14_82159365_C_T chr14_82171783_A_G

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_34_TS Col_34_CB Col_33_IF Col_52_IF Col_33_CB Col_38_TS Col_52_CB Col_12_IF Col_38_IF Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_16_IF Col_12_CB Col_16_IF Col_38_CB Col_52_IF Col_33_IF Col_52_IF Col_16_TS Col_33_CB Col_33_IF Col_38_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_52_IF Col_33_IF Col_38_TS Col_52_IF Col_33_IF Col_33_IF Col_16_TS Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

474

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP TOP BOT BOT MINUS MINUS MINUS TOP TOP BOT TOP BOT BOT BOT BOT PLUS PLUS BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT TOP BOT BOT BOT MINUS TOP TOP BOT BOT TOP TOP TOP TOP BOT

[A/C] [T/C] [A/G] [A/G] [T/C] [T/C] [I/D] [I/D] [I/D] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [I/D] [I/D] [T/C] [T/C] [A/G] [T/G] [A/G] [A/G] [A/G] [A/G] [A/C] [A/C] [A/C] [A/C] [A/G] [T/C] [T/C] [T/G] [T/G] [A/G] [A/G] [A/G] [A/C] [T/C] [T/A] [T/A] [A/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/G] [I/D] [A/G] [A/C] [T/C] [T/G] [A/G] [A/C] [A/G] [A/G] [T/C]

14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14

82258639 82290189 82390571 82667287 82696019 82849498 82872027 82872027 82872027 82894760 82971039 82996850 83009916 83014614 83074684 83083591 83083591 83151388 83151388 83180050 83180050 83200746 83228383 83313772 83313772 83313772 83313772 83322964 83322964 83345293 83345293 83354656 83358315 83376380 83439714 83439714 83443695 83460492 83479176 83587297 83638555 83736112 83844451 83892327 83907716 83907716 83967155 84062837 84062837 84076381 84078678 84102999 84104409 84114680 84148251 84204106 84217575 84282660 84383419 84463196

SC

M AN U TE D

AC C

EP

rs8006442 chr14_82290189_C_T chr14_82390571_A_G chr14_82667287_A_G rs12431724 rs1152422 chr14_82872028_INDEL_T chr14_82872028_INDEL_T chr14_82872028_INDEL_T rs799253 chr14_82971039_A_G rs10150944 rs8005995 rs1542966 rs1123814 chr14_83083591_C_T chr14_83083591_C_T chr14_83151389_INDEL_T chr14_83151389_INDEL_T rs17117189 rs17117189 rs1242532 rs2150330 rs17117498 rs17117498 rs17117498 rs17117498 chr14_83322964_A_C chr14_83322964_A_C rs79239290 rs79239290 chr14_83354656_C_T rs12880473 rs10498556 rs10148054 rs10148054 rs10143718 rs1263462 rs2245088 rs10131371 chr14_83638555_A_G rs76258093 chr14_83844451_A_T rs1241966 rs229782 rs229782 rs8014412 rs8005256 rs8005256 rs1953454 chr14_84078679_A_INDEL rs2152407 rs1953450 rs10139139 kgp4243084 chr14_84204106_C_T chr14_84217575_G_T rs1705662 chr14_84383419_A_G rs10139559

genotype difference Col_38_IF Col_16_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_16_CB Col_33_CB Col_12_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_08_CB Col_38_CB Col_16_TS Col_12_CB Col_38_CB Col_52_IF Col_33_IF Col_52_TS Col_33_IF Col_52_CB Col_16_IF Col_33_CB Col_52_IF Col_12_IF Col_34_TS Col_52_CB Col_45_IF Col_52_IF Col_45_IF Col_33_IF Col_33_IF Col_16_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_59_TS Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_52_IF Col_33_IF Col_08_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_12_CB

RI PT


Marker ID

475

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT TOP BOT TOP BOT BOT TOP BOT BOT TOP BOT BOT BOT TOP BOT TOP TOP BOT TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT TOP MINUS MINUS TOP TOP TOP BOT TOP BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP BOT TOP

[T/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/C] [T/C] [T/C] [A/G] [T/C] [T/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/G] [A/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [D/I] [D/I] [A/G] [A/G] [A/G] [T/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/C] [A/G] [A/G] [T/C] [A/G]

14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14

84540979 84592080 84614521 84614521 84620966 84638109 84775969 84814110 85046837 85203389 85315409 85561018 85582417 85582873 85676102 85749111 85809613 85826542 85868336 85884306 85921398 85977518 86048187 86287347 86389435 86403495 86404140 86417743 86417743 86611366 86672135 86760171 86760171 86764480 86799697 86810501 86849124 86849124 86875954 86898200 87132443 87132444 87266428 87266428 87318232 87320278 87342981 87384188 87384188 88349218 88374210 88504941 88726576 88726576 89040317 89042180 89089239 89128751 89149210 89445503

SC

M AN U TE D

AC C

EP

chr14_84540979_A_C chr14_84592080_C_T chr14_84614521_C_T chr14_84614521_C_T chr14_84620966_A_G rs4904166 rs17707121 chr14_84814110_A_G rs1813404 rs1110775 rs8022702 chr14_85561018_G_T chr14_85582417_C_T chr14_85582873_C_T rs1667541 rs766698 chr14_85809613_A_G rs7143281 chr14_85868336_G_T rs10498593 chr14_85921398_C_T rs1997894 rs1473706 rs8015527 rs12586207 rs4904279 rs4287496 rs7150968 rs7150968 rs9323783 rs12895930 rs17122066 rs17122066 chr14_86764480_C_T rs10484099 chr14_86810501_C_T chr14_86849124_A_G chr14_86849124_A_G rs17122299 rs10484102 chr14_87132443_AC_INDEL chr14_87132444_C_INDEL rs12434656 rs12434656 rs11624476 rs10498606 rs17187078 rs12891095 rs12891095 rs1450706 chr14_88374210_C_T chr14_88504941_C_T corect_rs144436360 corect_rs144436360 rs12431517 rs1469602 rs1144913 rs7149951 rs12589481 rs78689848

genotype difference Col_33_IF Col_52_IF Col_34_CB Col_12_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_08_IF Col_38_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_16_CB Col_52_IF Col_33_IF Col_33_IF Col_38_CB Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_TS Col_16_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_52_IF Col_12_CB Col_33_IF Col_16_TS Col_38_IF Col_12_CB Col_33_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_52_CB

RI PT


Marker ID

476

IlmnStrand

SNP

Chr

MapInfo

TOP PLUS BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP PLUS BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP TOP BOT TOP TOP BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP

[A/G] [I/D] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [T/C] [A/G] [T/C] [T/C] [A/C] [A/G] [T/C] [T/C] [A/C] [A/G] [A/G] [A/G] [A/G] [I/D] [G/C] [A/T] [A/C] [A/C] [A/G] [A/T] [A/T] [A/T] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [G/C] [T/C] [T/G] [T/C] [T/C] [A/G] [T/C] [A/G]

14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14

89445503 89511904 89629390 89629390 89648421 89681615 89696914 89723020 90082265 90257399 90310012 90613246 90636206 90652040 90685594 90788934 91306972 91402481 91677628 91747292 91766712 91830706 91840153 91890156 91923213 91928908 92007501 92073434 92145075 92146825 92160156 92160156 92160156 92191350 92197769 92197769 92309802 92309802 92442496 92561883 92561883 92722629 92728159 92822137 92836463 92838693 92863554 92882826 92934509 93049865 93065602 93089242 93132080 93173641 93331734 93349444 93472215 93487124 93619520 93685577

SC

M AN U TE D

AC C

EP

rs78689848 chr14_89511905_INDEL_T rs3742680 rs3742680 rs8017349 rs12587608 rs7148212 rs1890392 chr14_90082265_C_T rs11624003 chr14_90310012_G_T chr14_90613246_A_G chr14_90636206_A_G rs3088170 rs4900028 chr14_90788934_A_C chr14_91306972_A_G c14_pos90472234 rs10130134 chr14_91747292_G_T rs8012328 chr14_91830706_C_T chr14_91840153_A_G rs1951244 rs34367341 rs17224453 chr14_92007501_A_T chr14_92073434_G_T rs7161259 chr14_92146825_A_G chr14_92160156_A_T chr14_92160156_A_T chr14_92160156_A_T rs3814837 chr14_92197769_C_T chr14_92197769_C_T rs72705319 rs72705319 exm1121816 chr14_92561883_A_G chr14_92561883_A_G chr14_92722629_A_G chr14_92728159_A_G chr14_92822137_A_G chr14_92836463_C_T chr14_92838693_A_G chr14_92863554_A_G chr14_92882826_A_G rs7154308 chr14_93049865_C_T chr14_93065602_A_G rs11160080 chr14_93132080_C_G chr14_93173641_A_G rs927293 chr14_93349444_C_T rs17128737 chr14_93487124_A_G rs17128900 chr14_93685577_A_G

genotype difference Col_12_IF Col_38_CB Col_16_TS Col_12_CB Col_12_CB Col_12_CB Col_33_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_34_TS Col_33_CB Col_33_IF Col_38_IF Col_33_IF Col_45_IF Col_34_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_38_IF Col_33_IF Col_34_TS Col_52_IF Col_52_IF Col_12_IF Col_33_IF Col_33_IF Col_52_CB Col_33_CB Col_33_IF Col_33_CB Col_12_TS Col_33_TS Col_16_TS Col_34_CB Col_12_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_12_CB Col_33_CB Col_33_IF Col_33_IF

RI PT


Marker ID

477

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP BOT TOP BOT BOT BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP BOT BOT PLUS BOT TOP BOT TOP BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT

[A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/A] [T/A] [T/C] [A/G] [A/T] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/C] [A/G] [A/G] [A/C] [A/G] [A/C] [A/T] [A/G] [T/C] [T/C] [A/G] [A/G] [T/G] [T/C] [I/D] [T/C] [A/G] [T/C] [A/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/A] [G/C] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C]

14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14

93988980 94055113 94072219 94101249 94308934 94332837 94796184 94796184 94929019 94961153 95132513 95133688 95429154 95497723 95534869 95661129 96044301 96117784 96229863 96275153 96291861 96560092 96802611 97105150 97322892 97728040 98167975 98168827 98312102 98449920 98483831 98518162 98725340 98737964 98774992 98821528 99193587 99215915 99294498 99294498 99553301 99770138 99770138 100233353 100999848 101234985 101475770 101514371 101572098 102393120 102729910 103445909 103648523 104264471 104402336 104765052 104819550 104819550 104819550 104937554

SC

M AN U TE D

AC C

EP

rs1004553 kgp5758491 chr14_94072219_C_T chr14_94101249_A_G rs12147189 rs8017732 rs61280460 rs61280460 rs17090908 rs1951014 chr14_95132513_A_T rs1955650 chr14_95429154_C_T rs12891219 rs2353726 rs2282276 rs2273750 rs8018690 rs12050375 rs4328368 rs10142784 rs3825577 chr14_96802611_G_T rs234569 exm1126180 chr14_97728040_A_T chr14_98167975_C_T chr14_98168827_A_G chr14_98312102_C_T rs8005571 rs8010215 rs12436399 rs1892233 chr14_98737965_INDEL_T rs9743626 rs7156559 chr14_99193587_C_T rs17097768 rs17097874 rs17097874 chr14_99553301_C_T rs2614467 rs2614467 rs11160546 rs10135979 chr14_101234985_C_T rs8181978 rs10132916 chr14_101572098_A_T chr14_102393120_C_G chr14_102729910_C_T chr14_103445909_C_T chr14_103648523_G_T chr14_104264471_C_T rs2208431 chr14_104765052_C_T chr14_104819550_C_T chr14_104819550_C_T chr14_104819550_C_T rs28684681

genotype difference Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_12_CB Col_34_TS Col_52_IF Col_52_CB Col_08_CB Col_52_TS Col_33_IF Col_33_IF Col_12_CB Col_52_TS Col_52_CB Col_33_IF Col_33_IF Col_38_CB Col_12_CB Col_33_CB Col_33_IF Col_52_TS Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_33_TS Col_16_IF Col_52_IF Col_12_IF Col_52_IF Col_33_IF Col_38_TS Col_12_CB Col_33_IF Col_52_TS Col_34_TS Col_33_IF Col_12_CB Col_38_IF Col_34_CB Col_16_TS Col_38_IF Col_34_CB Col_16_TS Col_33_IF Col_16_TS Col_33_CB Col_12_CB Col_12_CB

RI PT


Marker ID

478

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT TOP BOT TOP BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT BOT TOP TOP BOT BOT TOP MINUS TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP

[A/G] [A/G] [A/G] [T/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [G/C] [A/C] [A/G] [T/C] [T/C] [A/G] [I/D] [A/G] [A/C] [A/C] [A/G] [T/C] [T/G] [T/G] [T/C] [A/C] [A/G] [T/G] [A/G] [T/G] [T/G] [T/G] [T/C] [T/C] [G/C] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [A/C] [A/G] [T/C] [T/C] [A/G]

14 14 14 14 14 14 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15

105059801 105346203 105346203 105385516 106679654 107222493 22778880 22846932 22866621 22866621 22869547 23750690 23809721 23999405 24058888 24117257 24213615 24286246 24310262 24369643 24449391 24530736 24668007 24886177 25046679 25114867 25115126 25137068 25137068 25350474 25524532 25837597 25868044 25943342 25945434 26068608 26073922 26128942 26280460 26352905 26354419 26372713 26377775 26525980 26532333 26738785 26759063 26844242 26894979 27120385 27120385 27133469 27228404 27279014 27307958 27378830 27455850 27506927 27507035 27586134

SC

M AN U TE D

AC C

EP

chr14_105059801_C_T chr14_105346203_A_G chr14_105346203_A_G chr14_105385516_G_T chr14_106679654_C_T rs10133227 rs6606788 chr15_22846932_A_G rs11632888 rs11632888 rs17137279 rs1608962 rs12441827 corect_rs117529690 chr15_24058888_A_G rs1459985 rs4778368 rs7179664 rs11161396 rs1110961 corect_rs117351422 rs9652534 rs7174746 rs12594489 rs7175416 rs12592215 rs12592279 rs2133127 rs2133127 rs8033133 rs35108928 chr15_25837597_C_T rs3850428 chr15_25943342_A_C chr15_25945434_A_G rs17116234 chr15_26073922_A_C rs11161249 chr15_26280460_A_G chr15_26352905_G_T rs11854068 chr15_26372713_A_C chr15_26377775_A_G chr15_26525980_A_C rs920114 rs8027455 rs2928715 chr15_26844242_C_T chr15_26894979_C_G chr15_27120385_A_G chr15_27120385_A_G chr15_27133469_A_C rs1432132 rs10519582 rs4340300 rs208176 rs12907392 chr15_27506927_C_T chr15_27507035_C_T chr15_27586134_A_G

genotype difference Col_45_IF Col_33_CB Col_38_TS Col_33_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_16_IF Col_38_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_38_TS Col_12_IF Col_52_TS Col_33_IF Col_38_TS Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_38_TS Col_33_IF Col_38_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_CB Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_33_IF Col_52_TS Col_33_CB

RI PT


Marker ID

479

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP PLUS BOT TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT

[T/C] [T/C] [A/G] [D/I] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/G] [A/C] [A/G] [T/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [T/G] [T/G] [T/G] [A/G] [A/G] [A/G] [A/C] [T/C] [A/G] [A/C] [A/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [T/C]

15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15

27982921 28532639 28962131 29412466 29584194 29684658 29718086 30180728 30204142 30208654 30246601 30291799 31123235 31154700 31208727 31231190 31369498 31505262 31579587 31829707 31829707 32067075 32079959 32191902 32257903 32304780 32307793 32406022 32414756 32421829 32910476 32925874 32957565 32957565 32957565 32994843 33006415 33006415 33020928 33026288 33062103 33066195 33066195 33068284 33069304 33069304 33081688 33094167 33112815 33171453 33191023 33193401 33235071 33243346 33251727 33256251 33285405 33287284 33305614 33309800

SC

M AN U TE D

AC C

EP

rs76727258 chr15_28532639_C_T rs8036234 chr15_29412466_CTT_INDEL rs7165879 chr15_29684658_C_T rs538077 chr15_30180728_C_T rs867026 rs1719336 chr15_30246601_A_C chr15_30291799_G_T rs798081 rs1524878 rs7176351 rs565 rs7180591 chr15_31505262_A_G rs11070905 chr15_31829707_C_T chr15_31829707_C_T rs905432 rs17684549 rs6494039 rs12442622 rs28495614 rs34504266 rs74874994 rs67107029 rs73369042 chr15_32910476_C_T rs28666957 rs74011141 rs74011141 rs74011141 rs9888701 rs12594148 rs12594148 rs16973303 rs62002611 rs1258728 rs75798403 rs75798403 rs74011957 rs80062147 rs80062147 rs78547913 rs12148180 rs16959173 rs34592087 rs173224 rs2034609 rs79965647 rs68097867 rs6494794 rs11637012 rs163835 rs78624471 rs55959252 rs7174332

genotype difference Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_12_IF Col_34_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_TS Col_33_CB Col_33_IF Col_16_IF Col_33_CB Col_33_IF Col_33_IF Col_38_TS Col_52_TS Col_12_TS Col_12_CB Col_16_TS Col_33_IF Col_33_IF Col_16_TS Col_33_CB Col_16_IF Col_33_IF Col_33_IF Col_16_TS Col_33_CB Col_52_TS Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_34_IF

RI PT


Marker ID

480

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP BOT TOP BOT BOT TOP TOP TOP BOT BOT BOT TOP BOT BOT TOP BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT

[T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/G] [A/G] [T/C] [T/C] [T/G] [T/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/C] [T/C] [A/G] [T/C] [T/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/G] [T/C] [T/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/G] [T/C]

15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15

33309800 33309800 33350034 33364222 33371203 33402700 33404649 33410566 33410566 33417957 33439811 33456483 33460966 33484202 33488929 33489957 33528427 33531483 33531483 33548166 33548166 33890650 34071305 34173857 34173857 34173857 34193131 34215897 34436702 34481168 34504160 35006322 35026251 35337899 35369388 35388646 35431395 35448187 35742076 35973730 35985688 36079418 36179832 36209869 36217163 36239105 36327430 36454842 36520505 36592031 36592578 36618505 36652459 36667773 36667773 37070821 37101763 37145990 37341661 37352910

SC

M AN U TE D

AC C

EP

rs7174332 rs7174332 rs75538279 chr15_33364222_C_T rs78716515 chr15_33402700_C_T rs345764 rs4780081 rs4780081 rs12902782 rs7165262 rs76540084 rs10519799 rs1567848 rs16966649 rs17817006 rs2292547 chr15_33531483_A_C chr15_33531483_A_C rs7178946 rs7178946 rs2467561 rs7169486 rs72716841 rs72716841 rs72716841 rs592907 rs580413 rs16958835 rs4587944 rs8040071 rs549811 rs7164642 chr15_35337899_C_T chr15_35369388_C_T rs35010196 rs11073083 rs4923912 rs11853690 chr15_35973730_A_C rs4923689 rs12440810 rs4924032 rs789782 rs789777 rs4924036 rs10431815 rs1435673 rs11637198 chr15_36592031_A_G rs1517877 rs4923709 chr15_36652459_A_C rs7171802 rs7171802 rs7170442 rs16964079 rs2167194 rs7169007 chr15_37352910_C_T

genotype difference Col_38_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_16_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_08_IF Col_33_IF Col_16_IF Col_59_IF Col_33_IF Col_33_IF Col_16_IF Col_38_TS Col_59_TS Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_16_TS Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_CB Col_12_IF Col_38_CB Col_33_IF Col_08_CB Col_12_IF Col_12_IF Col_38_TS Col_12_CB Col_38_TS Col_33_IF Col_12_CB Col_33_CB Col_12_IF

RI PT


Marker ID

481

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT TOP BOT BOT BOT TOP TOP BOT BOT BOT TOP BOT BOT TOP TOP BOT TOP BOT BOT TOP BOT BOT BOT TOP BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP

[T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/A] [T/A] [T/A] [T/C] [T/C] [T/C] [A/C] [A/T] [A/C] [T/G] [T/G] [A/G] [T/G] [T/C] [T/G] [A/G] [T/A] [T/A] [T/A] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/A] [T/C] [A/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/C] [A/C] [A/C] [A/C] [A/C] [C/G] [C/G]

15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15

37415816 37431751 37450510 37508505 37780648 37864636 37898753 37925492 37927514 38007813 38024837 38024837 38024837 38485141 38535591 38586199 38697384 38716647 38941557 38957021 38985513 39020093 39147349 39224334 39251462 39252108 39252785 39252785 39252785 39485834 39531313 39531658 39531658 39542522 39592695 39658985 39658985 39833326 39902490 39927942 40237322 40299016 40496391 40875584 40903684 41605508 41774423 42144480 42233211 42242634 42331548 42332616 42373292 42455832 42455832 42455832 42550349 42550349 42568547 42568547

SC

M AN U TE D

AC C

EP

chr15_37415816_C_T rs11073227 chr15_37450510_A_G rs8028213 rs17446248 rs11633357 rs7174609 rs4597272 rs4483815 rs1874820 rs73382238 rs73382238 rs73382238 rs1522774 rs1522778 rs16966665 chr15_38697384_A_C chr15_38716647_A_T rs1004496 chr15_38957021_A_C rs1874249 rs7163834 chr15_39147349_A_C rs11857756 rs2164006 chr15_39252108_A_G chr15_39252785_A_T chr15_39252785_A_T chr15_39252785_A_T rs1505274 chr15_39531313_C_T chr15_39531658_A_G chr15_39531658_A_G rs11070178 rs2271064 rs12439394 rs12439394 rs2618160 rs11070223 rs2898687 rs2196470 rs2291623 rs7173181 rs8026605 chr15_40903684_A_G exm1150661 rs1942 exm1152320 rs11070354 rs77402964 rs12904287 rs7172971 rs56985825 rs74753964 rs74753964 rs74753964 rs6493026 rs6493026 rs8043515 rs8043515

genotype difference Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_16_CB Col_34_IF Col_38_TS Col_12_CB Col_16_TS Col_12_CB Col_12_IF Col_33_IF Col_16_TS Col_33_CB Col_12_IF Col_12_CB Col_12_CB Col_12_CB Col_38_TS Col_34_TS Col_38_IF Col_52_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_08_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_08_TS Col_12_CB Col_12_CB Col_16_TS Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_38_CB Col_33_CB Col_33_TS Col_16_TS Col_33_CB Col_38_TS Col_38_TS Col_12_IF Col_38_CB Col_45_CB

RI PT


Marker ID

482

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT TOP TOP TOP BOT BOT TOP PLUS PLUS BOT BOT BOT TOP TOP BOT TOP TOP BOT BOT TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP BOT TOP BOT TOP TOP BOT BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT

[C/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [C/G] [C/G] [A/G] [T/C] [T/G] [A/G] [I/D] [D/I] [T/C] [T/C] [T/C] [C/G] [A/G] [G/C] [A/C] [A/G] [T/C] [T/G] [A/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [C/G] [C/G] [T/C] [A/G] [G/C] [A/C] [A/T] [T/G] [T/G] [T/C] [A/G] [T/C] [T/C] [A/C] [T/C] [T/G] [G/C] [T/C] [T/G] [A/G] [T/C]

15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15

42568547 42615305 42683630 42684389 42684389 42834962 42869028 43005264 43118624 43169417 43170624 43237203 43273307 43453056 43487810 43527236 43546663 43588888 43633613 43638384 43678543 43702892 43741017 43749332 43756013 43792536 43810422 43929666 43929764 44211913 44262242 44268711 44286325 44312025 44412734 44417934 44500372 44507832 44507832 44551578 44551578 44562926 44704653 44856074 44988610 45029647 45089270 45089270 45128790 45131445 45204971 45204971 45341718 45381276 45381998 45442687 45523248 45535913 45545478 45698224

SC

M AN U

TE D

rs8043515 rs12903690 rs28364433 rs3115876 rs3115876 rs75705010 rs2241998 rs74345837 rs74536015 rs76087369 rs62020680 rs3803341 rs77231660 rs11070392 rs17778356 rs579178 chr15_43546663_A_G rs28594657 rs72707520 chr15_43638385_A_INDEL chr15_43678543_GTATAT_INDEL rs45543833 chr15_43741017_A_G chr15_43749332_C_T rs2601014 rs74808396 rs690170 rs17727979 rs11635852 rs2016837 rs72716049 rs78735736 rs11631340 rs75848249 kgp10185155 rs77676298 rs2615277 rs75738471 rs75738471 rs12914948 rs12914948 rs79534230 rs12594167 chr15_44856074_C_G rs4099 rs11630375 rs2218929 rs2218929 rs2412949 chr15_45131445_C_T rs16976480 rs16976480 rs2470686 rs190600 rs166575 rs1706803 rs16940897 rs11636410 kgp194713 rs72709092

genotype difference Col_12_IF Col_12_CB Col_12_CB Col_52_CB Col_12_CB Col_16_TS Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_34_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_TS Col_38_IF Col_52_IF Col_08_CB Col_33_IF Col_33_IF Col_45_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_16_TS Col_33_CB Col_08_CB Col_52_CB Col_33_CB Col_33_IF Col_38_TS Col_12_CB Col_12_TS Col_38_IF Col_52_IF Col_12_CB Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_16_TS Col_45_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF

RI PT


Marker ID

483

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT TOP TOP TOP BOT TOP BOT BOT BOT TOP BOT BOT TOP BOT TOP TOP BOT TOP BOT TOP TOP BOT TOP TOP TOP TOP BOT TOP TOP TOP BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT

[T/G] [T/C] [T/A] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/C] [A/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/C] [A/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/C] [A/C] [T/C] [T/C] [T/C]

15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15

45920242 45966101 46055807 46099547 46099547 46199464 46315074 46511879 46642107 46788586 46800286 46813666 46848570 46873447 46944654 46944811 47013417 47013417 47246651 47447605 47480879 47480879 47480879 47556977 47563467 47575054 47579004 47613403 47619767 47670774 47704791 47710102 47765970 47784522 47784522 47955848 47998529 47998529 48037356 48037356 48083610 48141341 48233729 48389924 48485926 48623812 48623812 48638795 48920942 49199392 49199392 49260601 49406130 49406130 49416897 49417546 49797359 50193553 50216356 50221426

SC

M AN U TE D

AC C

EP

rs2899382 chr15_45966101_C_T chr15_46055807_A_T rs3848111 rs3848111 chr15_46199464_C_T rs1915164 rs8034848 rs17574125 chr15_46788586_C_T chr15_46800286_C_T rs2217521 rs2163524 chr15_46873447_A_G rs7183405 rs559978 rs8036428 rs8036428 rs1355589 rs17355029 rs72731736 rs72731736 rs72731736 rs764579 rs12593074 rs2045158 rs1378214 rs6493270 rs78685594 rs166837 rs79372522 rs8182063 rs16959552 chr15_47784522_A_G chr15_47784522_A_G rs11638169 rs1238245 rs1238245 rs74595596 rs74595596 rs9672207 rs1453862 rs2100425 chr15_48389924_A_G chr15_48485926_C_T exm1159600 exm1159600 rs4775748 rs1827918 rs11854994 rs11854994 rs4474633 chr15_49406130_A_G chr15_49406130_A_G chr15_49416897_C_T rs1048975 rs12441304 rs2009833 chr15_50216356_C_T rs2899441

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_45_IF Col_52_TS Col_38_TS Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_12_IF Col_33_CB Col_33_IF Col_38_CB Col_52_IF Col_12_CB Col_12_CB Col_38_CB Col_52_TS Col_12_CB Col_38_CB Col_12_CB Col_12_CB Col_52_CB Col_12_CB Col_33_IF Col_12_CB Col_52_IF Col_52_IF Col_12_CB Col_33_CB Col_38_IF Col_33_IF Col_38_CB Col_52_IF Col_16_TS Col_33_CB Col_34_TS Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_CB Col_52_TS Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_12_TS Col_33_IF Col_12_CB Col_33_IF Col_16_TS Col_16_TS Col_33_IF Col_12_CB Col_52_IF

RI PT


Marker ID

484

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT BOT TOP BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP BOT TOP BOT TOP BOT TOP BOT BOT TOP BOT TOP TOP BOT BOT TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP

[A/C] [A/G] [A/G] [T/C] [T/G] [A/C] [T/C] [T/C] [T/G] [A/G] [A/C] [A/C] [T/C] [A/T] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [G/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/G] [T/G] [T/G] [A/G] [T/G] [T/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/A] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [T/G] [T/C] [T/C] [A/C]

15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15

50238535 50251610 50251610 50272460 50318197 50323354 50371901 50441341 50469288 50551930 50569349 50585583 50588558 50724840 50790233 50992311 51437661 51502986 51542757 51621725 51730173 51827333 52161618 52201631 52595110 52983294 53012265 53113445 53207562 53222705 53366871 53442190 53449502 53449502 53449502 53453841 53462913 53746169 53808363 53808363 53810995 53812561 53891912 54059564 54192492 54236339 54379421 54410343 54425406 54434868 54484950 54596134 54679668 54679668 54810532 54871104 54897639 54924017 55281338 55292451

SC

M AN U TE D

AC C

EP

chr15_50238535_G_T chr15_50251610_A_G chr15_50251610_A_G rs8039142 rs2414003 rs7165755 chr15_50371901_C_T rs4775860 rs1549520 chr15_50551930_C_T rs3784296 rs7177488 chr15_50588558_A_G chr15_50724840_A_T rs8037553 rs12592778 rs893576 rs10046 chr15_51542757_C_T rs2470144 rs4774589 rs10519310 chr15_52161618_C_G rs2570218 chr15_52595110_C_T rs8036999 rs16965142 rs2440369 rs11857454 rs10152433 rs16965425 rs12592602 chr15_53449502_A_C chr15_53449502_A_C chr15_53449502_A_C rs17659764 rs9672637 chr15_53746169_G_T rs7182198 rs7182198 rs473664 rs17630697 rs16966276 rs11635018 rs2725627 rs1904109 rs35618017 rs1897078 rs4774684 rs12591326 rs1991574 chr15_54596134_A_G corect_rs143367910 corect_rs143367910 rs16974720 rs8040774 chr15_54897639_A_C chr15_54924017_A_G chr15_55281338_A_G rs999787

genotype difference Col_33_IF Col_45_TS Col_52_CB Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_16_IF Col_52_TS Col_12_CB Col_12_CB Col_08_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_52_TS Col_12_CB Col_34_TS Col_52_TS Col_12_CB Col_33_IF Col_33_CB Col_52_CB Col_16_IF Col_38_CB Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_12_CB Col_52_TS Col_34_TS Col_52_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_38_TS Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_38_TS

RI PT


Marker ID

485

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP TOP BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP BOT TOP BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP BOT

[A/C] [T/C] [A/G] [A/G] [T/A] [T/A] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [T/C] [A/C] [A/C] [A/C] [A/G] [A/G] [T/C] [T/G] [A/G] [T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [G/C] [T/A] [T/G] [A/G] [A/C] [A/C] [A/G] [A/C] [A/G] [T/G] [T/C] [A/G] [A/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/A] [A/G] [A/G] [A/G] [A/G] [T/G]

15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15

55322973 55352945 55466477 55466477 55877802 55877802 56070238 56071128 56096430 56317789 56362968 56362968 56363698 56392698 56433855 56637359 56719803 56746003 56746003 57150256 57385940 57388349 57855760 57895353 58094780 58179789 58190887 58225563 58246998 58334587 58405519 58407483 58651580 58853109 58860963 58949561 58969292 59205253 59296076 59597040 59666784 59929458 59951997 60130152 60269302 60612806 60836794 60895636 61294826 61295467 61299650 61366200 61424950 61529992 61650682 61702779 61702779 61966513 61976593 62046610

SC

M AN U TE D

AC C

EP

chr15_55322973_G_T rs1528462 chr15_55466477_C_T chr15_55466477_C_T rs61517562 rs61517562 chr15_56070238_A_G chr15_56071128_C_T rs12915759 rs11631645 rs7176107 rs7176107 rs34979470 chr15_56392698_A_G kgp11410552 rs2713940 chr15_56719803_G_T rs11857306 rs11857306 rs1647372 rs11853072 rs2733332 rs4774967 rs4774275 chr15_58094780_A_G rs1550571 rs4775002 chr15_58225563_A_G kgp4607304 rs1994926 chr15_58405519_C_G chr15_58407483_A_T rs10518973 rs3829461 rs6074 rs8031250 rs4775086 rs17302066 rs10518995 rs8028742 chr15_59666784_C_T chr15_59929458_A_G rs1046053 rs1437470 rs9920254 rs1567408 chr15_60836794_A_G rs2113943 rs10519099 chr15_61295467_A_G chr15_61299650_A_G rs782904 chr15_61424950_A_G chr15_61529992_C_T chr15_61650682_A_T rs3884558 rs3884558 rs11852569 rs7169224 rs6494296

genotype difference Col_33_IF Col_12_CB Col_16_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_16_TS Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_16_TS Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_33_CB Col_33_CB Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_CB Col_33_IF Col_38_TS Col_16_TS Col_33_CB Col_38_TS Col_12_CB Col_38_TS Col_33_CB

RI PT


Marker ID

486

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP BOT TOP TOP BOT TOP PLUS BOT BOT BOT BOT TOP TOP BOT TOP TOP BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT PLUS TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP

[T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/C] [I/D] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/A] [T/C] [A/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/G] [A/G] [A/C] [A/C] [T/C] [D/I] [A/G] [A/C] [A/C] [T/C] [T/C] [T/C] [T/C] [A/C] [A/G] [T/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [T/C] [A/G]

15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15

62061594 62073755 62110478 62155282 62246864 62254658 62254658 62256103 62319307 62401687 62567815 62635846 62821242 62822907 63018844 63135608 63192992 63316183 63328490 63377304 63423739 63866584 64232281 64637536 65042170 65548652 65805389 65991706 65991706 66424209 66487222 66853962 67414055 67842028 67842526 67887772 67905653 67907946 68016343 68245488 68302144 68434097 68547440 68553171 68553171 68699163 68717437 69048563 69048563 69242863 69385013 69390866 69542047 69735319 70057713 70181548 70494772 70548954 70686243 70925292

SC

M AN U TE D

AC C

EP

rs7172922 chr15_62073755_A_G rs12907856 rs4775445 rs12899801 exm1167042 exm1167042 exm1167053 rs12442448 chr15_62401694_A_INDEL rs12912805 rs88654 rs1469793 rs7176345 chr15_63018844_A_G rs3751527 rs12439791 rs7176277 rs9806545 chr15_63377304_A_T rs1472631 chr15_63866584_A_C chr15_64232281_A_G rs3848148 chr15_65042170_C_T rs16948596 rs352476 corect_rs140195154 corect_rs140195154 rs4776739 rs12904629 rs12900174 rs7163381 chr15_67842028_C_T rs6494670 chr15_67887772_C_T chr15_67905653_A_C chr15_67907946_A_G rs997295 rs8036635 rs16951552 chr15_68434097_INDEL_TTG rs7182982 corect_rs187642406 corect_rs187642406 rs11635082 rs11072021 chr15_69048563_A_G chr15_69048563_A_G kgp7256588 chr15_69385013_C_T chr15_69390866_G_T rs17360351 rs8034435 chr15_70057713_C_T rs8036964 rs12443039 rs7165040 rs1912968 rs11072211

genotype difference Col_33_TS Col_38_IF Col_12_CB Col_12_CB Col_33_IF Col_16_TS Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_59_TS Col_45_TS Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_38_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_CB Col_52_TS Col_33_IF Col_12_CB Col_33_IF Col_38_IF Col_52_IF Col_38_TS Col_12_CB Col_33_IF Col_12_CB Col_34_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_33_CB Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_08_CB Col_38_CB Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_34_CB Col_12_CB Col_33_IF

RI PT


Marker ID

487

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP TOP TOP BOT TOP BOT TOP BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP BOT TOP TOP TOP TOP TOP BOT BOT TOP BOT BOT TOP TOP TOP BOT BOT TOP TOP BOT TOP TOP TOP TOP TOP TOP

[A/G] [T/C] [A/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [T/A] [T/C] [A/G] [A/G] [T/C] [T/G] [A/C] [C/G] [A/G] [A/G] [A/G] [T/C] [A/C] [T/C] [T/G] [A/G] [T/C] [T/A] [T/G] [T/C] [T/A] [A/G] [A/T] [C/G] [T/C] [A/G] [T/A] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/G] [T/C] [A/G] [A/C] [A/G] [T/C] [T/C] [A/G] [A/C] [T/C] [A/C] [C/G] [C/G] [C/G] [A/G] [A/G]

15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15

70952463 71008920 71189875 71295192 71592189 71707375 71977446 72172798 72275198 72513948 73047636 73276692 73282726 73546595 73664741 75012117 75044400 75079840 75699523 75844953 76176310 76554790 76971456 77855526 78557005 78651215 78651815 78707368 78745969 78766208 78782666 78820040 78861351 78861517 78880752 78892374 78898890 78898890 78942035 78942035 78943910 78964498 79156454 79173005 79212406 79237257 79262725 79277924 79293562 79343724 79343724 79659613 79892392 79964833 79976086 79995121 79995917 80015274 80046945 80363062

SC

M AN U TE D

AC C

EP

chr15_70952463_C_T rs1078097 chr15_71189875_A_C chr15_71295192_A_G rs2138292 rs1837763 rs8033100 exm1174091 chr15_72275198_C_T chr15_72513948_A_T chr15_73047636_C_T rs8024301 rs6495042 rs3784793 rs8040533 kgp19964059 rs3743484 chr15_75079840_C_T rs8024276 kgp4417277 rs1039547 rs12592501 kgp656138 chr15_77855526_A_C chr15_78557005_A_G rs4887042 rs2056307 rs7182596 rs75577625 rs76384106 rs79530609 Chr15:78820040:A:T rs7165657 rs7166003 rs2229961 rs7173149 rs2869545 rs2869545 rs3971872 rs3971872 rs75262975 rs8032156 rs74936331 rs17832351 rs78247130 rs35001431 rs62011167 rs76012974 rs11631754 rs72732663 rs72732663 rs1979967 rs9920588 rs16971224 rs9806743 chr15_79995121_C_G chr15_79995917_C_G chr15_80015274_C_G chr15_80046945_A_G rs16971685

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_38_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_45_TS Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_45_TS Col_33_IF Col_45_IF Col_33_CB Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_34_TS Col_33_IF Col_12_CB Col_16_TS Col_38_TS Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_45_IF Col_33_IF Col_33_IF Col_33_CB Col_08_CB Col_12_TS Col_33_CB Col_33_IF Col_33_IF Col_08_IF Col_08_TS Col_52_CB Col_38_IF Col_33_IF Col_33_IF

RI PT


Marker ID

488

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP BOT BOT TOP TOP BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT TOP TOP BOT BOT TOP BOT BOT BOT TOP BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT TOP TOP BOT TOP BOT TOP TOP TOP

[A/C] [T/C] [T/C] [A/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/G] [A/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/G] [A/C] [T/C] [T/C] [T/C] [A/C] [T/C] [A/C] [A/G] [A/G] [T/C] [A/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/G] [A/C] [A/C] [T/C] [A/C] [T/C] [A/G] [A/G] [A/G]

15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15

80596335 80622567 80700299 80775440 80960300 80960300 81046125 81052272 81068593 81179553 81343633 81525319 82154479 82352971 82571046 83255074 83255074 83538911 83538911 83808810 83864853 84180207 84180207 84232366 84267870 84274946 84755683 85240008 85400934 85698845 85698845 85713551 85825567 86079834 86367767 86389394 86452299 86631744 86832001 87053846 87099508 87099508 87221126 87256489 87272098 87309166 87346161 87346161 87405404 87438648 87520246 87531281 87539918 87688689 87779902 87784900 87896402 87952440 88039805 88119033

SC

M AN U TE D

AC C

EP

rs8025711 rs6495489 chr15_80700299_A_G rs7183286 chr15_80960300_A_G chr15_80960300_A_G rs11633987 rs10431814 rs941984 rs6495529 rs4778878 rs12907134 rs1493609 rs17352886 rs11639440 rs10520565 rs10520565 rs1256439 rs1256439 rs11858377 rs11857641 rs10520580 rs10520580 rs17526006 rs2895932 chr15_84274946_G_T chr15_84755683_G_T rs12911736 exm1184874 chr15_85698845_A_G chr15_85698845_A_G chr15_85713551_A_G rs6496932 rs11632326 rs2937940 rs2880972 chr15_86452299_C_T rs930570 chr15_86832001_A_G rs2011905 rs73459659 rs73459659 rs6496352 rs7163674 rs896616 chr15_87309166_A_G chr15_87346161_C_T chr15_87346161_C_T rs7180902 rs12324820 rs2594332 rs1006030 rs2701405 rs12323982 rs8042805 chr15_87784900_A_C rs3910705 chr15_87952440_C_T rs2679099 chr15_88119033_C_T

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_12_CB Col_52_IF Col_33_IF Col_16_IF Col_16_TS Col_52_TS Col_52_IF Col_12_IF Col_33_IF Col_59_TS Col_33_CB Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_CB Col_33_CB Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_16_TS Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_52_TS Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_08_CB Col_33_IF Col_33_IF Col_33_CB Col_33_CB Col_33_CB Col_33_IF

RI PT


Marker ID

489

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT TOP TOP TOP BOT TOP BOT TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT TOP BOT TOP TOP BOT TOP TOP TOP TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT

[A/G] [A/G] [T/G] [T/C] [A/G] [A/C] [A/C] [T/C] [A/C] [T/G] [A/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/G] [T/C] [T/C] [A/C] [T/C] [T/G] [A/G] [A/G] [A/C] [T/C] [A/G] [T/C] [A/G] [A/C] [T/C] [A/C] [A/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/C] [T/C] [T/C] [T/C] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C]

15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15

88124367 88439774 88465057 88634491 88771571 89069299 89388092 90137325 90249520 90359020 90425002 90534666 91089257 91112215 91290633 91337457 91337479 91494249 91751493 91784856 91996568 92118263 92217898 92264467 92415355 92569617 92573818 92689689 92845874 93018587 93033286 93043545 93220397 93751641 93854926 93927305 93952691 93989259 93989259 94123797 94143578 94215636 94284642 94325635 94660694 94668514 94735128 94763657 94798330 94809760 94838829 94866380 94875540 94912330 95017908 95193560 95193560 95193560 95193560 95346393

SC

M AN U TE D

AC C

EP

rs8029887 rs10163131 rs1946697 chr15_88634491_C_T rs11635443 rs17196732 rs12901266 rs8032553 rs3926649 chr15_90359020_G_T rs10520684 rs6496614 chr15_91089257_A_G rs7168388 chr15_91290633_C_T chr15_91337457_C_T rs2227933 chr15_91494249_C_T rs17693503 rs8027320 rs11637406 rs4932557 rs8029623 rs8043171 rs12904318 rs4984325 rs4984341 chr15_92689689_C_T rs6496922 rs4777990 rs8030836 chr15_93043545_G_T rs285722 rs8037188 chr15_93854926_A_C rs2130107 rs8039405 rs12898207 rs12898207 rs28824269 rs12594452 rs7163701 rs6497124 rs8023690 rs7180322 rs1904485 rs1598490 chr15_94763657_C_T rs1455762 rs11635058 rs6497196 rs1433943 rs8039928 rs12909356 corect_rs144238367 rs4325508 rs4325508 rs4325508 rs4325508 rs962854

genotype difference Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_34_TS Col_33_IF Col_16_TS Col_33_TS Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_CB Col_33_IF Col_33_IF Col_52_TS Col_12_CB Col_16_IF Col_33_IF Col_52_TS Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_16_TS Col_33_CB Col_16_IF Col_38_CB Col_59_TS Col_12_IF Col_33_IF

RI PT


Marker ID

490

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP BOT BOT TOP BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT

[T/C] [C/G] [A/T] [T/G] [T/C] [A/G] [T/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/C] [T/C] [T/C] [G/C] [A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [T/C] [T/A] [T/A] [T/A] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [T/G] [T/C] [A/G] [G/C] [T/C] [A/G] [T/C] [G/C] [G/C] [T/C] [A/G] [A/C] [A/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/C] [T/C]

15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15 15

95415272 95537390 95560810 95740487 95795090 95888269 95925427 95963036 95976964 96023494 96028726 96057981 96187805 96257703 96368106 96419244 96442299 96782483 96782483 97030472 97157485 97585020 97733402 97738622 97855908 97855908 97855908 97913957 98209664 98264267 98426688 98433029 98475241 98475241 98475241 98617199 98633792 98790602 98853568 98894077 99043189 99124511 99127903 99370031 99572794 100119434 100119434 100120925 100211964 100253628 100384981 100409867 100409867 100445280 100492789 100499365 100499365 100499365 100614455 100641726

SC

M AN U TE D

AC C

EP

rs12232345 chr15_95537390_C_G chr15_95560810_A_T rs7168936 rs7176538 rs16975043 chr15_95925427_A_C rs4984577 rs12708555 rs2052650 rs1834204 rs3909565 rs17504636 rs16975550 rs2575423 chr15_96419244_A_G chr15_96442299_C_G rs1964412 rs1964412 rs12916143 rs8038026 chr15_97585020_A_C rs4965077 chr15_97738622_A_G chr15_97855908_A_T chr15_97855908_A_T chr15_97855908_A_T chr15_97913957_C_T rs289467 rs169671 rs6496261 rs1123082 rs1352767 rs1352767 rs1352767 rs2086365 rs7165037 rs12911977 rs8034193 rs748933 rs8032168 chr15_99124511_C_G chr15_99127903_C_T chr15_99370031_A_G rs3890116 chr15_100119434_C_G chr15_100119434_C_G rs2570927 chr15_100211964_A_G chr15_100253628_G_T chr15_100384981_G_T rs12903892 rs12903892 rs7178867 rs1347478 rs745104 rs745104 rs745104 chr15_100614455_G_T rs2900636

genotype difference Col_38_IF Col_08_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_45_TS Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_59_TS Col_33_IF Col_16_CB Col_33_TS Col_33_IF Col_33_IF Col_38_IF Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_16_TS Col_52_CB Col_12_CB Col_33_CB Col_33_CB Col_34_TS Col_33_IF Col_52_IF Col_52_IF Col_12_TS Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_52_IF Col_33_IF Col_12_CB Col_16_IF Col_08_TS Col_38_CB Col_52_TS Col_33_IF Col_16_IF Col_33_IF Col_45_IF Col_33_IF Col_16_TS

RI PT


Marker ID

491

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT TOP BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT

[T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [T/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [G/C] [T/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/G] [T/C] [T/C] [T/G] [A/G] [A/G] [A/T] [A/G] [A/C] [A/G] [G/C] [T/C] [A/G] [A/G] [A/C] [A/C] [A/C] [T/C] [T/C] [T/G] [T/G]

15 15 15 15 15 15 15 15 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16

100711068 100756592 101456702 101579522 101678725 101905203 102047856 102055944 378116 378116 814307 831173 831173 831173 875287 1273444 1273444 1744736 1959753 3161652 3189729 3299586 3709523 3998630 4130155 4795245 5035023 5274623 5274623 5438243 5588451 5698006 6013797 6075047 6219695 6278849 6281293 6282073 6399837 6518668 6594193 6733771 6746745 6833886 6870059 6931999 7141210 7153264 7171923 7278812 7454344 7464386 7620375 7721026 7721026 7741271 7759999 7776124 7926627 7926627

SC

M AN U TE D

AC C

EP

rs12441250 rs8025628 kgp19850188 rs2124397 rs723988 newrs75010033 rs9920181 rs72757701 chr16_378116_A_G chr16_378116_A_G chr16_814307_A_G chr16_831173_A_G chr16_831173_A_G chr16_831173_A_G chr16_875287_A_G chr16_1273444_G_T chr16_1273444_G_T chr16_1744736_A_G rs11647980 rs8048848 rs3888697 rs11466023 rs17183750 rs7197403 chr16_4130155_C_G rs2075470 rs12596115 rs8059035 rs8059035 rs13337644 rs2171226 rs2191098 rs9922973 rs7185884 chr16_6219695_A_G rs11647075 rs17139612 rs17217621 rs10521042 rs2215408 rs4786101 rs35435717 rs1544616 rs12446504 rs4786939 chr16_6931999_A_T rs4142923 rs11860538 rs1115936 chr16_7278812_C_G chr16_7454344_A_G rs4786163 rs5028448 rs17144534 rs17144534 rs11642419 chr16_7759999_A_G rs984606 rs12447072 rs12447072

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_38_TS Col_38_TS Col_16_TS Col_33_CB Col_38_TS Col_45_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_38_TS Col_33_IF Col_34_TS Col_52_CB Col_12_CB Col_33_IF Col_33_CB Col_52_TS Col_33_CB Col_16_TS Col_12_CB Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_38_TS Col_16_TS Col_33_IF Col_33_CB Col_12_CB Col_38_CB Col_33_IF Col_33_IF Col_12_CB Col_38_IF Col_33_IF Col_12_CB Col_38_TS Col_52_IF Col_34_IF Col_38_TS Col_33_IF Col_33_IF Col_12_CB

RI PT


Marker ID

492

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT TOP BOT BOT BOT BOT PLUS BOT TOP TOP BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP BOT TOP BOT TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP BOT PLUS BOT BOT BOT TOP

[A/C] [A/G] [A/G] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [D/I] [T/C] [A/G] [A/C] [T/C] [A/G] [A/C] [T/C] [T/C] [T/G] [T/C] [T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [T/G] [T/G] [A/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/C] [A/G] [T/C] [D/I] [T/C] [T/C] [T/C] [A/G]

16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16

7933233 7950831 7967927 8042365 8065132 8074316 8333541 8385643 8511784 8878394 9189524 9578557 10027767 10279848 10644032 10801726 10805876 10831916 11117140 11247631 11406803 12073383 12469071 12471665 12477223 12726263 12756649 12808242 13421927 13634426 13634426 13738033 13762811 13898369 14123737 14462588 15499057 15501099 16176824 16924020 16934295 17125816 17125820 17127423 17467794 17670042 17862685 17997920 18046387 18244090 18809032 18910039 19111500 19473265 19534262 19654437 19992184 20075965 20237977 20564300

SC

M AN U TE D

AC C

EP

rs11077239 chr16_7950831_A_G chr16_7967927_A_G rs9927578 rs11862051 rs78229246 rs17145648 rs8047902 rs4238896 chr16_8878394_AGTC_INDEL rs12931763 rs737067 chr16_10027767_A_C rs1420666 chr16_10644032_C_T rs2262808 chr16_10805876_A_G rs1084568 chr16_11117140_A_C rs7203409 rs7191700 chr16_12073383_G_T chr16_12469071_C_T chr16_12471665_C_T rs2432625 rs7194011 rs9926821 rs11643593 chr16_13421927_G_T rs8057032 rs8057032 rs4781519 chr16_13762811_A_G rs730182 rs1794236 rs7403900 chr16_15499057_C_T chr16_15501099_C_T rs10852377 rs9939674 rs16968824 rs8049789 chr16_17125820_C_T chr16_17127423_A_G rs4780692 rs4781958 rs4781928 chr16_17997920_C_T rs891160 chr16_18244090_A_G rs7189715 rs11866925 chr16_19111500_A_C rs12924813 rs9933337 chr16_19654437_INDEL_TTC rs2883661 rs2608180 rs10775267 rs8050847

genotype difference Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_34_CB Col_12_CB Col_33_IF Col_16_TS Col_33_IF Col_52_TS Col_33_IF Col_12_CB Col_33_CB Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_52_TS Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_CB Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF

RI PT


Marker ID

493

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT MINUS TOP TOP BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT TOP

[A/G] [A/G] [A/G] [T/C] [T/C] [C/G] [A/G] [A/G] [T/G] [T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [D/I] [A/C] [A/C] [T/C] [A/C] [T/C] [T/C] [T/C] [A/C] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [C/G] [A/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [G/C] [T/C] [A/G] [T/C] [A/G] [A/C] [A/C] [T/C] [T/C] [T/C] [A/G]

16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16

20564300 20564300 20564300 20943824 21303138 21636500 21652720 22808705 23168338 23348251 23880076 23909985 23983135 23983135 23983135 24238482 24427148 24560319 24777746 24898588 25139276 25329195 25350150 25377997 25870810 26532143 26538412 26801217 27416647 27435778 27935344 28264210 28630260 29043450 31563658 31569592 31682532 31918418 32182879 32182879 32504075 32504075 32504075 33623686 34200770 34712033 34779801 34961777 46539392 46652227 46842785 47004381 47235823 47276881 47301791 47549473 47676184 48265777 48416557 48491952

SC

M AN U TE D

AC C

EP

rs8050847 rs8050847 rs8050847 rs4783513 rs155934 rs2305520 rs1055740 rs2106783 chr16_23168338_G_T rs8055868 rs8056286 rs11644907 rs8051206 rs8051206 rs8051206 chr16_24238482_A_G rs8055114 chr16_24560319_INDEL_TC rs2880663 rs17178242 rs2078112 chr16_25329195_G_T chr16_25350150_C_T rs16974591 chr16_25870810_A_G rs9939729 rs12325315 rs321432 chr16_27416647_A_G rs9930086 chr16_27935344_C_T rs11861891 rs7192059 rs8053800 rs6565247 rs13331375 rs1590067 rs8048908 chr16_32182879_A_G chr16_32182879_A_G chr16_32504075_A_G chr16_32504075_A_G chr16_32504075_A_G chr16_33623686_C_T chr16_34200770_C_T chr16_34712033_C_T rs4887584 rs11862087 rs9935841 chr16_46652227_C_G rs17189741 chr16_47004381_A_G chr16_47235823_A_G rs7200665 kgp10716599 newrs56257827 chr16_47676184_A_G rs16945988 chr16_48416557_A_G rs7198215

genotype difference Col_38_CB Col_59_TS Col_12_TS Col_12_CB Col_33_IF Col_33_IF Col_08_CB Col_33_IF Col_52_CB Col_38_TS Col_12_CB Col_12_CB Col_16_CB Col_33_CB Col_12_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_08_TS Col_33_IF Col_52_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_08_TS Col_12_CB Col_38_IF Col_45_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_IF Col_16_TS Col_33_IF Col_33_IF

RI PT


Marker ID

494

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT TOP BOT TOP BOT BOT TOP BOT BOT BOT TOP BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT MINUS MINUS TOP BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP

[T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [T/A] [T/A] [A/G] [T/C] [T/C] [T/C] [A/C] [T/C] [A/T] [T/C] [A/C] [A/C] [A/C] [A/G] [T/G] [T/G] [A/G] [T/C] [T/C] [T/C] [T/G] [T/G] [T/G] [D/I] [D/I] [C/G] [T/G] [T/G] [T/G] [A/G] [T/C] [A/G] [C/G] [A/C] [T/C] [T/G] [A/G] [A/G] [T/G] [T/C] [T/C] [G/C] [T/G] [T/G] [A/G]

16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16

49121863 49358944 49677512 49820598 49863504 50202877 50415011 50766886 50799712 50879893 51457948 51542519 51562530 51665281 51740595 51751660 51751660 51845760 52101170 52109375 52109375 52158082 52169755 52175932 52243489 52256448 52261644 52261784 52291939 52298585 52299242 52299679 52318025 52318025 52328666 52337872 52337872 52337872 52342551 52377751 52416519 52430136 52430136 52444305 52451782 52452941 52473331 52475272 52497276 52542036 52554055 52572029 52577142 52578215 52626396 52626396 52630145 52654116 52654116 52660737

SC

M AN U

TE D

rs11859629 rs152708 rs8043733 rs4785193 rs16948031 rs12599953 rs8052403 chr16_50766886_A_G chr16_50799712_C_T chr16_50879893_A_G rs11649472 rs17618231 rs10521238 rs1909333 rs12932881 rs1599516 rs1599516 rs74017121 chr16_52101170_A_G chr16_52109375_A_G chr16_52109375_A_G chr16_52158082_G_T chr16_52169755_A_G chr16_52175932_A_T chr16_52243489_C_T rs12934095 chr16_52261644_A_C chr16_52261784_G_T chr16_52291939_C_T chr16_52298585_G_T chr16_52299242_G_T chr16_52299679_A_G chr16_52318025_C_T chr16_52318025_C_T chr16_52328666_C_T chr16_52337872_G_T chr16_52337872_G_T chr16_52337872_G_T chr16_52342551_C_INDEL chr16_52377751_AAAG_INDEL rs7199321 rs185375 rs185375 chr16_52444305_G_T chr16_52451782_C_T chr16_52452941_C_T chr16_52473331_C_T chr16_52475272_C_G chr16_52497276_G_T chr16_52542036_C_T chr16_52554055_A_C chr16_52572029_C_T chr16_52577142_C_T chr16_52578215_A_C chr16_52626396_A_G chr16_52626396_A_G chr16_52630145_C_G chr16_52654116_G_T chr16_52654116_G_T chr16_52660737_A_G

genotype difference Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_CB Col_38_TS Col_33_IF Col_33_IF Col_34_CB Col_52_IF Col_12_CB Col_16_TS Col_38_TS Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_CB Col_52_IF Col_52_TS Col_33_IF Col_34_TS Col_52_IF Col_33_IF Col_38_CB Col_33_IF Col_38_TS Col_12_TS Col_33_IF Col_33_IF Col_16_TS Col_33_CB Col_08_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_08_TS Col_33_IF Col_34_IF Col_33_IF Col_59_TS Col_12_IF Col_33_IF

RI PT


Marker ID

495

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT TOP TOP BOT TOP TOP PLUS MINUS TOP BOT TOP TOP TOP TOP BOT BOT PLUS TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP PLUS PLUS TOP BOT TOP BOT TOP BOT PLUS PLUS BOT TOP TOP MINUS TOP PLUS TOP BOT TOP TOP

[A/G] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [A/C] [A/G] [A/G] [T/C] [T/A] [C/G] [A/G] [T/C] [A/G] [A/G] [D/I] [I/D] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [I/D] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [G/C] [T/A] [A/G] [I/D] [I/D] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [I/D] [D/I] [T/C] [A/G] [A/G] [I/D] [A/G] [I/D] [A/G] [T/G] [A/G] [A/C]

16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16

52660737 52687809 52688104 52715409 52750598 52796915 52837310 52890085 52919428 52997498 53026758 53040919 53043626 53120340 53127300 53138010 53170733 53269032 53372959 53416567 53424943 53427828 53430300 53621388 53626236 53675970 53752901 53796896 53797452 53797452 53810546 53813498 53826034 53826034 53831771 53834508 53834508 53861543 53869551 53873428 53951518 53951518 53988169 54006232 54021009 54033248 54035832 54039486 54064470 54064540 54104500 54108123 54117046 54139720 54144925 54294460 54624193 54720463 54813801 54887921

SC

M AN U

TE D

chr16_52660737_A_G rs4608329 chr16_52688104_C_T chr16_52715409_A_G chr16_52750598_A_G chr16_52796915_A_C rs4784258 chr16_52890085_A_C rs1111472 chr16_52997498_A_G chr16_53026758_C_T c16_pos51598420 chr16_53043626_C_G chr16_53120340_A_G chr16_53127300_C_T chr16_53138010_A_G chr16_53170733_C_T chr16_53269032_C_INDEL chr16_53372960_A_INDEL chr16_53416567_C_T chr16_53424943_C_T chr16_53427828_A_G chr16_53430300_C_T chr16_53621388_C_T chr16_53626236_A_G chr16_53675970_C_T chr16_53752901_A_G rs59201596 chr16_53797452_A_G chr16_53797452_A_G chr16_53810546_A_C chr16_53813498_C_T chr16_53826034_C_T chr16_53826034_C_T rs9922619 chr16_53834508_C_T chr16_53834508_C_T chr16_53861543_C_G chr16_53869551_A_T chr16_53873428_A_G chr16_53951519_INDEL_T chr16_53951519_INDEL_T chr16_53988169_C_T chr16_54006232_A_G chr16_54021009_A_G rs7199716 chr16_54035832_A_G rs12931859 chr16_54064471_INDEL_T chr16_54064540_C_INDEL chr16_54104500_A_G chr16_54108123_C_T chr16_54117046_A_G chr16_54139720_INDEL_TGTGTGTA chr16_54144925_A_G chr16_54294460_INDEL_T chr16_54624193_A_G chr16_54720463_G_T rs4784423 rs4555155

genotype difference Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_45_CB Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_38_CB Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_12_CB Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_16_CB Col_16_TS Col_33_IF Col_52_CB Col_33_IF Col_34_CB Col_52_TS Col_12_IF Col_33_IF Col_12_CB Col_34_TS Col_59_IF Col_33_IF Col_38_TS Col_12_CB Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_59_TS Col_33_IF Col_33_IF Col_16_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB

RI PT


Marker ID

496

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT MINUS TOP TOP BOT BOT BOT TOP BOT TOP BOT TOP BOT TOP BOT BOT TOP BOT PLUS TOP TOP BOT MINUS TOP TOP TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP BOT TOP TOP BOT TOP BOT TOP TOP TOP PLUS BOT TOP TOP TOP TOP TOP BOT TOP TOP TOP BOT TOP

[A/G] [T/C] [T/A] [T/C] [I/D] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [T/G] [A/G] [T/G] [T/C] [A/G] [T/C] [D/I] [A/C] [A/G] [T/C] [D/I] [A/C] [A/C] [A/C] [A/G] [T/C] [T/G] [A/C] [T/C] [A/C] [A/C] [A/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/C] [A/G] [I/D] [T/C] [A/G] [A/G] [A/C] [A/G] [C/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G]

16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16

54930979 54968239 55146415 55180092 55255437 55268123 55356697 55494913 55494913 55579714 56166587 56249774 56501806 56505859 56581222 56852311 56968039 57547386 57670947 57711777 57915124 58221502 58335379 58484561 59096402 59148189 59310833 59411607 59458981 59544688 59718238 59779322 60009162 60039947 60056088 60299679 60299679 60386293 60441906 60604961 60750721 60815019 61045392 61317091 61603822 61677182 61723462 61885251 62244458 62285364 62304320 62347116 62347227 62370985 62379857 62398175 62405171 62414607 62428009 62431994

SC

M AN U TE D

AC C

EP

chr16_54930979_A_G rs1133611 rs79281764 rs1486735 chr16_55255437_CT_INDEL chr16_55268123_C_T rs4784523 chr16_55494913_C_T chr16_55494913_C_T chr16_55579714_A_G rs995948 rs16956168 rs2288055 corect_rs140829277 chr16_56581222_C_T rs1561138 rs7204290 rs867142 rs1466134 rs12597878 rs247045 chr16_58221502_GAA_INDEL rs11859150 chr16_58484561_A_G rs4506888 chr16_59148189_INDEL_TTG rs17185893 rs1364207 rs12927552 rs1384215 rs12445511 chr16_59779322_A_C chr16_60009162_A_C chr16_60039947_C_T rs2113185 rs16961914 rs16961914 rs1901114 rs12102361 rs9936526 corect_rs144475997 rs8057223 rs11076445 rs1423741 rs7203591 chr16_61677182_G_T rs1896794 chr16_61885252_A_INDEL rs9936882 rs16964413 rs12918987 rs9932963 rs7192220 rs12447652 corect_rs144333978 rs1834072 chr16_62405171_A_G chr16_62414607_A_G rs4784190 chr16_62431994_C_T

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_45_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_34_CB Col_16_TS Col_52_IF Col_08_TS Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_52_TS Col_33_CB Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_52_TS Col_12_CB Col_33_IF Col_52_TS Col_38_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB

RI PT


Marker ID

497

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP TOP BOT BOT TOP PLUS TOP TOP TOP TOP BOT BOT TOP MINUS MINUS BOT BOT TOP BOT BOT TOP TOP TOP BOT BOT TOP PLUS TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP PLUS BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP

[A/C] [T/G] [A/G] [A/G] [T/C] [T/G] [A/C] [I/D] [A/G] [A/G] [A/G] [A/G] [T/C] [T/G] [A/G] [I/D] [I/D] [T/C] [T/C] [A/C] [T/C] [T/G] [A/G] [A/G] [A/C] [T/G] [T/C] [A/C] [D/I] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/A] [T/C] [A/G] [A/G] [D/I] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/C] [T/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/C] [T/G] [A/C] [A/G] [A/G]

16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16

62571383 62585662 62644640 62644640 62646973 62666512 62684996 62774487 62799814 62854585 62989090 63024509 63227287 63409262 63430369 63455594 63455594 63520218 63633828 63637915 63692751 63753131 63863478 63988283 63988556 64120435 64196639 64214629 64243577 64276377 64359349 64395256 64395256 64425318 64439176 64554880 64569603 64740316 65058391 65259398 65353714 65405660 65406708 65465096 65465096 65571657 65891108 65954472 66159066 66434280 66453765 67578257 68219265 68335537 68336892 68466238 68474857 68577222 68583892 68583892

SC

M AN U

TE D

chr16_62571383_G_T rs2911293 rs434277 rs434277 rs422384 rs2911286 rs1027277 chr16_62774488_A_INDEL rs78844529 rs2962459 rs30876 rs8052393 rs17361434 chr16_63409262_A_C rs16965951 rs35540574 rs35540574 rs9925466 rs6498908 rs9929869 chr16_63692751_C_T chr16_63753131_G_T rs322571 rs6498931 chr16_63988556_G_T rs2053209 rs8062650 rs1833937 chr16_64243577_INDEL_TAGTAA rs2926138 rs12920359 rs8045790 rs8045790 rs2113247 rs8054941 rs16967598 rs16967648 chr16_64740316_A_G rs7192855 chr16_65259398_AAAG_INDEL rs1469120 rs9929092 rs818386 chr16_65465096_C_T chr16_65465096_C_T rs4294817 chr16_65891108_G_T rs1094928 rs1308841 rs2880989 rs8045810 chr16_67578257_C_T chr16_68219265_A_G chr16_68335537_C_T rs11860071 rs4783632 rs918788 rs821167 rs11642045 rs11642045

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_52_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_IF Col_33_CB Col_33_IF Col_38_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_52_TS Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_38_TS Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_12_IF

RI PT


Marker ID

498

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP BOT BOT TOP BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT PLUS TOP TOP TOP MINUS TOP TOP TOP TOP BOT BOT TOP BOT TOP BOT BOT TOP BOT BOT TOP BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT TOP

[T/C] [T/C] [A/G] [T/G] [T/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/G] [A/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [D/I] [A/G] [A/T] [A/G] [D/I] [A/G] [A/G] [A/C] [A/C] [T/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/G] [A/G] [T/G] [A/G] [T/C] [T/C] [T/G] [T/G] [T/G] [T/G] [A/G] [A/G] [T/G] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/C]

16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16

68595505 68595505 68697580 68728976 68800629 68809273 68819614 68824492 68828885 68857441 68942590 68961362 69019279 69019279 69195133 69245161 69300569 69455528 69665992 69666939 69673720 69733460 69743644 69753148 69837278 69974659 70395387 70894603 71310188 71571663 72078907 72243624 72413960 72522226 72586772 72653698 73394615 73439355 73495661 73523352 73598082 73998047 74076647 74177395 74215362 74226221 74679244 74679244 74679244 74836956 74877956 75185764 75202998 75202998 75328308 75565284 75687061 75820543 75820543 75914306

SC

M AN U TE D

AC C

EP

rs1364109 rs1364109 rs61628060 rs3785135 rs11640099 rs13339591 rs9925923 rs35444713 rs12928043 rs1801552 rs79390277 rs79998024 rs62055819 rs62055819 rs77295380 rs77481642 rs78906997 rs728546 chr16_69665992_C_T rs6499238 chr16_69673720_AG_INDEL rs7359336 kgp16372204 rs77097817 chr16_69837278_AC_INDEL rs3748386 rs1134074 chr16_70894603_A_C rs3094452 rs3813744 rs1424241 rs8060878 chr16_72413960_A_G chr16_72522226_C_T chr16_72586772_A_G chr16_72653698_C_T rs4889197 rs9934948 rs9888988 rs2161683 rs825700 rs2386978 rs11647029 rs6564984 chr16_74215362_C_T rs807293 rs8047350 rs8047350 rs8047350 chr16_74836956_A_C rs7189084 rs9939124 rs12716783 rs12716783 rs11640018 kgp3027493 rs7195089 rs7202210 rs7202210 chr16_75914306_G_T

genotype difference Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_52_TS Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_34_TS Col_52_IF Col_33_IF Col_34_TS Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF

RI PT


Marker ID

499

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP MINUS TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP BOT BOT BOT TOP BOT BOT BOT TOP BOT TOP TOP BOT TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP TOP BOT PLUS BOT TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP

[A/G] [A/G] [T/G] [T/C] [A/C] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [I/D] [A/G] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/G] [G/C] [A/C] [T/C] [A/G] [A/G] [T/C] [A/C] [A/C] [T/G] [T/G] [A/G] [T/C] [A/G] [A/G] [A/C] [A/G] [A/G] [T/C] [I/D] [T/C] [A/G] [T/C] [T/C] [T/C] [T/G] [T/C] [A/G] [T/C] [T/G] [A/G]

16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16

75922629 75924274 76012079 76071983 76174803 76174803 76254341 76350805 76419314 76419314 76509237 76617915 76629660 76831105 76859126 77302778 77335929 77335929 77354562 77391272 77394591 77439792 77524774 77567809 77617969 77647073 77699915 77701687 77780284 77874837 78272174 78474090 78487877 78688144 78865890 78869972 78905235 78933114 79178533 79215455 79235804 79630802 79709503 79824245 79902537 79916373 79916373 79968790 79981798 80007409 80229329 80245950 80250132 80327762 80419991 80509024 80532625 80576700 80598384 80605453

SC

M AN U TE D

AC C

EP

rs80280763 rs9925918 rs870890 rs11149863 chr16_76174803_A_C chr16_76174803_A_C rs17559027 rs2866710 OncoSet3851755 OncoSet3851755 rs11149905 chr16_76617915_C_T rs7201297 chr16_76831106_A_INDEL rs3936071 rs7205038 rs1025315 rs1025315 rs9746317 rs2562112 chr16_77394591_C_T rs11149985 chr16_77524774_C_T rs11864177 rs386853 rs7193915 rs7200612 rs7191533 chr16_77780284_A_G rs8052795 chr16_78272174_C_G rs9927016 rs12051258 chr16_78688144_C_T chr16_78865890_C_T chr16_78869972_C_T rs16948667 chr16_78933114_A_C rs7200529 chr16_79215455_G_T rs454120 corect_rs117707161 rs7187128 rs13380547 chr16_79902537_A_C rs9941162 rs9941162 rs10514470 chr16_79981799_A_INDEL rs5029361 rs74028037 rs1842025 chr16_80250132_A_G chr16_80327762_A_G rs11644172 rs67462254 chr16_80532625_A_G rs75718465 chr16_80598384_A_C rs9930879

genotype difference Col_33_IF Col_33_IF Col_16_IF Col_12_CB Col_38_IF Col_52_CB Col_33_IF Col_38_IF Col_08_TS Col_38_IF Col_33_IF Col_12_CB Col_16_TS Col_33_CB Col_52_IF Col_33_CB Col_38_TS Col_52_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_16_TS Col_33_IF Col_38_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_52_TS Col_33_CB Col_33_IF Col_33_IF Col_59_TS Col_12_CB Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

500

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP BOT BOT BOT TOP BOT TOP BOT TOP MINUS BOT TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT TOP TOP BOT BOT TOP BOT TOP BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT MINUS TOP TOP BOT BOT TOP TOP

[T/G] [T/C] [C/G] [T/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [D/I] [T/C] [A/G] [T/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/C] [A/C] [T/G] [T/C] [A/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/A] [G/C] [G/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [D/I] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G]

16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16

80623628 80630628 80705781 80722364 80806995 80806995 80808725 80891891 80924253 80924900 81010764 81030565 81107961 81213378 81264597 81762739 82031624 82031624 82031624 82259866 82266895 82442502 82506093 82776689 82776689 82855349 82858021 82860249 82863660 82881094 82987126 83001694 83083617 83088883 83088883 83088883 83126370 83164563 83392422 83421419 83795732 84150265 84150265 84422162 84430876 84433034 84509964 84993939 84993939 85038948 85317165 85743064 85955242 86075577 86117606 86163221 86410104 86688976 86769827 86829815

SC

M AN U TE D

AC C

EP

chr16_80623628_G_T rs9936948 chr16_80705781_C_G chr16_80722364_G_T chr16_80806995_C_T chr16_80806995_C_T chr16_80808725_A_G rs7187833 rs9927624 rs10221177 chr16_81010764_C_T chr16_81030565_C_INDEL chr16_81107961_C_T rs4889261 rs6564851 rs12932714 chr16_82031624_C_T chr16_82031624_C_T chr16_82031624_C_T rs902542 chr16_82266895_A_G chr16_82442502_A_G rs12448946 rs16958449 rs16958449 rs2549147 rs9940524 rs2549151 chr16_82863660_A_C rs9930233 rs741590 chr16_83001694_A_G chr16_83083617_A_G chr16_83088883_C_T chr16_83088883_C_T chr16_83088883_C_T rs8045987 rs11641086 rs732329 chr16_83421419_C_T chr16_83795732_A_T corect_rs150857070 corect_rs150857070 rs4782946 rs9788948 rs922450 rs4782977 chr16_84993939_C_T chr16_84993939_C_T rs9921436 rs2930230 rs842960 rs10514611 chr16_86075577_C_INDEL chr16_86117606_A_G rs11117451 rs4843938 chr16_86688976_C_T rs8057453 rs16973748

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_12_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_38_TS Col_52_TS Col_12_IF Col_34_CB Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_52_IF Col_12_IF Col_33_IF Col_38_TS Col_34_TS Col_33_IF Col_52_CB Col_52_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_38_TS Col_52_TS Col_33_IF Col_38_TS Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_16_TS Col_16_TS Col_12_IF Col_38_CB

RI PT


Marker ID

501

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT MINUS BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT MINUS BOT BOT BOT TOP MINUS BOT BOT BOT BOT MINUS TOP BOT TOP TOP TOP BOT TOP BOT BOT TOP TOP BOT TOP BOT TOP TOP BOT TOP TOP BOT BOT TOP BOT BOT BOT PLUS BOT BOT

[T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/C] [G/C] [T/C] [I/D] [T/G] [T/C] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [T/C] [I/D] [T/C] [T/C] [T/C] [A/G] [I/D] [T/C] [G/C] [T/C] [T/A] [D/I] [A/G] [G/C] [A/C] [A/C] [A/G] [T/G] [A/G] [T/C] [T/C] [A/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/G] [A/G] [A/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [D/I] [T/C] [T/C]

16 16 16 16 16 16 16 16 16 16 16 16 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17

86877445 87000963 87678324 88036329 88235945 88235945 88835229 89002398 89230589 89333342 89817203 89992072 18901 129457 142930 142930 198074 198273 236444 405384 446519 447280 463843 477433 658599 689948 690493 759038 770148 777057 807252 812533 812534 833834 872807 872807 978653 1015996 1024001 1058246 1058246 1078271 1141032 1244839 1758203 2323663 2393803 2393803 2452623 2474929 2752965 2965038 2965038 2966456 3325881 3338032 3689132 3972011 3974527 4214005

SC

M AN U

TE D

chr16_86877445_C_T chr16_87000963_A_G rs61737926 rs11647356 chr16_88235945_A_G chr16_88235945_A_G chr16_88835229_C_T rs9939847 rs4581700 rs12928649 chr16_89817204_A_INDEL chr16_89992072_G_T rs8064924 rs9788983 chr17_142930_A_G chr17_142930_A_G chr17_198074_A_C chr17_198273_C_T chr17_236444_A_G chr17_405384_C_T chr17_446519_A_G chr17_447280_AGGAAGGGAGGA_INDEL rs741677 chr17_477433_A_G chr17_658599_C_T chr17_689948_C_T chr17_690502_A_INDEL chr17_759038_C_T chr17_770148_C_G chr17_777057_A_G chr17_807252_A_T chr17_812533_GC_INDEL exm2253317 chr17_833834_C_G chr17_872807_G_T chr17_872807_G_T chr17_978653_C_T chr17_1015996_A_C chr17_1024001_A_G rs7406197 rs7406197 chr17_1078271_G_T rs28769064 rs7219354 rs16951710 chr17_2323663_A_G corect_rs117282782 corect_rs117282782 rs9912016 rs7209945 chr17_2752965_G_T chr17_2965038_C_T chr17_2965038_C_T chr17_2966456_C_T rs11078449 chr17_3338032_C_T rs11653095 chr17_3972011_C_INDEL chr17_3974527_A_G rs17764251

genotype difference Col_16_TS Col_33_IF Col_52_TS Col_52_CB Col_33_TS Col_34_CB Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_45_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_52_CB Col_52_CB Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_52_TS Col_52_CB Col_12_CB Col_08_TS Col_08_IF Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_16_TS Col_52_IF Col_33_IF Col_33_IF Col_08_TS Col_38_IF Col_12_TS Col_33_IF Col_12_CB Col_12_CB Col_52_CB Col_33_IF Col_16_TS Col_52_IF

RI PT


Marker ID

502

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT TOP BOT TOP BOT TOP TOP BOT TOP BOT BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT

[T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/G] [A/C] [T/C] [A/G] [A/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/C] [G/C] [A/G] [A/G] [T/C] [T/C] [T/G] [T/C] [T/A] [T/A] [A/G] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [T/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C]

17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17

4310639 4362100 4407712 4415826 4534608 4534608 4801887 4802685 5097977 5097977 5113423 5319620 5432668 5570518 5627408 5818764 5887775 5939014 5985500 6131093 6168235 6204697 6233740 6344127 6349977 6553168 6984500 7214007 7233011 7545722 7553383 7553383 7576712 7732957 7805353 8051639 8063763 8583818 8628249 8916524 8965551 9127010 9245232 9555377 9698342 9701390 9764778 10001501 10011876 10198829 10214628 10217233 10225269 10320374 10370624 10370624 10423933 10628811 10692593 10788306

SC

M AN U TE D

AC C

EP

rs7207359 rs12951756 chr17_4407712_A_G rs11649789 rs11568131 rs11568131 rs12936083 chr17_4802685_A_G rs2585254 rs2585254 rs3031 chr17_5319620_A_C rs4577136 rs2716932 rs2535591 rs4985621 chr17_5887775_C_T rs756696 rs11651112 rs2159270 rs1811229 rs917486 rs11078618 chr17_6344127_C_G rs2280111 rs9900150 chr17_6984500_C_T chr17_7214007_A_G rs3809816 rs34146209 rs12936842 rs12936842 chr17_7576712_C_T chr17_7732957_A_C chr17_7805353_C_T chr17_8051639_A_G chr17_8063763_A_G rs1465650 rs4459584 rs12604012 rs8081823 rs12939263 rs8071380 rs422819 rs12103880 rs2277691 rs2280492 chr17_10001501_A_C rs7222434 rs999338 chr17_10214628_C_T rs4451985 chr17_10225269_A_G rs4791984 rs78403869 rs78403869 rs12944999 rs12451355 rs9894468 rs202578

genotype difference Col_12_CB Col_33_CB Col_52_CB Col_12_CB Col_33_IF Col_34_IF Col_38_TS Col_16_IF Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_08_TS Col_33_IF Col_34_CB Col_12_IF Col_52_CB Col_38_IF Col_34_CB Col_12_CB Col_08_TS Col_52_CB Col_12_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_12_IF Col_33_IF Col_45_CB Col_59_IF Col_38_TS Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_TS Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_12_IF Col_33_IF Col_33_IF Col_52_CB Col_12_CB

RI PT


Marker ID

503

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT TOP TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT TOP BOT BOT BOT TOP BOT TOP BOT BOT BOT TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT TOP TOP BOT BOT TOP TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT

[A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/C] [T/C] [T/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/G] [T/C] [T/C] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/T] [A/T] [T/C] [T/C] [A/C] [A/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C]

17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17

10789111 10930462 10935730 11029585 11066295 11327461 11366905 11379998 11507865 11648332 11990679 12043777 12190713 12191116 12191116 12191116 12202845 12244321 12325592 12332049 12340738 12340738 12383955 12454498 12498319 12556576 12578066 12578066 12783663 12982998 13091442 13115254 13186482 13194795 13226804 13256586 13429665 13466894 13478647 13542320 13554804 13558088 13644471 13900449 13900449 13957618 13957618 13969185 13969185 13987303 13987303 14006626 14035727 14035727 14194963 14222180 14228641 14228641 14239312 14258901

SC

M AN U TE D

AC C

EP

rs12942118 rs4792090 rs16944143 rs9900063 chr17_11066295_A_G rs10521183 rs1513741 chr17_11379998_A_G rs4792152 rs3744578 rs10432016 rs12452497 rs6502186 chr17_12191116_A_G chr17_12191116_A_G chr17_12191116_A_G rs8067055 rs1859933 rs237320 rs1860555 chr17_12340738_A_G chr17_12340738_A_G chr17_12383955_C_T chr17_12454498_C_T rs4054988 rs4792271 chr17_12578066_C_T chr17_12578066_C_T rs11652580 chr17_12982998_C_T rs10432009 rs2674959 chr17_13186482_C_T chr17_13194795_A_G rs4054884 rs7225341 rs9903786 rs4399565 rs4792373 chr17_13542320_A_G rs8067716 chr17_13558088_C_T chr17_13644471_C_T rs9900238 rs9900238 chr17_13957618_A_T chr17_13957618_A_T rs6502329 rs6502329 chr17_13987303_A_C chr17_13987303_A_C chr17_14006626_A_G rs11078225 rs11078225 rs7220012 rs11078240 chr17_14228641_A_G chr17_14228641_A_G rs2058044 rs2127998

genotype difference Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_CB Col_52_IF Col_12_CB Col_52_IF Col_12_CB Col_52_CB Col_12_CB Col_33_IF Col_59_TS Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_12_CB Col_38_TS Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_CB Col_12_IF Col_52_CB Col_38_IF Col_52_TS Col_52_IF Col_12_CB Col_12_IF Col_33_IF Col_12_IF Col_33_IF Col_38_TS Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_38_TS Col_33_IF Col_52_CB Col_08_TS Col_38_TS Col_33_IF Col_12_CB Col_33_IF Col_16_TS Col_52_IF Col_12_CB Col_12_CB Col_33_IF Col_12_IF Col_33_IF Col_12_CB

RI PT


Marker ID

504

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP BOT TOP BOT TOP BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP BOT TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT TOP BOT TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT TOP BOT BOT

[T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [G/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [T/G] [T/G] [A/G] [A/C] [A/G] [T/C] [T/G] [A/T] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C]

17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17

14275086 14275086 14275086 14290540 14291547 14321452 14344060 14448118 14469368 14534945 14609956 14804554 14813555 14819840 14821844 14902418 14911566 14930030 14939024 14946601 14946601 14951381 15002217 15030240 15030240 15063832 15101792 15194724 15202205 15202205 15412809 15447364 15529969 15961951 16196275 16207526 16516749 16878488 16893155 17194838 17199846 17200241 17736790 18070761 18408965 19204432 19204432 19598483 19613601 19636719 19697976 20527718 20649569 20738585 20766280 20936486 20936486 21273528 21318671 21396058

SC

M AN U TE D

AC C

EP

rs4792477 rs4792477 rs4792477 rs16949426 rs17692633 rs2022256 rs592716 chr17_14448118_A_G rs9903098 chr17_14534945_C_T rs9909707 rs2191177 rs16950582 chr17_14819840_A_G rs17711287 rs4792567 rs8075436 rs2159316 rs9899309 rs3944069 rs3944069 rs6502426 rs17771065 corect_rs117620547 corect_rs117620547 rs4792576 rs230999 rs8073989 rs230956 rs230956 rs9911005 rs2938158 rs4792636 chr17_15961951_A_G rs11868284 rs3112511 rs8072900 rs6502546 chr17_16893155_A_G rs7217560 chr17_17199846_A_G rs12451886 chr17_17736790_C_T rs854796 kgp1134532 rs12938803 rs12938803 chr17_19598483_A_G rs16960360 rs1006553 rs17794370 rs1382779 chr17_20649569_A_T rs8075732 rs6587094 chr17_20936486_C_T chr17_20936486_C_T rs9909190 rs3752032 chr17_21396058_A_G

genotype difference Col_33_IF Col_34_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_38_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_16_IF Col_52_IF Col_52_IF Col_12_CB Col_33_IF Col_52_TS Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_52_IF Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_CB Col_12_CB Col_38_IF Col_12_CB Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_52_IF Col_33_CB Col_52_TS Col_52_IF Col_08_TS Col_34_IF

RI PT


Marker ID

505

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT TOP TOP BOT TOP MINUS BOT TOP BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP BOT TOP BOT TOP BOT BOT TOP BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP PLUS TOP MINUS BOT PLUS TOP BOT MINUS BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP

[T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/G] [A/G] [D/I] [T/G] [A/G] [T/G] [T/C] [A/G] [T/C] [A/T] [A/T] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/C] [T/C] [T/C] [A/G] [T/G] [T/G] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [D/I] [A/G] [D/I] [T/G] [I/D] [A/G] [T/C] [D/I] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [T/G] [A/T]

17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17

21396058 21470731 21779838 21810779 21851555 25469588 25768404 25992277 26492875 27344104 28104306 28210703 28236645 29109663 29114463 29221227 29347809 29360110 29509946 29509946 29509946 29616632 29643401 29667960 29842552 29961261 30007748 30235064 30375678 30375678 30375678 30819778 30867028 30956024 31119350 31324673 31468742 31600299 31627290 31632618 31685575 31715385 31798628 31836993 31960248 32396450 32543769 32657279 32657279 32706889 32841107 32885943 32978655 33017787 33017787 33670803 33766427 33876801 34272942 34899015

SC

M AN U

TE D

chr17_21396058_A_G rs9914345 rs4889773 rs1871323 rs34192524 rs62056343 rs4570913 rs9899871 chr17_26492875_CTTTC_INDEL rs8082352 rs9891188 rs7219163 rs8073292 rs7214205 rs1061342 rs9898911 chr17_29347809_A_T chr17_29360110_C_T rs17885309 rs17885309 rs17885309 rs8078423 chr17_29643401_A_G chr17_29667960_A_G chr17_29842552_G_T rs315468 chr17_30007748_A_G corect_rs140850719 rs2627102 rs2627102 rs2627102 corect_rs3187325 rs11869081 rs321160 chr17_31119350_A_G rs28957 rs11652461 rs1002317 chr17_31627290_INDEL_TG rs11657231 chr17_31685575_GATGAGTG_INDEL rs12941575 chr17_31798634_INDEL_T rs9891235 rs7221246 chr17_32396450_INDEL_TTTC rs8075337 chr17_32657279_C_T chr17_32657279_C_T rs159297 rs1476773 rs2338968 rs4332785 rs2339212 rs2339212 rs1554046 chr17_33766427_G_T chr17_33876801_C_T rs8064395 chr17_34899015_A_T

genotype difference Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_16_TS Col_33_IF Col_52_CB Col_52_CB Col_33_IF Col_38_CB Col_12_CB Col_33_IF Col_33_CB Col_12_TS Col_16_TS Col_33_CB Col_12_CB Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_TS Col_33_IF Col_12_CB Col_38_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_16_TS Col_33_CB Col_33_CB Col_38_CB Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_59_TS Col_33_IF

RI PT


Marker ID

506

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT MINUS TOP BOT PLUS PLUS TOP BOT TOP TOP BOT BOT BOT TOP PLUS BOT BOT TOP TOP TOP BOT TOP BOT TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP BOT TOP TOP BOT BOT BOT TOP BOT TOP PLUS TOP BOT BOT MINUS TOP

[T/C] [T/G] [T/G] [T/C] [D/I] [A/G] [T/C] [I/D] [I/D] [A/G] [T/C] [A/G] [A/G] [T/G] [T/G] [T/C] [A/C] [D/I] [T/C] [T/C] [A/C] [A/C] [A/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/C] [D/I] [C/G] [T/C] [T/C] [I/D] [A/C]

17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17

35183432 35246805 35541912 35546465 35578381 35629331 35631252 35696821 35696821 35887392 35902889 35981927 35999301 36021431 36021431 36075605 36169785 36186994 36515591 36515591 36575915 36575915 36575915 36875315 37216417 37267979 38031714 38638251 38638251 38638251 38757789 38888121 38901765 38912910 38912910 38937309 39024037 39024037 39053831 39280567 39472842 39919366 40425223 40622538 41190715 41196408 41215825 41219560 41225445 41226348 41267763 41276120 41276135 41404835 41914715 42075638 42535733 42746144 43002226 43417995

SC

M AN U

TE D

chr17_35183432_A_G chr17_35246805_G_T chr17_35541912_A_C chr17_35546465_C_T rs67146036 rs2245066 rs76298822 chr17_35696820_AAAG_INDEL rs67231825 rs739740 rs11657596 rs12453685 rs17138585 rs75892552 rs75892552 rs17138476 rs9899815 chr17_36186994_INDEL_TTC rs12600340 rs12600340 chr17_36575915_A_C chr17_36575915_A_C chr17_36575915_A_C rs12451380 rs9904250 rs16491 rs10852936 rs627857 rs627857 rs627857 rs1358175 rs16966175 rs1405334 rs7210530 rs7210530 chr17_38937309_A_C rs9911615 rs9911615 rs11651987 rs378133 rs9901096 exm1322715 chr17_40425223_C_T chr17_40622538_A_G chr17_41190715_A_G chr17_41196408_A_G chr17_41215825_C_T chr17_41219560_C_T rs74877299 chr17_41226348_C_T rs1800062 chr17_41276120_C_T c17_pos38529661 chr17_41404835_A_C chr17_41914715_C_INDEL chr17_42075638_C_G chr17_42535733_C_T chr17_42746144_C_T chr17_43002226_INDEL_TTTA chr17_43417995_A_C

genotype difference Col_38_IF Col_33_CB Col_33_IF Col_33_IF Col_45_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_16_TS Col_33_IF Col_16_TS Col_33_IF Col_52_TS Col_16_TS Col_38_TS Col_12_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_38_TS Col_33_IF Col_33_CB Col_33_IF Col_08_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_52_IF Col_34_CB Col_33_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_38_IF Col_33_IF Col_33_IF Col_52_CB Col_52_CB

RI PT


Marker ID

507

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT TOP TOP BOT PLUS BOT BOT TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP PLUS TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT TOP BOT TOP TOP BOT BOT BOT BOT MINUS BOT

[A/G] [T/G] [T/G] [T/A] [C/G] [T/C] [T/C] [T/C] [T/C] [A/T] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/G] [I/D] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/G] [G/C] [A/G] [I/D] [A/G] [C/G] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [A/C] [T/A] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [D/I] [T/C]

17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17

43488792 43519564 43710384 43714673 43749168 43750238 43750315 43754010 43757776 43760516 43765080 43766497 43775479 43775546 43776061 43777542 43778828 43781720 43781778 43787226 43790401 43806451 43821062 43823229 43824908 43826351 43837782 43854015 43859640 43894990 43895501 43897130 43908572 43911443 43912786 43922918 43935631 43938634 43938796 43943655 43943755 43960172 43960918 43977049 43978120 43983363 43985662 43994648 43994952 43998574 44002062 44012248 44012463 44013024 44027753 44041101 44042361 44044940 44045585 44049133

SC

M AN U

TE D

chr17_43488792_C_T chr17_43519564_A_C chr17_43710384_A_C chr17_43714673_A_T chr17_43749168_C_G chr17_43750238_A_G chr17_43750315_A_G chr17_43754010_C_T chr17_43757776_C_T chr17_43760516_A_T chr17_43765080_A_G chr17_43766497_C_T chr17_43775479_C_T chr17_43775546_A_G chr17_43776061_C_T chr17_43777542_A_G chr17_43778828_G_T chr17_43781721_A_INDEL chr17_43781778_A_G chr17_43787226_A_G chr17_43790401_A_G chr17_43806451_C_T chr17_43821062_A_G chr17_43823229_C_T chr17_43824908_C_T chr17_43826351_A_G chr17_43837782_A_G rs12953076 chr17_43859640_A_G chr17_43894990_G_T chr17_43895501_C_G chr17_43897130_A_G chr17_43908572_INDEL_TCAGAA chr17_43911443_C_T chr17_43912786_C_G exm1330834 chr17_43935631_C_T chr17_43938634_A_G chr17_43938796_A_G chr17_43943655_A_C chr17_43943755_C_T chr17_43960172_C_T chr17_43960918_C_T chr17_43977049_A_G chr17_43978120_A_G chr17_43983363_A_G chr17_43985662_C_T chr17_43994648_C_T chr17_43994952_A_G chr17_43998574_G_T chr17_44002062_A_C chr17_44012248_A_T chr17_44012463_C_T chr17_44013024_C_T chr17_44027753_A_G chr17_44041101_C_T chr17_44042361_C_T chr17_44044940_C_T chr17_44045585_C_INDEL chr17_44049133_C_T

genotype difference Col_52_CB Col_52_IF Col_52_IF Col_52_IF Col_52_IF Col_52_CB Col_52_CB Col_52_CB Col_52_IF Col_52_IF Col_52_IF Col_52_IF Col_52_IF Col_52_IF Col_52_IF Col_52_CB Col_52_CB Col_52_TS Col_52_CB Col_52_IF Col_52_IF Col_52_CB Col_52_CB Col_52_IF Col_52_IF Col_52_CB Col_52_IF Col_33_IF Col_52_IF Col_52_CB Col_52_IF Col_52_CB Col_33_CB Col_52_CB Col_12_CB Col_33_CB Col_52_CB Col_52_CB Col_52_IF Col_52_IF Col_52_IF Col_52_CB Col_12_CB Col_52_CB Col_52_CB Col_33_IF Col_52_CB Col_52_IF Col_52_IF Col_12_CB Col_12_CB Col_52_IF Col_12_CB Col_52_CB Col_12_CB Col_52_CB Col_52_CB Col_52_CB Col_16_TS Col_52_CB

RI PT


Marker ID

508

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT TOP TOP BOT TOP BOT TOP BOT BOT TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP PLUS BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT PLUS TOP TOP BOT TOP TOP PLUS PLUS BOT TOP

[T/C] [A/G] [A/G] [T/A] [G/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/G] [A/G] [T/C] [T/A] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/A] [A/G] [A/G] [T/C] [T/C] [T/C] [A/C] [A/G] [A/G] [A/G] [I/D] [T/C] [T/C] [T/G] [T/C] [G/C] [T/C] [T/C] [T/G] [T/G] [A/C] [T/C] [D/I] [A/G] [A/G] [T/C] [A/T] [A/G] [D/I] [D/I] [T/C] [A/G]

17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17

44062337 44063140 44064334 44065669 44071089 44071294 44075901 44076665 44078832 44085743 44088926 44091195 44095570 44108202 44108906 44111109 44112385 44120608 44134391 44145373 44147411 44150152 44181118 44186952 44191159 44209628 44210933 44216226 44221476 44227623 44227623 44229073 44234064 44243179 44250883 44251243 44251243 44257473 44267802 44276618 44276821 44289150 44289220 44787313 44819565 44819565 44838686 44964812 45309388 45412731 45438887 45482857 45483229 45504870 45763005 45857346 46038449 46038449 46091444 46142680

SC

M AN U

TE D

chr17_44062337_A_G chr17_44063140_A_G chr17_44064334_C_T chr17_44065669_A_T chr17_44071089_C_G chr17_44071294_C_T chr17_44075901_A_G chr17_44076665_A_G chr17_44078832_A_G chr17_44085743_C_T chr17_44088926_C_T chr17_44091195_C_T chr17_44095570_A_G chr17_44108202_A_G chr17_44108906_A_G chr17_44111109_A_G chr17_44112385_A_G chr17_44120608_A_G chr17_44134391_G_T chr17_44145373_C_T chr17_44147411_A_G chr17_44150152_A_T chr17_44181118_A_G chr17_44186952_C_T chr17_44191159_C_T chr17_44209628_C_T chr17_44210933_A_G chr17_44216226_A_G chr17_44221476_A_T chr17_44227623_C_T chr17_44227623_C_T chr17_44229073_A_G chr17_44234064_A_G chr17_44243179_A_G chr17_44250883_A_C chr17_44251243_C_T chr17_44251243_C_T chr17_44257473_C_T chr17_44267802_INDEL_T chr17_44276618_A_G chr17_44276821_A_G chr17_44289150_A_C chr17_44289220_C_T chr17_44787313_C_G rs199443 rs199443 chr17_44838686_G_T chr17_44964812_A_C corect_rs181865625 chr17_45412731_A_G chr17_45438886_AGTG_INDEL rs8075058 chr17_45483229_A_G rs10514929 chr17_45763005_A_T chr17_45857346_A_G rs66535122 rs66535122 chr17_46091444_C_T rs11079806

genotype difference Col_38_IF Col_12_CB Col_52_IF Col_52_CB Col_52_IF Col_52_IF Col_52_IF Col_52_CB Col_08_TS Col_52_IF Col_33_IF Col_12_CB Col_52_IF Col_52_CB Col_52_IF Col_52_IF Col_52_IF Col_52_CB Col_52_IF Col_52_IF Col_52_CB Col_38_IF Col_38_IF Col_52_CB Col_16_CB Col_52_CB Col_52_CB Col_52_CB Col_34_CB Col_52_CB Col_12_CB Col_12_CB Col_08_TS Col_52_CB Col_16_TS Col_38_CB Col_52_IF Col_12_CB Col_33_IF Col_52_CB Col_38_CB Col_33_IF Col_38_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_52_CB Col_16_TS Col_38_IF Col_33_IF Col_52_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_52_IF Col_52_CB Col_12_CB

RI PT


Marker ID

509

IlmnStrand

SNP

Chr

MapInfo

BOT MINUS TOP TOP TOP TOP TOP BOT PLUS BOT BOT BOT BOT BOT BOT BOT BOT BOT PLUS BOT BOT BOT TOP TOP BOT PLUS BOT TOP TOP TOP TOP BOT TOP BOT BOT TOP TOP TOP BOT TOP BOT TOP BOT BOT BOT BOT BOT TOP BOT PLUS TOP BOT PLUS TOP TOP TOP BOT PLUS BOT BOT

[T/C] [I/D] [C/G] [A/G] [A/G] [A/G] [A/C] [T/C] [I/D] [T/G] [T/C] [T/C] [T/A] [T/G] [G/C] [T/C] [T/C] [T/C] [I/D] [T/C] [G/C] [T/G] [A/G] [A/G] [T/C] [I/D] [G/C] [A/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/G] [A/T] [G/C] [G/C] [T/C] [T/C] [T/C] [C/G] [T/G] [I/D] [A/G] [T/C] [I/D] [A/G] [A/G] [A/C] [T/C] [D/I] [T/G] [T/C]

17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17

46180724 46206211 46265433 46324584 46324584 46329091 46336112 46337573 46346997 46361751 46373182 46373182 46384113 46399497 46410661 46416117 46424789 46428568 46435492 46456850 46468830 46471628 46502888 46502888 46502917 46521482 46536610 46639703 46697782 46713419 46726565 46750025 46780497 46792918 46793550 46841894 46841894 46844961 46848470 46883198 46974315 47037024 47067184 47090298 47128247 47190299 47218959 47227431 47269031 47330124 47337742 47372764 47373559 47490102 47541464 47583018 47709530 47723230 47730006 47942501

SC

M AN U TE D

AC C

EP

rs4794447 rs67298533 rs2305433 chr17_46324584_C_T chr17_46324584_C_T chr17_46329091_C_T chr17_46336112_A_C rs8065115 rs67191875 rs11656589 rs74631399 rs74631399 chr17_46384113_A_T chr17_46399497_G_T chr17_46410661_C_G rs7216202 rs9897162 rs7224686 chr17_46435493_A_INDEL rs11655672 chr17_46468830_C_G chr17_46471628_A_C rs7218217 rs7218217 rs7218345 chr17_46521482_INDEL_TT chr17_46536610_C_G rs733920 chr17_46697782_A_G chr17_46713419_A_G rs9900979 rs77592156 rs4793976 chr17_46792918_C_T rs77549187 chr17_46841894_A_G rs953259 chr17_46844961_C_T rs8067245 chr17_46883198_A_G chr17_46974315_G_T rs11079847 rs62078398 rs6504592 rs2969 rs1916295 rs6504599 chr17_47227431_C_G chr17_47269031_A_C chr17_47330125_A_INDEL chr17_47337742_C_T rs2906100 chr17_47373559_A_INDEL rs7502499 rs2671636 rs11466134 chr17_47709530_A_G rs10571619 rs12937072 chr17_47942501_A_G

genotype difference Col_52_CB Col_16_TS Col_52_CB Col_34_TS Col_38_TS Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_08_TS Col_08_TS Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_52_CB Col_12_CB Col_16_IF Col_33_IF Col_38_IF Col_12_CB Col_52_IF Col_34_IF Col_52_IF Col_12_CB Col_33_CB Col_16_TS Col_52_CB Col_52_IF Col_33_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_52_IF Col_52_IF Col_52_CB Col_12_CB Col_16_TS Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_38_TS Col_33_IF Col_38_TS Col_16_TS Col_33_IF Col_12_CB Col_33_CB Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_16_TS

RI PT


Marker ID

510

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP BOT BOT BOT TOP BOT BOT TOP BOT TOP TOP BOT TOP TOP BOT TOP BOT BOT BOT TOP BOT BOT TOP BOT TOP TOP BOT TOP BOT BOT TOP BOT BOT TOP BOT BOT

[T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/C] [A/C] [T/G] [T/A] [T/A] [A/G] [T/C] [T/G] [T/G] [A/G] [T/C] [T/C] [G/C] [T/C] [A/C] [A/C] [A/G] [G/C] [A/G] [T/C] [T/C] [T/G] [A/C] [T/G] [T/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/G] [T/G] [T/C] [A/G] [T/G] [T/G] [A/G] [T/G] [A/G] [A/G] [T/C] [A/C] [T/C] [T/C] [A/G] [T/A] [T/C] [A/C] [T/C] [T/C]

17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17

47960695 48316872 48338990 48446092 48703752 48788197 48821504 48821504 49324752 49491582 49491582 49609098 49612200 49615545 49821083 49884254 49886052 49901162 49909654 49935980 50093452 50155850 50195268 50238706 50472547 50513234 50639905 50740695 51001253 51206438 51232247 51289930 51309477 51313859 51335731 51431997 51451845 51502173 51638548 51647451 51862803 52024499 52027050 52075605 52137105 52256225 52282796 52303311 52316824 52559061 52704312 52705435 52766210 52770340 52770535 52850065 52869546 52874312 52878845 52881369

SC

M AN U TE D

AC C

EP

rs9910111 rs1881140 chr17_48338990_A_G rs4638629 chr17_48703752_C_T rs9898910 chr17_48821504_A_C chr17_48821504_A_C chr17_49324752_G_T chr17_49491582_A_T chr17_49491582_A_T chr17_49609098_A_G chr17_49612200_A_G chr17_49615545_G_T rs1263980 rs12452577 rs1501255 chr17_49901162_C_T rs73989413 chr17_49935980_C_T rs11650852 rs7210687 rs9889332 chr17_50238706_C_G rs9915062 rs10153283 chr17_50639905_C_T rs2467509 chr17_51001253_A_C rs1997144 rs4794417 rs703855 rs807072 rs7209915 rs12602636 rs2041131 rs8064753 chr17_51502173_A_G rs4309447 rs9898755 rs7224597 rs7223210 rs7213992 rs1125370 rs8071099 rs9897174 chr17_52282796_A_G rs995340 rs2063166 chr17_52559061_A_G rs1025905 rs10468496 rs8068186 rs10468540 rs10468541 c17_pos50205064 rs11079129 rs2058259 chr17_52878845_C_T chr17_52881369_C_T

genotype difference Col_52_CB Col_52_CB Col_52_CB Col_33_IF Col_52_CB Col_33_CB Col_52_IF Col_12_CB Col_33_IF Col_33_TS Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_52_IF Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_12_TS Col_12_TS Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_45_IF Col_38_TS Col_33_CB Col_33_IF Col_33_IF Col_52_CB Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_38_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

511

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT TOP BOT PLUS TOP BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP

[T/C] [A/G] [A/G] [T/C] [T/G] [A/G] [A/G] [T/C] [T/G] [T/G] [T/C] [T/C] [T/C] [G/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/C] [T/A] [I/D] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [G/C] [A/G] [T/C] [T/G] [T/G] [T/G] [A/C] [A/G] [A/G] [T/C] [T/G] [A/C] [T/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [A/G]

17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17

52885016 52922498 52956487 52996551 53028615 53029328 53038745 53049987 53058807 53062903 53107432 53120196 53120196 53129896 53132411 53137506 53137506 53137974 53159273 53160154 53160154 53169806 53192946 53195934 53196291 53200418 53266415 53266415 53279433 53291507 53294285 53331344 53346721 53401087 53407119 53420791 53430537 53470462 53649729 53691821 54008695 54092819 54093504 54187083 54255789 54280111 54310822 54873812 54940391 55608091 55701470 55701470 55768656 56057565 56057565 56093061 56180576 56180576 56253587 56564090

SC

M AN U TE D

AC C

EP

chr17_52885016_A_G chr17_52922498_A_G chr17_52956487_A_G chr17_52996551_C_T chr17_53028615_A_C chr17_53029328_A_G chr17_53038745_A_G chr17_53049987_C_T chr17_53058807_G_T chr17_53062903_A_C chr17_53107432_C_T rs72833260 rs72833260 chr17_53129896_C_G chr17_53132411_A_G chr17_53137506_A_G chr17_53137506_A_G chr17_53137974_A_G chr17_53159273_C_T chr17_53160154_A_G chr17_53160154_A_G chr17_53169806_G_T chr17_53192946_A_T rs66777554 chr17_53196291_A_G chr17_53200418_A_G chr17_53266415_A_G chr17_53266415_A_G rs7211784 chr17_53291507_A_G chr17_53294285_A_G rs4239191 rs78422111 chr17_53401087_A_G rs8067230 chr17_53420791_C_G rs4516286 rs11547827 rs8079541 corect_rs138389283 rs7223545 rs2163452 rs6505024 rs8065460 chr17_54255789_C_T rs8078063 chr17_54310822_A_C rs3867599 rs8071009 chr17_55608091_A_G rs965216 rs965216 chr17_55768656_A_G chr17_56057565_A_G chr17_56057565_A_G rs11649864 chr17_56180576_C_T chr17_56180576_C_T rs9904720 chr17_56564090_C_T

genotype difference Col_33_IF Col_33_IF Col_52_IF Col_12_IF Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_38_CB Col_16_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_38_TS Col_33_IF Col_52_CB Col_52_IF Col_16_TS Col_33_IF Col_52_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_52_IF Col_33_IF Col_12_IF Col_12_CB Col_33_IF Col_38_TS Col_38_TS Col_52_CB Col_08_TS Col_16_TS Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_33_IF Col_52_CB Col_52_IF Col_33_IF

RI PT


Marker ID

512

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP PLUS MINUS TOP PLUS TOP BOT TOP TOP BOT TOP TOP TOP BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP BOT TOP MINUS BOT BOT BOT BOT BOT BOT BOT TOP

[T/C] [T/C] [T/C] [A/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/C] [I/D] [D/I] [A/G] [I/D] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/C] [A/C] [T/G] [A/G] [A/G] [T/C] [T/C] [A/G] [G/C] [T/G] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/C] [A/G] [A/C] [A/G] [C/G] [T/C] [C/G] [D/I] [T/C] [T/C] [T/C] [T/C] [T/G] [T/G] [T/C] [A/G]

17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17

56607124 57158764 57384199 57521208 57696973 58443305 58853216 58862869 59100984 59108262 59155210 59177071 59316721 59340859 59626312 59800036 59804480 59857599 59857609 59924572 59926633 59926645 59954489 60097081 60238431 60324448 60666333 60889186 60889186 61036236 61096378 61096378 61201358 61201358 61323412 61868363 62072181 62495933 62541309 63260406 63559583 63745965 63944233 64014351 64236941 64401673 64438011 64686048 64983640 65018941 65488021 65499345 66163231 66190373 66225185 66518663 66585822 66595838 66625794 66700965

SC

M AN U TE D

AC C

EP

chr17_56607124_C_T chr17_57158764_C_T rs6503915 rs8073039 rs3803861 rs16944295 rs8078607 chr17_58862869_C_T rs8071891 rs16944758 rs8064681 chr17_59177071_A_G rs73326897 rs732350 rs7406786 rs9913108 rs717961 chr17_59857599_A_INDEL chr17_59857608_AAC_INDEL chr17_59924572_A_G chr17_59926633_A_INDEL chr17_59926645_C_T chr17_59954489_C_T rs9910451 rs7219768 rs12325728 rs76402483 chr17_60889186_A_C chr17_60889186_A_C chr17_61036236_G_T chr17_61096378_A_G chr17_61096378_A_G chr17_61201358_A_G chr17_61201358_A_G rs2460109 chr17_61868363_C_G rs4141178 chr17_62495933_A_G rs9303474 rs12051686 chr17_63559583_A_G chr17_63745965_C_T rs1420798 chr17_64014351_C_T rs9892748 rs10221232 rs1005651 rs8072920 chr17_64983640_C_G rs758284 chr17_65488021_C_G chr17_65499345_G_INDEL rs8077384 rs7223873 rs2362728 rs2952275 chr17_66585822_A_C chr17_66595838_A_C chr17_66625794_C_T rs8075075

genotype difference Col_52_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_45_IF Col_33_IF Col_38_IF Col_52_CB Col_38_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_16_TS Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

513

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT PLUS TOP BOT TOP BOT MINUS TOP TOP BOT BOT BOT BOT PLUS TOP TOP TOP TOP BOT BOT TOP BOT TOP BOT TOP TOP BOT BOT TOP TOP TOP MINUS BOT TOP BOT TOP TOP BOT BOT MINUS TOP TOP TOP MINUS

[T/G] [T/C] [T/C] [T/C] [A/G] [A/C] [T/C] [T/C] [T/G] [T/G] [T/C] [A/C] [A/C] [A/G] [T/C] [T/C] [T/C] [D/I] [A/G] [T/C] [A/G] [T/C] [D/I] [A/G] [A/G] [T/C] [T/C] [G/C] [T/C] [I/D] [A/G] [A/C] [A/T] [A/G] [T/A] [T/A] [A/G] [T/G] [A/G] [T/C] [A/G] [A/G] [T/G] [T/C] [A/C] [C/G] [A/G] [I/D] [T/C] [A/C] [T/A] [A/G] [A/G] [T/A] [T/C] [I/D] [A/C] [C/G] [A/C] [I/D]

17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17

66772301 66966274 67004072 67099658 67178316 67212574 67235705 67298109 67327806 67605032 67668868 67860494 68359507 68381555 68411445 68506237 68704608 68709343 68732562 68738756 68748479 68878487 68882564 68916419 68941380 68972281 69024403 69051200 69061947 69063494 69069217 69072537 69078809 69080503 69085782 69085782 69088651 69100541 69104938 69106742 69110773 69117214 69121286 69121331 69121597 69121631 69121643 69124475 69130836 69136189 69137982 69139979 69139979 69146830 69147636 69152671 69152825 69153588 69161145 69164252

SC

M AN U

TE D

rs1348372 rs6501919 rs7222838 rs4141177 exm1349438 rs9912127 chr17_67235705_A_G rs534645 chr17_67327806_G_T rs2521693 chr17_67668868_C_T rs8068409 rs3848451 rs6501388 rs1468572 rs6501398 rs7223266 chr17_68709343_C_INDEL chr17_68732562_C_T chr17_68738756_C_T chr17_68748479_A_G rs1015657 chr17_68882565_G_INDEL chr17_68916419_C_T rs16976326 rs17177255 rs7223961 chr17_69051200_C_G chr17_69061947_A_G chr17_69063494_A_INDEL chr17_69069217_A_G chr17_69072537_G_T chr17_69078809_A_T chr17_69080503_A_G chr17_69085782_A_T chr17_69085782_A_T chr17_69088651_A_G chr17_69100541_A_C chr17_69104938_A_G chr17_69106742_C_T chr17_69110773_A_G chr17_69117214_C_T rs2367256 chr17_69121331_A_G chr17_69121597_G_T chr17_69121631_C_G chr17_69121643_A_G chr17_69124475_A_INDEL chr17_69130836_C_T chr17_69136189_A_C chr17_69137982_A_T chr17_69139979_C_T chr17_69139979_C_T chr17_69146830_A_T chr17_69147636_C_T chr17_69152671_CAAT_INDEL chr17_69152825_A_C chr17_69153588_C_G chr17_69161145_G_T chr17_69164259_A_INDEL

genotype difference Col_52_CB Col_33_IF Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_52_IF Col_16_TS Col_33_IF Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_12_CB Col_52_CB Col_52_IF Col_52_CB Col_16_IF Col_52_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_52_IF Col_12_CB Col_52_TS Col_38_CB Col_52_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

514

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT TOP TOP TOP TOP BOT BOT TOP MINUS BOT TOP TOP TOP TOP BOT TOP BOT BOT TOP TOP TOP BOT PLUS TOP TOP BOT TOP TOP TOP PLUS BOT MINUS BOT BOT BOT TOP BOT BOT BOT TOP BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT

[A/G] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [G/C] [A/C] [I/D] [T/C] [A/G] [A/G] [C/G] [A/G] [T/C] [A/G] [T/C] [T/G] [A/G] [A/C] [A/C] [T/C] [D/I] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [D/I] [T/C] [I/D] [T/C] [T/C] [T/G] [A/G] [G/C] [T/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C]

17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17

69164471 69172702 69174496 69177861 69178317 69184727 69186366 69186562 69198109 69199987 69214890 69215900 69223909 69224994 69226267 69232599 69233083 69234808 69239272 69257833 69263135 69281869 69307424 69367700 69392476 69410074 69411793 69418269 69427048 69440293 69440293 69445982 69465342 69484541 69485917 69497228 69501575 69517133 69522066 69581225 69616366 69626669 69630585 69728406 69840451 69926109 69959015 69978609 69978916 70021748 70031984 70039846 70065847 70430643 70551832 70628216 70922975 70946023 71037186 71113564

SC

M AN U TE D

AC C

EP

chr17_69164471_C_T chr17_69172702_A_C chr17_69174496_C_T chr17_69177861_C_T chr17_69178317_A_G chr17_69184727_A_G chr17_69186366_A_G chr17_69186562_C_T chr17_69198109_A_G chr17_69199987_C_G chr17_69214890_A_C chr17_69215905_A_INDEL chr17_69223909_A_G chr17_69224994_A_G chr17_69226267_C_T chr17_69232599_C_G chr17_69233083_C_T chr17_69234808_C_T chr17_69239272_A_G rs2158906 chr17_69263135_A_C chr17_69281869_C_T chr17_69307424_G_T rs2367391 chr17_69392476_A_G chr17_69410074_G_INDEL rs12941192 chr17_69418269_C_T chr17_69427048_C_T chr17_69440293_A_G chr17_69440293_A_G rs4793346 chr17_69465343_G_INDEL rs7216083 chr17_69485917_A_INDEL chr17_69497228_C_T chr17_69501575_C_T c17_pos67028728 rs11871770 chr17_69581225_C_G chr17_69616366_A_C rs4350607 rs4479291 chr17_69728406_A_G rs11871424 rs2158917 rs7209111 rs6501514 chr17_69978916_A_G rs2216167 rs7218051 rs17180903 rs9892101 rs6501543 rs11077612 rs4360976 rs2452915 chr17_70946023_A_G rs66529051 rs11655490

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_38_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_52_CB Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_08_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_52_IF

RI PT


Marker ID

515

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP MINUS BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT TOP BOT BOT BOT TOP BOT

[A/G] [C/G] [A/C] [T/C] [T/C] [T/G] [A/C] [A/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [A/G] [A/T] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/G] [T/C] [T/G] [T/G] [A/G] [T/C] [T/C] [A/G] [A/G] [D/I] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/C] [A/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C]

17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 17 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18

71164376 71188740 71341077 71386962 71403272 71687598 71699343 71765700 72177134 72563875 72563875 73035793 73053329 73185657 73497583 73504911 73888900 74344767 74820857 74834320 74834320 74944934 75075680 75345027 75896182 76521637 76549899 77081788 77126249 77299603 77356243 77645956 77938480 77938480 77938807 77992690 77992690 78117423 78165511 78240227 78927335 79483999 80393680 80393680 80991678 185110 220341 319446 361437 381704 485968 631994 650816 673211 863673 920151 936561 1213560 1277094 1278665

SC

M AN U TE D

AC C

EP

chr17_71164376_A_G chr17_71188740_C_G rs1021656 rs1566295 rs8082141 rs323391 rs2661598 rs2683221 chr17_72177134_A_G chr17_72563875_A_G chr17_72563875_A_G rs4435292 chr17_73053329_A_G rs729405 chr17_73497583_A_C chr17_73504911_C_T exm1901751 chr17_74344767_C_T rs11868247 rs7216903 rs7216903 rs3803745 rs716284 rs7221079 rs4789008 rs17729319 chr17_76549899_A_G chr17_77081788_A_G rs2612789 rs4790001 rs9902383 chr17_77645956_C_T chr17_77938480_A_C chr17_77938480_A_C chr17_77938807_C_T chr17_77992690_A_G chr17_77992690_A_G chr17_78117423_C_T chr17_78165511_C_T chr17_78240227_G_INDEL corect_rs117045048 rs7342974 exm1370118 exm1370118 rs7406268 chr18_185110_C_T rs8094221 rs10660 chr18_361437_A_G rs11663304 rs4798238 rs16947777 rs11081234 kgp15959073 chr18_863673_A_G rs11663168 rs16952999 rs4797604 chr18_1277094_A_G rs1595005

genotype difference Col_52_CB Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_52_CB Col_52_IF Col_16_TS Col_38_TS Col_45_IF Col_33_IF Col_33_CB Col_33_IF Col_34_CB Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_08_TS Col_16_TS Col_38_TS Col_52_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_52_IF Col_12_CB Col_45_IF Col_33_IF Col_34_CB Col_33_IF Col_33_CB Col_38_TS Col_33_IF Col_52_CB Col_08_TS Col_16_TS Col_52_CB Col_33_CB Col_52_IF Col_52_TS Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_16_IF Col_12_CB

RI PT


Marker ID

516

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP BOT TOP TOP TOP BOT TOP BOT TOP TOP TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT TOP TOP BOT BOT TOP BOT BOT TOP BOT TOP TOP TOP TOP BOT TOP BOT BOT TOP BOT BOT TOP BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT TOP TOP TOP

[T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/T] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/G] [T/C] [A/G] [A/G] [T/G] [T/C] [A/C] [A/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/C] [G/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/G] [A/T] [T/C] [T/G] [A/G] [T/C] [T/C] [A/G] [A/T] [A/T] [T/G] [T/C] [A/G] [T/C] [T/C] [T/G] [A/C] [A/G] [A/G]

18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18

1355678 1576816 1585460 1606526 1681354 1742207 1770403 1775084 1817362 1869567 1901534 1988344 1988409 1988409 2029050 2225298 2315761 2348433 2437987 2491875 2548128 2593662 2593662 2652879 2705700 2707510 2707510 2766938 2788323 2831496 2905973 3017152 3077464 3141984 3154005 3281385 3363595 3582605 3611241 3615943 3670649 3770469 3800533 3998799 4022527 4071425 4153363 4163421 4180842 4203327 4203327 4253242 4312630 4318982 4328652 4370882 4416468 4440419 4451130 4495320

SC

M AN U TE D

AC C

EP

rs7242646 rs2193727 rs2345035 rs12605641 rs2345589 rs12607596 rs7239517 chr18_1775084_A_G rs1595674 corect_rs147254732 rs312998 chr18_1988344_A_T rs9958621 rs9958621 rs6505992 chr18_2225298_C_T chr18_2315761_A_G chr18_2348433_C_T rs8094606 rs2677906 rs4798002 rs7233405 rs7233405 chr18_2652879_G_T rs635132 chr18_2707510_G_T chr18_2707510_G_T chr18_2766938_A_G rs17628390 rs11664521 chr18_2905973_C_T rs4798055 rs4613146 exm1372549 chr18_3154005_A_G rs7407076 rs4798085 rs658857 rs3866988 rs11876399 rs1675244 rs4798127 rs73940225 rs1982245 rs4798157 rs4556885 rs7235894 rs11874812 chr18_4180842_A_G chr18_4203327_A_T chr18_4203327_A_T rs10048368 rs3850787 rs1784732 rs557476 rs8085726 rs3850797 rs2615867 rs280984 rs1567041

genotype difference Col_33_IF Col_33_IF Col_33_TS Col_33_IF Col_34_CB Col_38_IF Col_33_IF Col_33_CB Col_12_CB Col_38_IF Col_33_IF Col_33_IF Col_08_IF Col_52_IF Col_12_CB Col_12_CB Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_59_TS Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_12_CB Col_33_CB Col_33_IF Col_16_TS Col_34_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_52_CB Col_12_CB Col_52_CB Col_16_TS Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_52_IF Col_12_CB Col_59_TS

RI PT


Marker ID

517

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT TOP BOT TOP BOT TOP BOT BOT BOT TOP TOP TOP TOP BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT TOP TOP BOT TOP BOT TOP BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP

[T/G] [A/C] [T/C] [A/G] [T/C] [A/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [A/C] [A/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/C] [A/C] [T/C] [A/C] [T/G] [G/C] [T/C] [T/G] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G]

18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18

4499831 4539085 4652432 4721359 4773110 4951802 5049796 5074167 5108877 5128439 5204070 5206566 5216054 5244261 5255109 5299142 5371579 5431000 5553097 5645282 5654289 5859693 5877869 5945376 5986416 5987164 6006117 6044407 6092335 6105125 6105125 6112971 6112971 6126366 6293561 6487465 6559984 6569595 6626372 6755963 6820045 6820187 6820187 6865658 6955676 7046276 7068462 7082526 7146454 7174604 7188754 7222638 7240201 7323968 7562317 7735804 7774104 7826503 7826503 7962084

SC

M AN U TE D

AC C

EP

rs2577085 rs7228133 rs12969362 rs1557305 rs7237848 rs1501044 rs16947515 rs11661385 rs292292 rs292354 rs8090209 rs8099603 rs9959482 rs3184460 rs1212721 rs627499 rs11081188 rs1963826 rs1719961 chr18_5645282_A_G rs6506313 chr18_5859693_C_T rs9789183 rs11662696 rs549827 rs8098351 rs686254 rs11661481 rs17406759 chr18_6105125_C_T chr18_6105125_C_T rs76626839 rs76626839 rs2219172 rs7241700 rs7234920 rs9948021 rs8091074 rs1941509 chr18_6755963_A_G rs9676010 chr18_6820187_G_T chr18_6820187_G_T rs7242515 rs949215 exm1373945 rs8090011 rs8088532 rs484528 rs454719 rs7231458 rs965992 chr18_7240201_C_T chr18_7323968_A_G rs539975 rs7230840 rs875530 rs1441000 rs1441000 rs11081348

genotype difference Col_33_IF Col_12_IF Col_12_CB Col_33_CB Col_38_TS Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_CB Col_16_IF Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_12_TS Col_33_IF Col_52_IF Col_34_IF Col_12_CB Col_16_TS Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_12_IF Col_12_CB Col_16_IF Col_52_IF Col_33_CB Col_33_IF Col_59_TS Col_52_IF Col_12_IF Col_34_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_08_TS Col_33_IF Col_12_CB Col_08_IF Col_33_IF Col_12_IF

RI PT


Marker ID

518

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT TOP TOP BOT TOP BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT TOP TOP BOT BOT TOP BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP TOP

[A/G] [A/G] [T/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/A] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [T/C] [A/G] [T/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/G] [T/C] [A/G] [T/C] [C/G] [C/G] [A/G] [A/C] [A/G]

18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18

8208830 8218296 8298633 8326914 8400497 8454501 8519367 8558793 8664493 8664506 8694421 8734995 8741580 8832268 8912044 9004250 9004250 9026488 9051342 9217537 9260246 9284602 9285892 9409510 9414011 9463898 9537897 9537897 9570161 9576121 9629316 9680186 9727992 9746909 9752939 9752939 9784421 9791344 9849009 9871069 10327073 10358117 10358570 10373697 10377306 10438246 10438246 10590943 10798841 10808723 10808723 10813345 10949093 11113958 11286964 11287854 11287854 11288105 11318243 11360298

SC

M AN U TE D

AC C

EP

rs8094072 rs12965261 rs9949149 rs9304010 chr18_8400497_A_G rs10502370 rs2156472 rs9945301 rs7241887 rs7240298 rs11874810 rs8095514 rs520846 rs3744975 rs12457275 rs7240836 rs7240836 rs12965084 rs12958858 rs8089693 chr18_9260246_A_G rs7228251 rs1074347 rs8095878 rs2169601 rs329028 kgp15964278 kgp15964278 exm1375083 rs6506676 rs682431 rs8087127 rs7232534 rs1116701 rs4798850 rs4798850 chr18_9784421_A_G rs4798854 rs592170 rs1784556 rs9955780 chr18_10358117_A_G rs498649 chr18_10373697_C_T rs12965406 chr18_10438246_C_T chr18_10438246_C_T rs9807181 rs7235310 rs1918672 rs1918672 rs9945781 rs9952954 chr18_11113958_A_G rs4796918 chr18_11287854_C_G chr18_11287854_C_G rs8091999 chr18_11318243_G_T chr18_11360298_A_G

genotype difference Col_12_CB Col_33_CB Col_12_CB Col_34_CB Col_33_CB Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_45_TS Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_38_TS Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_34_CB Col_12_CB Col_33_IF Col_16_IF Col_12_CB Col_33_IF Col_33_CB Col_38_TS Col_45_IF Col_12_CB Col_12_CB Col_33_CB Col_33_IF Col_34_TS Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_16_CB Col_59_TS Col_33_CB Col_33_IF Col_34_IF

RI PT


Marker ID

519

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP BOT TOP

[A/G] [T/C] [T/C] [T/C] [A/G] [T/G] [T/C] [T/G] [T/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/G] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/C] [T/C] [G/C] [T/C] [G/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [A/C] [A/C] [T/C] [A/G] [T/C] [A/G]

18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18

11360298 11446245 11446245 11452145 11485132 11667550 11700070 11818310 11818310 11819178 11819178 11819178 11824358 11906577 11912127 11912236 11953187 11994598 12468739 12721268 12892169 12984966 12984966 13035831 13458063 13487287 13487485 13671473 14104652 14382041 14415957 14584494 14584494 14727931 15075994 15102421 15102421 18630880 19252384 19475555 19556487 19622226 19948870 19994963 20416368 20487669 20514970 20514970 20559616 20563222 20563222 20575518 20575518 20610559 20610559 20610559 20639454 20891027 20915791 21044607

SC

M AN U TE D

AC C

EP

chr18_11360298_A_G rs8091031 rs8091031 rs7239176 rs8091421 rs4541146 chr18_11700070_C_T rs12962767 rs12962767 rs1559579 rs1559579 rs1559579 rs1786566 chr18_11906577_C_T chr18_11912127_A_G rs9965323 rs661885 rs669838 rs12455481 rs2847255 chr18_12892169_C_T chr18_12984966_A_G chr18_12984966_A_G rs10221384 rs8089773 rs7229093 rs1648618 chr18_13671473_C_T rs1940813 chr18_14382041_A_G rs8089809 chr18_14584494_A_G chr18_14584494_A_G rs3879098 rs4890751 rs9957245 rs9957245 chr18_18630880_C_T chr18_19252384_C_T rs7237961 rs16961500 rs7244637 rs11081897 chr18_19994963_C_G rs11659315 chr18_20487669_C_G chr18_20514970_C_T chr18_20514970_C_T chr18_20559616_A_G rs8093360 rs8093360 chr18_20575518_C_T chr18_20575518_C_T chr18_20610559_G_T chr18_20610559_G_T chr18_20610559_G_T rs12455345 rs4800466 rs8087483 rs2291993

genotype difference Col_52_IF Col_38_TS Col_52_IF Col_52_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_38_CB Col_45_CB Col_59_TS Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_38_CB Col_52_IF Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_12_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_12_CB Col_38_CB Col_34_CB Col_52_CB Col_33_CB Col_52_CB Col_33_IF Col_16_IF Col_52_IF Col_38_CB Col_12_CB Col_33_IF Col_34_TS Col_12_CB Col_08_TS Col_12_CB Col_33_IF Col_12_IF

RI PT


Marker ID

520

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT TOP TOP BOT BOT TOP TOP BOT TOP BOT TOP BOT TOP BOT MINUS BOT TOP TOP BOT TOP TOP TOP TOP TOP TOP BOT TOP BOT BOT TOP TOP PLUS TOP BOT TOP TOP TOP BOT

[T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [T/G] [T/C] [A/G] [T/C] [T/G] [T/C] [T/C] [C/G] [C/G] [C/G] [C/G] [A/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/C] [T/G] [A/G] [T/G] [I/D] [T/A] [A/T] [A/G] [T/C] [A/G] [A/T] [A/T] [A/G] [A/C] [A/G] [T/A] [A/G] [T/C] [T/C] [A/G] [A/G] [D/I] [C/G] [T/C] [A/C] [A/C] [A/G] [T/G]

18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18

21055092 21175186 21409064 21568367 21591022 21619931 21736933 21771938 22076977 22272798 22443542 22671321 22781212 22842153 22890221 22931210 22936541 22936541 22936541 22936541 23001714 23073799 23089710 23186275 23211723 23408770 23437126 23512962 23512962 23513338 23715122 23854692 23890921 23914109 23920314 23944165 23961942 23971806 23994685 24016157 24032032 24043930 24098592 24098592 24111941 24129866 24209150 24219661 24239901 24240203 24249004 24281470 24281470 24297198 24301991 24336421 24357037 24357336 24367442 24393213

SC

M AN U TE D

AC C

EP

chr18_21055092_A_C rs1617407 rs8099763 rs6508073 chr18_21591022_C_T rs4800173 rs1049683 chr18_21771938_C_T rs17187632 rs6508321 chr18_22443542_A_G rs6508347 rs4284720 rs8091632 chr18_22890221_C_T chr18_22931210_A_G chr18_22936541_C_G chr18_22936541_C_G chr18_22936541_C_G chr18_22936541_C_G rs4129498 rs8093156 rs7239453 rs273743 rs1579854 rs1941232 rs12457240 chr18_23512962_A_G chr18_23512962_A_G rs12959876 chr18_23715122_A_G rs17224558 chr18_23890921_G_T chr18_23914109_G_T rs1471420 rs6508439 rs68131917 chr18_23971806_A_T chr18_23994685_A_T rs10221434 chr18_24032032_A_G chr18_24043930_C_T chr18_24098592_A_T chr18_24098592_A_T chr18_24111941_A_G chr18_24129866_A_C chr18_24209150_A_G rs4800751 chr18_24239901_C_T chr18_24240203_A_G chr18_24249004_A_G chr18_24281470_C_T chr18_24281470_C_T chr18_24297198_G_INDEL chr18_24301991_C_G corect_rs111463102 rs628426 chr18_24357336_G_T chr18_24367442_C_T chr18_24393213_A_C

genotype difference Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_12_CB Col_12_CB Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_12_IF Col_12_CB Col_33_CB Col_33_IF Col_38_IF Col_52_IF Col_12_IF Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_08_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_12_CB Col_33_IF Col_12_CB Col_16_TS Col_38_CB Col_33_IF Col_52_IF Col_12_CB Col_33_CB Col_12_TS Col_52_CB Col_33_IF Col_38_IF Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_08_TS

RI PT


Marker ID

521

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP TOP MINUS BOT TOP TOP TOP MINUS TOP BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT TOP TOP BOT TOP TOP BOT BOT TOP PLUS BOT PLUS BOT BOT TOP TOP PLUS TOP BOT BOT MINUS MINUS TOP BOT BOT BOT BOT TOP BOT BOT TOP

[T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [I/D] [T/C] [A/G] [A/G] [A/C] [D/I] [A/G] [T/C] [T/G] [T/C] [C/G] [A/G] [A/C] [A/C] [A/G] [T/G] [G/C] [G/C] [G/C] [A/G] [T/C] [A/T] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/G] [A/G] [D/I] [T/G] [D/I] [T/C] [G/C] [A/C] [A/G] [I/D] [A/G] [T/C] [G/C] [I/D] [I/D] [A/G] [T/C] [T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [A/G]

18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18

24430032 24431939 24445433 24476681 24494344 24514714 24515156 24515693 24516214 24522017 24528635 24531290 24539782 24540957 24546824 24549813 24583738 24591561 24593903 24593903 24596766 24619870 24621271 24621271 24621271 24621693 24626830 24635610 24649160 24649760 24653248 24656647 24659649 24674011 24722839 24757446 24757543 24761768 24767401 24769890 24816005 24827069 24854631 24879908 24934367 24935264 24944318 24956881 24958103 24973512 24973512 24973816 24989927 25028078 25028078 25028078 25041120 25043161 25060564 25170196

SC

M AN U

TE D

chr18_24430032_A_C chr18_24431939_C_T chr18_24445433_C_T chr18_24476681_A_G rs11659941 rs163056 rs35985655 kgp16060245 rs10502480 chr18_24522017_A_G rs335928 chr18_24531290_C_INDEL rs12326646 chr18_24540957_C_T chr18_24546824_G_T chr18_24549813_C_T chr18_24583738_C_G chr18_24591561_C_T chr18_24593903_A_C chr18_24593903_A_C chr18_24596766_A_G chr18_24619870_G_T chr18_24621271_C_G chr18_24621271_C_G chr18_24621271_C_G chr18_24621693_A_G chr18_24626830_A_G chr18_24635610_A_T chr18_24649160_A_G chr18_24649760_C_T rs8089687 chr18_24656647_C_T chr18_24659649_A_G chr18_24674011_A_G kgp16125596 chr18_24757446_A_G chr18_24757543_G_T chr18_24761768_C_T rs5823539 rs62082948 chr18_24816005_AAGT_INDEL chr18_24827069_A_G chr18_24854631_C_G chr18_24879908_A_C chr18_24934367_C_T rs71911756 chr18_24944318_C_T chr18_24956881_A_G chr18_24958103_C_G rs72009310 rs72009310 chr18_24973816_C_T chr18_24989927_C_T chr18_25028078_C_T chr18_25028078_C_T chr18_25028078_C_T chr18_25041120_G_T chr18_25043161_C_T chr18_25060564_A_G rs8086623

genotype difference Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_12_TS Col_12_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_12_IF Col_33_IF Col_12_CB Col_52_TS Col_12_CB Col_38_CB Col_59_CB Col_38_TS Col_33_IF Col_08_IF Col_52_IF Col_12_CB Col_16_TS Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_33_TS Col_33_IF Col_33_IF Col_59_TS Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_38_CB Col_33_IF Col_33_IF Col_16_IF Col_38_CB Col_08_CB Col_16_TS Col_59_TS Col_16_TS Col_33_IF Col_33_IF Col_38_IF Col_52_CB Col_52_IF Col_33_IF Col_33_IF Col_38_CB

RI PT


Marker ID

522

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP MINUS BOT BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT BOT TOP BOT TOP TOP TOP BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP

[A/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [I/D] [T/A] [T/A] [A/G] [A/T] [A/G] [T/G] [T/C] [A/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [A/C] [T/G] [A/C] [A/C] [A/C] [T/C] [A/G] [T/C] [G/C] [T/C] [T/C] [A/C] [A/G] [A/G] [T/C] [A/G]

18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18

25228828 25316814 25342045 25363418 25415046 25417994 25474972 25476721 25507049 25534039 25557873 25569982 25590998 25590998 25599702 25633295 25712607 25763595 25978719 26036103 26250678 26264471 26355900 26394014 26394014 26394014 26394014 26426397 26426397 26481132 26577980 26620819 26719357 26766578 26766578 26831452 26926036 26953823 26953823 26959640 26959640 26976294 27004672 27160780 27269693 27375719 27377441 27472608 27472608 27535568 27580903 27587686 27610765 27676662 27778530 27892495 27916753 27920184 27967522 27982200

SC

M AN U

TE D

rs1420943 rs2851758 chr18_25342045_A_G chr18_25363418_C_T chr18_25415046_A_G chr18_25417994_A_G rs9953771 rs17445231 rs12709794 chr18_25534039_A_G rs6508522 chr18_25569982_AAAT_INDEL rs1220145 rs1220145 rs673008 rs17446127 rs8094439 rs7243852 rs9304522 rs12172856 rs4800887 rs12961161 rs356817 chr18_26394014_C_T chr18_26394014_C_T chr18_26394014_C_T chr18_26394014_C_T rs1996530 rs1996530 rs1850662 rs12964156 rs10775524 rs12605558 chr18_26766578_C_T chr18_26766578_C_T chr18_26831452_A_G chr18_26926036_A_G rs8090568 rs8090568 rs12458578 rs12458578 rs16946751 rs72906966 rs4482379 chr18_27269693_A_C rs12953539 rs9630799 rs16947291 rs16947291 rs9952962 rs7244533 rs8093868 chr18_27610765_C_G rs1997021 rs2949546 rs12958250 rs9953358 rs4273123 rs7239823 rs3098919

genotype difference Col_33_IF Col_12_CB Col_38_IF Col_33_IF Col_52_TS Col_12_IF Col_33_CB Col_38_TS Col_12_CB Col_08_CB Col_33_CB Col_33_IF Col_08_IF Col_52_CB Col_33_IF Col_52_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_16_CB Col_33_IF Col_34_TS Col_38_IF Col_52_TS Col_12_IF Col_33_IF Col_12_CB Col_33_IF Col_12_IF Col_33_IF Col_52_CB Col_52_CB Col_52_IF Col_16_TS Col_38_CB Col_52_IF Col_59_TS Col_12_CB Col_52_IF Col_33_TS Col_33_CB Col_33_CB Col_33_IF Col_16_IF Col_12_IF Col_16_IF Col_52_IF Col_38_CB Col_34_CB Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_12_CB

RI PT


Marker ID

523

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP BOT MINUS BOT TOP PLUS TOP BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT TOP TOP BOT BOT TOP BOT TOP TOP TOP BOT BOT TOP BOT TOP TOP BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP

[T/C] [A/C] [A/G] [A/G] [T/C] [D/I] [T/C] [A/G] [D/I] [A/G] [T/G] [A/G] [A/G] [A/G] [T/C] [T/G] [A/T] [A/G] [T/C] [T/C] [T/A] [T/C] [T/A] [A/C] [T/C] [T/C] [T/C] [A/C] [G/C] [A/G] [A/G] [G/C] [T/C] [A/G] [T/C] [A/G] [A/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/C] [A/T] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/C] [C/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G]

18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18

28035423 28123910 28143222 28143222 28146756 28188832 28283411 28440835 28574514 28576013 28584556 28586964 28593652 28593652 28597270 28602768 28604622 28610506 28616334 28616334 28639825 28673894 28674402 28704318 28721587 28741491 28787976 28792625 28833528 28891634 28891634 28908178 28921346 28927507 28942517 28959835 28963838 28977482 28978691 28982011 28982682 28989674 29000403 29001191 29011968 29027401 29030957 29030957 29033481 29033481 29098473 29111502 29130484 29140167 29170013 29242292 29246861 29246861 29254436 29272472

SC

M AN U TE D

AC C

EP

rs17744448 rs9958568 rs2847408 rs2847408 chr18_28146756_C_T rs67154842 rs1970694 chr18_28440835_A_G rs5823774 rs1967113 rs1602895 rs1313586 rs17656537 rs17656537 rs11874824 rs1313595 chr18_28604622_A_T rs17799201 rs79701431 rs79701431 rs78665413 rs1790689 rs1789064 rs62087336 rs72924570 rs9948830 rs10853410 rs75054666 rs2912320 rs35464390 rs35464390 rs74368609 rs17715828 rs4239366 rs75134366 rs62095161 rs76456310 rs72929918 rs12956534 rs72929922 rs73953139 rs1020839 rs75207582 rs3911654 rs11873153 rs1824476 rs59351433 rs59351433 rs3911656 rs3911656 rs72938891 rs74699553 rs79013065 rs62095230 rs1667246 rs1667271 rs72924804 rs72924804 rs78936375 rs34844920

genotype difference Col_33_IF Col_33_IF Col_16_IF Col_38_IF Col_33_IF Col_12_IF Col_12_CB Col_38_TS Col_12_CB Col_38_TS Col_33_IF Col_33_IF Col_16_TS Col_52_IF Col_33_IF Col_34_IF Col_33_IF Col_33_IF Col_52_CB Col_12_IF Col_34_CB Col_52_IF Col_52_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_CB Col_12_IF Col_33_IF Col_33_CB Col_33_IF Col_16_TS Col_33_IF Col_59_TS Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF

RI PT


Marker ID

524

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT TOP TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT BOT BOT PLUS TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP

[T/G] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/A] [T/C] [A/C] [T/C] [C/G] [C/G] [A/G] [A/C] [G/C] [T/G] [G/C] [T/C] [T/C] [T/G] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/C] [A/C] [A/G] [A/G] [T/G] [A/C] [A/C] [T/A] [T/C] [T/G] [I/D] [A/G] [A/G] [A/G] [A/G] [A/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/G] [A/G]

18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18

29278629 29286894 29295832 29353087 29378538 29407246 29413405 29426868 29429662 29440461 29450527 29503159 29503159 29625206 29653177 29670548 29694929 29726951 29770880 29771464 29778090 29779205 29822603 29970576 29973272 29973272 29973272 30009613 30016917 30028088 30028088 30057781 30086695 30142389 30149847 30161361 30175418 30188782 30190385 30198529 30223808 30261361 30280390 30285748 30322270 30334036 30334761 30340360 30355515 30368043 30399763 30408515 30426021 30432536 30456508 30456508 30456675 30536908 30541291 30591626

SC

M AN U TE D

AC C

EP

rs1615331 rs78282459 rs1972988 rs79867919 rs669020 rs1074636 rs12959996 rs682279 rs78689148 rs10048319 rs77278243 rs4799608 rs4799608 rs2006768 rs78732579 rs77336940 rs12606789 rs1816141 rs60487427 rs9960741 rs16962801 rs1561816 chr18_29822603_A_C rs10502595 rs34379307 rs34379307 rs34379307 rs75865450 rs17744022 rs1350552 rs1350552 rs16963404 rs80246694 rs9959828 rs330295 rs330305 rs16963587 rs77709725 rs330310 rs330327 rs1849027 chr18_30261361_A_T rs34785199 rs7234525 rs34677845 rs11660243 rs1916650 rs12606529 rs11663493 rs16963853 rs10502610 rs75719296 rs12962333 rs9964658 rs78654403 rs78654403 rs76683498 chr18_30536908_C_T rs80257460 rs4500823

genotype difference Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_34_CB Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_52_TS Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_38_TS Col_33_IF Col_52_IF Col_12_IF Col_33_IF Col_33_IF Col_08_TS Col_52_CB Col_12_CB Col_33_IF Col_16_IF Col_38_CB Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_45_TS Col_12_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_12_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_16_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_TS Col_33_IF Col_12_CB Col_33_IF

RI PT


Marker ID

525

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP BOT TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT

[T/C] [T/C] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [G/C] [A/G] [A/G] [A/G] [T/C] [A/C] [A/C] [A/C] [T/C] [A/C] [A/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/T] [A/T] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/G] [T/G] [T/C] [T/C] [T/C] [A/C] [A/G] [T/C]

18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18

30618156 30618156 30621913 30623618 30631169 30750735 30753548 30832603 30837781 30853125 30855039 30855039 30864574 30904052 30904235 30946012 30969588 30991717 30991717 31014496 31016235 31038076 31038076 31042995 31051882 31056676 31057960 31061204 31118588 31118588 31248997 31275505 31312106 31327634 31348402 31388438 31454144 31538596 31655157 31671602 31671602 31698866 31847800 31865823 32000277 32107383 32456354 32574540 32645854 32693303 32693303 32830887 32893891 32893891 32917644 32917644 32917644 32986600 33323857 33396298

SC

M AN U TE D

AC C

EP

rs7235822 rs7235822 rs9945822 rs78772045 rs79615822 rs17740157 rs17740186 rs72951028 rs11874327 rs72951098 chr18_30855039_A_G chr18_30855039_A_G rs76168577 rs72948872 rs78359779 rs7238593 rs12606658 rs2061359 rs2061359 rs62090578 rs72949726 rs13381898 rs13381898 rs6507043 rs1457880 rs1457859 corect_rs117502805 rs78620210 rs74477595 rs74477595 rs17666165 rs2032188 rs10432168 rs4799717 chr18_31348402_A_G rs9958421 rs989488 rs1026258 rs11878100 rs12185438 rs12185438 chr18_31698866_C_T chr18_31847800_C_T chr18_31865823_A_G rs1573408 rs2510192 chr18_32456354_C_T rs7236052 rs552228 chr18_32693303_A_G chr18_32693303_A_G rs12454748 rs79018777 rs79018777 rs2032729 rs2032729 rs2032729 rs1362858 rs8097906 rs1004599

genotype difference Col_38_CB Col_59_TS Col_52_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_52_IF Col_38_IF Col_52_CB Col_16_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_CB Col_34_CB Col_33_IF Col_38_IF Col_52_IF Col_52_CB Col_33_IF Col_33_CB Col_33_IF Col_34_TS Col_52_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_52_IF Col_33_CB Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_34_CB Col_33_IF Col_38_TS Col_52_IF Col_34_TS Col_33_CB Col_52_CB

RI PT


Marker ID

526

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT TOP BOT TOP BOT TOP BOT TOP MINUS MINUS MINUS BOT TOP BOT TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT TOP

[T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/T] [A/G] [A/G] [A/G] [A/G] [T/C] [T/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [I/D] [I/D] [I/D] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [T/C] [T/C] [A/G] [A/T] [A/T] [A/C] [A/C] [A/G] [T/C] [A/G] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G]

18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18

33396298 33419946 33419946 33419946 33555236 33678972 34127234 34597374 34803070 34849242 34911354 35004805 35423372 35765665 35810545 35884944 35964021 36037878 36105957 36125658 36135135 36193147 36286462 36644979 36688734 36878934 36946848 37239078 37418577 37418577 37418577 37439582 37561257 37745535 37856296 37994457 38000148 38111350 38146461 38346383 38346383 38434090 38478646 38540450 38593162 38748144 38787845 38898346 38898346 39025320 39025320 39309189 39406224 39459056 39468269 39561617 39568444 39568940 39568940 39671432

SC

M AN U TE D

AC C

EP

rs1004599 rs8089981 rs8089981 rs8089981 rs1540042 rs12968309 rs3947413 kgp1920997 chr18_34803070_A_G rs1662910 chr18_34911354_A_T rs16968931 rs11082025 chr18_35765665_A_G chr18_35810545_A_G chr18_35884944_C_T chr18_35964021_G_T rs16970257 rs12965155 rs1025206 chr18_36135135_A_G rs12961706 kgp4284395 chr18_36644979_C_T rs4800080 rs4800089 rs1367840 rs1550716 rs36066554 rs36066554 rs36066554 rs8098549 rs9949981 rs11082170 rs7231440 chr18_37994457_C_T rs1433843 rs12457183 rs6507362 rs1346703 rs1346703 rs16973788 chr18_38478646_A_G chr18_38540450_A_C rs6507387 chr18_38748144_C_T rs1539825 chr18_38898346_A_T chr18_38898346_A_T rs2848785 rs2848785 rs6650667 rs3898586 rs11663241 rs16975402 rs73950824 rs524793 chr18_39568940_A_G chr18_39568940_A_G rs12960971

genotype difference Col_12_CB Col_38_TS Col_52_CB Col_12_TS Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_52_TS Col_33_IF Col_38_CB Col_38_CB Col_33_IF Col_12_CB Col_52_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_12_IF Col_52_IF Col_38_TS Col_33_IF Col_33_IF Col_16_IF Col_33_CB Col_38_IF Col_12_CB Col_52_IF Col_52_IF Col_33_CB Col_12_IF Col_12_CB Col_52_IF Col_12_CB Col_33_CB Col_52_CB Col_33_IF Col_38_IF Col_38_CB Col_33_IF Col_33_IF Col_52_IF Col_33_TS Col_38_CB Col_52_IF Col_12_IF Col_16_IF Col_12_CB Col_12_CB Col_33_IF Col_52_CB Col_52_IF Col_33_IF Col_12_CB Col_33_IF

RI PT


Marker ID

527

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT TOP BOT TOP TOP BOT TOP BOT TOP BOT TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT TOP BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT TOP

[A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/C] [T/C] [A/C] [T/C] [A/G] [T/C] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [T/G] [T/C] [T/C] [T/G] [T/C] [A/C] [T/C] [T/C] [T/C] [A/G] [T/G] [A/G] [T/C] [A/G] [A/G] [T/G] [T/G] [A/G] [A/G] [A/G] [T/G] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/G] [A/G] [T/C] [G/C] [A/G]

18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18

39860037 39864795 39880422 39898977 39925896 39993389 40023782 40067840 40076316 40105465 40140404 40147671 40414944 40472579 40475051 40554394 40612642 40655271 40698162 40771509 40807110 40912548 40985522 41081332 41124567 41147697 41168311 41214219 41223417 41286846 41358699 41373380 41515043 41515043 41636565 41670126 41769943 41769943 41769943 41777170 41777170 41814969 41843945 41899050 41899726 41981849 42181731 42206171 42206171 42206171 42206171 42334291 42593794 42689347 42760370 42781883 43038800 43043582 43215961 43226751

SC

M AN U TE D

AC C

EP

rs12956046 rs11082268 chr18_39880422_C_T rs977557 rs415805 rs346269 rs12606301 chr18_40067840_G_T rs1431843 chr18_40105465_G_T rs4350654 rs7239883 rs8096856 chr18_40472579_C_T rs487908 chr18_40554394_C_T rs8096982 rs12185369 chr18_40698162_C_T rs9948741 chr18_40807110_C_T chr18_40912548_A_G rs485169 rs2622781 chr18_41124567_A_C rs7240204 rs4393648 rs12455868 rs2165258 chr18_41286846_G_T rs4145182 rs966235 chr18_41515043_A_G chr18_41515043_A_G corect_rs147437889 rs7239387 chr18_41769943_A_G chr18_41769943_A_G chr18_41769943_A_G rs9956949 rs9956949 rs2849203 rs1456610 rs4260136 kgp4458361 kgp7833538 rs2852781 corect_rs140476571 corect_rs140476571 corect_rs140476571 corect_rs140476571 chr18_42334291_A_G rs11082420 rs1893485 chr18_42760370_A_G rs17740231 rs10502863 rs2612569 rs34514416 rs1552325

genotype difference Col_45_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_52_IF Col_33_IF Col_52_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_38_CB Col_12_CB Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_12_CB Col_08_IF Col_38_CB Col_33_IF Col_33_IF Col_16_IF Col_38_CB Col_59_TS Col_52_TS Col_08_TS Col_16_TS Col_33_IF Col_08_IF Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_33_CB Col_34_CB Col_52_CB Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_12_TS Col_12_CB Col_12_CB Col_12_CB

RI PT


Marker ID

528

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP BOT TOP TOP TOP TOP BOT TOP BOT TOP TOP BOT BOT BOT TOP BOT TOP MINUS TOP TOP TOP BOT TOP TOP BOT BOT TOP TOP BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP

[T/G] [A/G] [A/G] [T/C] [A/G] [A/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/C] [A/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [D/I] [A/C] [A/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/C] [A/C] [A/G] [A/G] [T/C] [A/G] [A/G]

18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18

43269125 43296748 43309911 43318255 43351849 43554371 43597430 43935614 44135050 44307719 44806776 44851748 44851748 45042572 45042572 45059274 45631492 45692893 45841919 46000343 46047254 46067750 46109074 46141721 46166369 46198872 46202078 46216413 46219707 46241017 46264268 46265446 46284840 46285113 46337861 46361441 46371993 46377302 46377302 46377302 46391160 46406593 46463136 46478266 46509446 46557119 46622183 46660709 46669830 46679899 46784633 46784633 46806239 46812428 46812428 46844062 46844062 46861612 46875933 46902576

SC

M AN U TE D

AC C

EP

rs4890575 rs7227823 rs17674580 rs11877720 rs4337384 chr18_43554371_G_T rs4890615 chr18_43935614_C_T rs732109 rs9952976 chr18_44806776_A_G chr18_44851748_A_C chr18_44851748_A_C chr18_45042572_A_G chr18_45042572_A_G chr18_45059274_C_T rs12326262 rs8092444 rs949200 chr18_46000344_G_INDEL rs3899276 rs8093379 rs17829490 rs11875657 rs71355351 rs299740 rs11663682 rs8091345 rs6507861 rs11662494 rs7238161 rs59784013 rs4556859 rs72911686 rs12959910 rs1000031 rs4939821 rs17766313 rs17766313 rs17766313 rs72915673 rs75803126 rs2878889 rs9954132 rs9957562 rs10853574 rs28470838 rs78877886 rs76289040 rs1838962 rs2276200 rs2276200 rs76854258 rs79086219 rs79086219 rs4567803 rs4567803 rs9635952 rs72912525 rs76856822

genotype difference Col_12_CB Col_12_CB Col_12_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_CB Col_08_TS Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_12_IF Col_33_IF Col_12_CB Col_33_TS Col_12_CB Col_52_CB Col_33_CB Col_08_TS Col_12_CB Col_12_CB Col_52_IF Col_12_CB Col_38_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_52_CB Col_12_CB Col_12_CB Col_12_TS Col_12_CB Col_33_CB Col_38_IF Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_52_CB Col_45_IF Col_12_CB Col_38_TS Col_52_IF Col_33_IF Col_12_CB Col_16_IF Col_59_TS Col_33_IF Col_33_CB Col_52_IF Col_33_CB Col_52_IF Col_33_IF Col_33_IF Col_52_CB

RI PT


Marker ID

529

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT TOP BOT TOP TOP BOT BOT BOT TOP BOT BOT TOP TOP BOT BOT TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP BOT TOP BOT BOT TOP TOP BOT BOT TOP TOP BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT

[T/C] [A/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/G] [T/G] [A/G] [T/G] [T/G] [A/C] [A/C] [T/A] [T/A] [A/C] [A/C] [T/C] [T/C] [A/C] [A/G] [T/C] [T/G] [T/G] [T/G] [T/C] [T/C] [A/G] [T/G] [A/C] [A/G] [A/C] [A/C] [T/C] [A/C] [T/C] [T/C] [A/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C]

18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18

47169319 47257605 47272034 47280085 47403637 47650193 47678905 47711963 47904366 48107986 48111941 48208490 48291329 48326378 48334741 48743479 48743479 48845671 48912549 49028038 49028038 49043594 49062306 49131693 49179005 49179005 49193913 49325699 49325699 49339576 49354561 49736429 49770823 49830422 49830422 49847408 49960237 50079024 50095123 50181192 50215412 50224198 50238954 50283577 50285398 50379032 50400404 50436363 50436661 50445568 50548544 50569863 50669725 50864668 51247503 51286504 51298328 51413325 51413325 51584229

SC

M AN U TE D

AC C

EP

rs7504590 rs6507947 rs8088451 rs1943980 rs630665 rs1705533 rs1511150 rs2469480 rs1031019 chr18_48107986_G_T rs1370480 rs9947271 rs11877439 rs2586778 rs12455429 chr18_48743479_A_T chr18_48743479_A_T rs17664645 chr18_48912549_A_C chr18_49028038_C_T chr18_49028038_C_T rs4940089 chr18_49062306_C_T chr18_49131693_A_G rs1903683 rs1903683 rs1699889 rs1094478 rs1094478 chr18_49339576_A_G rs10502934 rs10460043 rs1445093 chr18_49830422_G_T chr18_49830422_G_T rs8099038 rs10153390 rs1144076 rs921730 rs1460191 rs1460196 rs7226526 rs2054289 chr18_50283577_A_G chr18_50285398_C_T rs4384683 chr18_50400404_A_G chr18_50436363_G_T rs1541287 chr18_50445568_C_T rs9950125 chr18_50569863_A_G rs8089828 rs1367634 rs1822215 rs12605442 rs8091046 rs8087269 rs8087269 rs1381257

genotype difference Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_12_TS Col_12_CB Col_33_IF Col_52_IF Col_12_CB Col_34_TS Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_34_IF Col_45_TS Col_33_IF Col_52_CB Col_52_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_45_TS Col_12_CB Col_33_IF Col_52_CB Col_33_CB Col_12_CB Col_38_CB Col_52_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_52_CB Col_45_IF Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_38_IF Col_52_IF Col_16_TS Col_38_TS Col_33_IF Col_52_CB Col_08_TS Col_52_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_52_IF Col_12_CB

RI PT


Marker ID

530

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP BOT TOP BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP BOT TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT TOP BOT TOP BOT BOT TOP TOP TOP BOT BOT TOP

[A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/A] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/G] [A/G] [A/G] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/G] [T/C] [T/G] [A/G] [T/A] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G]

18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18

51692689 51698312 51698312 51708514 51797948 51807260 51880889 51880889 51882319 52035834 52044425 52044425 52226097 52405913 52530018 52557782 52570345 52758295 52856568 52903085 53085412 53164693 53193424 53242807 53314984 53335057 53437659 53505016 53561919 53568736 53594836 53594836 53692616 53755311 53899387 54011876 54042206 54123365 54225633 54424875 54658824 54725272 54799495 54879553 54922829 55155870 55233347 55243164 55268486 55360092 55399268 55411917 55430742 55430742 55531247 55608446 55608446 55662542 55806329 55808797

SC

M AN U TE D

AC C

EP

chr18_51692689_C_T rs479852 rs479852 chr18_51708514_A_G chr18_51797948_A_G chr18_51807260_A_G chr18_51880889_A_G chr18_51880889_A_G chr18_51882319_A_C chr18_52035834_C_T rs16960608 rs16960608 chr18_52226097_A_G rs78218754 rs4801103 chr18_52557782_C_T rs1944362 rs12961347 rs8096688 rs1261070 rs2958163 chr18_53164693_C_T rs9949107 chr18_53242807_A_T chr18_53314984_A_G rs675637 chr18_53437659_A_G rs7242862 rs1857917 chr18_53568736_A_G rs784397 rs784397 rs1017253 rs17090058 chr18_53899387_A_G rs10513889 rs1031676 rs421544 rs6566822 rs2430893 rs1657421 rs2027702 rs6566862 chr18_54879553_A_G rs1009081 rs608823 chr18_55233347_G_T rs7242089 rs11356 rs319449 rs66955564 rs4941027 rs2063301 rs2063301 rs4374255 rs9955134 rs9955134 rs12968095 rs572794 rs4940647

genotype difference Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_52_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_45_TS Col_12_CB Col_52_IF Col_33_IF Col_12_IF Col_59_TS Col_52_IF Col_12_CB Col_33_IF Col_52_CB Col_45_TS Col_16_TS Col_12_CB Col_33_TS Col_33_CB Col_12_CB Col_52_CB Col_12_CB Col_38_CB Col_12_CB Col_52_IF Col_12_TS Col_52_IF Col_33_IF Col_12_CB Col_12_CB Col_38_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_16_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_52_CB Col_33_CB Col_16_TS Col_33_IF

RI PT


Marker ID

531

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT TOP TOP BOT TOP BOT BOT TOP BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT PLUS BOT BOT TOP BOT TOP TOP TOP TOP BOT

[T/G] [T/G] [T/G] [T/G] [T/G] [T/C] [T/G] [T/G] [T/C] [T/C] [T/C] [T/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/G] [T/C] [A/C] [A/C] [T/G] [A/G] [T/G] [A/G] [A/G] [T/C] [A/G] [T/A] [T/A] [A/G] [T/C] [A/G] [T/G] [A/G] [A/G] [A/C] [T/C] [T/G] [T/G] [T/C] [T/C] [T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [I/D] [T/C] [T/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C]

18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18

55823239 56109859 56115825 56434312 56445257 56466533 56489137 56539571 56650944 56681369 56740175 56744666 56768799 56774313 56789998 56809578 56817091 56852972 56902831 56954004 57021549 57212391 57309059 57404135 57480790 57488788 57575246 57645433 57675858 57718708 57718708 57757978 57878155 58028057 58177124 58229503 58229503 58283202 58367281 58384704 58384704 58494221 58589127 58589127 58830410 58831543 58955502 59029394 59029394 59057117 59129957 59164232 59350507 59594659 59713102 59834369 59847435 59922190 59947118 60042817

SC

M AN U TE D

AC C

EP

rs17833599 rs8099014 rs9319929 chr18_56434312_A_C rs11663212 rs9946290 chr18_56489137_A_C chr18_56539571_G_T rs7231764 rs4349256 rs721355 rs12327532 rs11152120 rs9319941 rs4940448 rs1517029 rs4940845 chr18_56852972_A_G rs7232345 rs9973070 rs7243056 rs1944983 rs1864309 chr18_57404135_C_T rs76595235 rs11660733 rs6567130 rs7227333 rs1573397 rs1942900 rs1942900 rs11662368 chr18_57878155_A_G rs1943222 rs585187 rs522786 rs522786 rs7229783 rs17067351 chr18_58384704_G_T chr18_58384704_G_T rs1378489 rs1497965 rs1497965 rs154916 rs154915 rs17068119 chr18_59029394_A_G chr18_59029394_A_G rs76942243 chr18_59129957_AG_INDEL chr18_59164232_A_G rs12458009 rs12965546 exm1389920 rs17062583 rs4940548 rs978572 rs2980981 rs4426449

genotype difference Col_12_CB Col_38_TS Col_33_IF Col_52_CB Col_59_CB Col_12_CB Col_12_CB Col_52_CB Col_33_IF Col_38_TS Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_45_IF Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_38_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_38_TS Col_52_CB Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_52_IF Col_59_TS Col_33_IF Col_12_CB Col_38_CB Col_59_TS Col_12_CB Col_08_TS Col_52_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_52_CB Col_33_CB Col_33_IF Col_33_CB Col_16_IF Col_12_CB Col_33_IF Col_52_CB Col_33_CB Col_33_IF Col_12_CB Col_12_CB

RI PT


Marker ID

532

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP BOT TOP TOP MINUS MINUS BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP

[T/C] [A/G] [A/C] [T/C] [A/C] [T/C] [A/G] [T/C] [T/G] [T/C] [T/C] [T/A] [T/A] [T/A] [A/G] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/C] [T/G] [A/G] [A/G] [D/I] [D/I] [T/C] [A/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/G] [T/C] [A/G] [A/C] [A/G] [A/G] [T/C] [T/G] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/T] [T/C] [T/C] [A/G]

18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18

60276850 60525392 60526902 60533816 60661358 60689228 60788559 60795074 60840608 60880562 60911085 60919330 60919330 60919330 61128438 61188306 61212092 61246975 61375683 61386375 61471593 61512366 61770073 61906262 62080115 62147141 62170058 62211906 62229526 62283676 62382358 62382358 62390880 62535703 62586625 62630036 62630036 62817889 62821954 62821954 62833162 62910061 62928901 62982906 62998775 63000384 63047875 63067654 63118165 63304952 63381739 63401819 63495418 63514137 63521856 63546551 63551080 63594912 63646693 63675290

SC

M AN U TE D

AC C

EP

rs8084602 rs692916 rs645525 rs7234377 rs7238945 chr18_60689228_A_G rs8086644 chr18_60795074_C_T rs6567326 rs7243091 chr18_60911085_A_G rs9807663 rs9807663 rs9807663 rs9320017 rs9966889 rs12963168 rs11665483 rs6567383 rs11659265 rs11873045 rs1243062 rs1400571 rs12454706 chr18_62080115_A_G rs7228639 rs7233409 rs8083616 rs11872310 chr18_62283676_A_G chr18_62382358_C_INDEL chr18_62382358_C_INDEL rs9947473 rs9319689 chr18_62586625_A_G rs10164157 rs10164157 rs1183856 rs1035208 rs1035208 rs9951854 rs10503096 rs601664 rs470753 rs8083346 rs585878 rs11662309 rs653197 rs532980 chr18_63304952_A_G chr18_63381739_G_T rs1942283 chr18_63495418_A_G chr18_63514137_A_G chr18_63521856_C_T chr18_63546551_A_G chr18_63551080_A_T rs2541810 rs9957267 rs2706571

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_59_TS Col_33_IF Col_12_CB Col_38_TS Col_33_IF Col_33_IF Col_34_TS Col_52_CB Col_52_IF Col_12_CB Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_12_IF Col_12_CB Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_52_IF Col_33_IF Col_33_IF Col_38_IF Col_52_IF Col_12_CB Col_16_TS Col_33_IF Col_34_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_52_IF Col_12_IF Col_33_IF

RI PT


Marker ID

533

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP TOP BOT BOT TOP BOT BOT TOP BOT TOP BOT TOP BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT TOP BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP TOP BOT BOT TOP

[A/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [T/G] [A/G] [T/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [A/G] [T/C] [T/C] [T/G] [T/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/A] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [T/G] [A/G] [A/G] [T/C] [T/G] [A/G]

18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18

63689939 63716832 63929245 63929245 64046229 64046229 64095485 64195739 64195739 64202638 64433748 64469573 64544318 64613299 64786144 64820011 64898380 64942995 65007212 65010462 65010462 65033678 65033678 65053195 65197580 65248521 65248521 65257867 65303621 65404933 65483999 65490959 65494529 65669704 65690189 65690189 65828694 65864794 65878099 65950029 66004354 66050161 66136653 66160464 66255377 66277526 66367292 66469255 66481273 66529830 66529830 66541652 66608825 66641182 66791632 66895282 67110334 67131631 67182665 67358864

SC

M AN U TE D

AC C

EP

rs2706586 rs17075694 rs12605064 rs12605064 chr18_64046229_A_G chr18_64046229_A_G rs4544336 chr18_64195739_C_T chr18_64195739_C_T rs576250 rs17813753 rs8087047 rs4891585 rs12956772 rs12955425 rs8087540 chr18_64898380_A_C rs6566266 rs8083254 rs8082785 rs8082785 rs9951011 rs9951011 chr18_65053195_A_G rs1383399 rs402573 rs402573 rs7228261 rs7237695 rs7241812 rs524502 rs8088294 rs17078113 rs12454312 rs13381434 rs13381434 chr18_65828694_A_G rs1272531 chr18_65878099_C_T rs17078836 rs17078922 chr18_66050161_A_T rs8088137 rs9951478 chr18_66255377_A_G rs2941394 rs17079579 rs986182 rs2169697 chr18_66529830_C_T chr18_66529830_C_T rs948638 rs12968514 rs17080007 rs11151484 rs1626874 rs11875042 rs9967032 rs17081109 chr18_67358864_A_G

genotype difference Col_33_IF Col_33_IF Col_33_CB Col_38_TS Col_38_CB Col_59_TS Col_12_CB Col_16_TS Col_38_IF Col_52_CB Col_33_IF Col_38_CB Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_38_CB Col_52_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_38_IF Col_52_TS Col_33_IF Col_52_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_52_IF Col_33_CB Col_38_IF Col_38_IF Col_33_IF Col_33_IF Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_52_TS Col_33_IF Col_33_IF Col_34_TS Col_16_TS Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_16_IF Col_52_IF Col_12_IF Col_33_IF Col_33_CB

RI PT


Marker ID

534

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP TOP TOP TOP TOP BOT TOP BOT TOP BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT TOP BOT BOT TOP TOP

[A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/G] [T/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/C] [A/C] [T/C] [A/G] [A/G] [A/G] [A/C] [A/G] [T/C] [A/C] [A/C] [A/G] [T/C] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [A/C] [T/G] [A/G] [T/C] [T/A] [T/C] [A/G] [T/C] [T/C] [A/C] [A/C]

18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18

67358864 67359360 67493884 67524973 67550412 67821935 67854788 67962798 67967279 68035701 68096748 68107719 68206661 68206661 68345288 68345288 68350124 68497445 68711011 68743757 68750255 68802203 68852562 68873558 68873558 68925031 68990387 69136191 69229915 69251713 69297624 69297624 69363893 69394352 69396486 69397817 69445056 69489748 69498653 69509110 69666229 69739777 69785537 69785537 69799750 69799750 69891501 69891501 69923306 69978074 69986743 70165505 70171910 70174169 70228346 70302321 70343719 70346320 70372800 70372800

SC

M AN U TE D

AC C

EP

chr18_67358864_A_G rs17200441 rs10513979 chr18_67524973_C_T rs2051323 rs4891817 corect_rs150676782 rs41451548 rs2053420 chr18_68035701_C_T rs17082621 rs10513984 chr18_68206661_A_G chr18_68206661_A_G rs12604533 rs12604533 rs7242380 rs4243325 rs1981366 rs17180317 chr18_68750255_C_T chr18_68802203_A_G chr18_68852562_A_G rs8085116 rs8085116 rs11151648 rs11151657 rs1378146 rs8087519 rs17084724 rs6566546 rs6566546 chr18_69363893_G_T chr18_69394352_A_G rs1505743 rs8090024 rs10164220 rs2221480 rs12458007 rs2685454 chr18_69666229_A_G chr18_69739777_A_G rs9957750 rs9957750 chr18_69799750_C_T chr18_69799750_C_T rs8087441 rs8087441 chr18_69923306_A_C corect_rs191095827 rs7231416 rs10514048 rs11660328 chr18_70174169_A_T chr18_70228346_C_T rs4892018 rs8095250 rs8090940 rs9948999 rs9948999

genotype difference Col_38_TS Col_33_CB Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_12_CB Col_33_IF Col_08_CB Col_45_TS Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_38_IF Col_08_IF Col_33_IF Col_59_CB Col_12_CB Col_12_CB Col_16_TS Col_38_TS Col_33_IF Col_08_CB Col_52_IF Col_12_CB Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_IF Col_33_IF Col_34_TS Col_59_TS Col_12_IF Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_CB Col_52_IF

RI PT


Marker ID

535

IlmnStrand

SNP

Chr

MapInfo

MINUS TOP BOT TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT TOP

[I/D] [A/G] [T/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/C] [A/G] [A/G] [T/C] [T/C] [A/C] [A/C] [T/C] [T/G] [T/C] [T/C] [T/C] [T/G] [T/C] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/G] [T/G] [T/C] [A/G] [A/C] [T/C] [A/T] [T/C] [T/C] [T/C] [T/C] [A/G] [C/G] [T/C] [A/G] [T/C] [T/A] [A/G]

18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18

70420242 70453456 70472285 70485447 70488219 70568789 70744164 70885017 70981472 70981472 71018589 71024750 71044198 71082402 71082402 71159126 71159126 71198937 71236465 71239581 71244692 71263278 71308889 71316442 71341156 71344330 71362823 71473888 71539757 71539757 71702113 71835940 71927586 71927586 72073738 72122611 72130431 72210190 72210190 72258127 72281289 72456755 72498748 72498748 72717675 72943863 73047092 73056278 73080059 73089860 73139008 73174302 73259067 73621886 73737851 73838971 73898925 73991529 74233107 74303903

SC

M AN U TE D

AC C

EP

chr18_70420243_A_INDEL rs8099007 rs8086952 chr18_70485447_A_G rs6566658 rs1942454 chr18_70744164_A_G rs9319864 rs9966816 rs9966816 rs948897 rs4552100 rs2226859 rs1893503 rs1893503 rs1942734 rs1942734 rs9944985 rs12958280 rs10514074 chr18_71244692_G_T chr18_71263278_C_T rs17088031 rs11664362 rs7227996 rs13381974 rs12954862 rs9963265 chr18_71539757_C_T chr18_71539757_C_T rs4892176 chr18_71835940_C_T rs1788625 rs1788625 chr18_72073738_C_T chr18_72122611_A_G rs9965729 rs12964208 rs12964208 rs10871736 rs28455052 chr18_72456755_A_G rs11150941 rs11150941 chr18_72717675_A_G rs6566062 chr18_73047092_G_T rs1025601 rs72971842 rs7407139 rs4622605 chr18_73174302_C_T chr18_73259067_C_T rs898491 rs359763 rs10514202 chr18_73898925_C_T rs8097336 rs7236698 chr18_74303903_A_G

genotype difference Col_33_CB Col_08_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_08_TS Col_52_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_12_CB Col_12_CB Col_33_IF Col_45_TS Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_12_IF Col_33_IF Col_52_TS Col_16_TS Col_38_CB Col_33_IF Col_12_IF Col_33_IF Col_52_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_TS Col_34_CB Col_52_CB Col_45_TS Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_12_TS Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_34_IF Col_33_IF

RI PT


Marker ID

536

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP BOT BOT BOT TOP BOT TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT

[T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/C] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [C/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/C] [A/G] [A/G] [T/G] [T/C] [T/G] [T/C] [A/G] [T/C] [A/G] [T/C] [C/G] [T/G] [A/G] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C]

18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 18 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19

74378617 74439542 74453939 74453939 74497209 74641654 74699134 74769271 74879392 75097094 75144538 75144538 75226684 75379824 75391470 75423261 75512158 75578926 75603323 75636727 75653523 75872492 75926254 75993884 76242139 76410533 76437601 76478032 76505150 76530066 76586071 76707478 76734830 76747412 76773973 76970916 76970916 77017662 77122830 77340427 77458037 77730807 77794810 77854379 77915383 618159 789890 1114119 1328428 1852078 2249477 2812690 3179884 4268511 4396858 4947056 5455989 6427015 6427015 6622352

SC

M AN U TE D

AC C

EP

rs11876497 rs4328531 chr18_74453939_C_T chr18_74453939_C_T rs12607401 chr18_74641654_A_G chr18_74699134_C_T chr18_74769271_G_T rs948881 rs7244908 rs12960489 rs12960489 rs4890947 rs72986593 chr18_75391470_A_G rs1698915 rs4890850 rs12955505 rs2407044 rs12456577 rs11661856 rs12956033 rs2898713 chr18_75993884_A_G rs2608790 rs2016252 rs2941805 chr18_76478032_A_G chr18_76505150_C_T chr18_76530066_C_T rs6506858 chr18_76707478_C_T chr18_76734830_C_G rs497785 rs7241993 chr18_76970916_C_T chr18_76970916_C_T rs9955862 chr18_77122830_G_T rs614569 rs2242174 rs1134231 rs12964779 rs4799131 rs1132560 rs11672829 rs351967 rs3746162 chr19_1328428_C_T rs11880925 rs10407022 chr19_2812690_C_T rs3746072 rs11667006 chr19_4396858_A_G rs12974635 rs8104246 chr19_6427015_C_T chr19_6427015_C_T rs400658

genotype difference Col_12_CB Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_38_IF Col_12_CB Col_08_TS Col_33_CB Col_33_IF Col_52_IF Col_33_IF Col_52_CB Col_52_CB Col_12_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_34_IF Col_12_CB Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_TS Col_33_CB Col_33_IF Col_33_CB Col_33_TS Col_33_IF Col_12_CB Col_12_CB Col_12_IF Col_33_CB Col_12_CB Col_38_IF Col_38_TS Col_16_IF Col_12_CB Col_08_TS Col_33_CB Col_16_TS Col_33_CB Col_33_IF Col_33_CB Col_38_TS Col_52_TS Col_33_IF

RI PT


Marker ID

537

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT TOP BOT PLUS PLUS BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT PLUS BOT BOT TOP BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP MINUS

[T/C] [G/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/G] [A/G] [T/G] [A/C] [A/G] [T/C] [A/G] [T/C] [D/I] [D/I] [T/C] [T/C] [A/C] [A/G] [A/G] [T/G] [T/C] [C/G] [T/G] [T/G] [I/D] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/G] [T/G] [A/G] [A/G] [I/D]

19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19

6622352 6966465 7068207 7082484 7082484 9083944 9437812 9642268 9666647 9666647 9873546 10356432 10633984 10663165 11374675 11733097 12287433 12287433 12483407 12486228 12527851 13629889 13803170 14337898 14418788 14742924 15240815 15384698 15606228 15678179 15859712 15983971 16023735 16121513 16121513 16600823 16600823 16725215 16875226 16982829 17003789 17312992 17403414 17435851 17652396 17769417 17797826 17861636 17878851 17999239 18148593 18193613 18271576 18294574 18527257 18550434 18550434 18597196 18691942 19109241

SC

M AN U

TE D

rs400658 chr19_6966465_C_G rs2914572 rs7251143 rs7251143 exm1421944 rs6512047 chr19_9642268_A_G rs8109844 rs8109844 chr19_9873546_C_T rs12462481 rs10407947 rs7255312 rs416231 chr19_11733097_C_T chr19_12287433_C_T chr19_12287433_C_T chr19_12483407_A_G rs6511789 rs7257082 rs8102695 rs7258177 rs9677023 rs12609693 rs9305046 rs4808217 rs16980448 rs10407904 rs1273519 rs10518253 rs2886297 kgp2804590 chr19_16121513_INDEL_TTACTC chr19_16121513_INDEL_TTACTC rs12982931 rs12982931 chr19_16725215_A_C rs2446151 rs75780234 rs773901 rs2305765 c19_pos17264414 chr19_17435851_G_T rs7251306 chr19_17769418_INDEL_T chr19_17797826_A_G chr19_17861636_C_T rs4808686 rs45602038 rs429390 rs439409 rs11670635 chr19_18294574_A_G rs7257932 rs2385089 rs2385089 rs60570301 rs2314664 chr19_19109242_INDEL_T

genotype difference Col_38_CB Col_12_CB Col_33_IF Col_33_IF Col_34_CB Col_38_TS Col_33_IF Col_33_IF Col_08_TS Col_16_TS Col_33_CB Col_33_IF Col_38_IF Col_12_CB Col_33_IF Col_33_CB Col_38_IF Col_12_CB Col_33_IF Col_33_CB Col_33_CB Col_33_IF Col_33_CB Col_12_IF Col_08_TS Col_52_TS Col_12_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_TS Col_45_TS Col_33_IF Col_34_TS Col_12_CB Col_33_CB Col_33_IF Col_12_CB Col_12_CB Col_52_IF Col_52_TS Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_45_IF Col_45_IF Col_33_IF Col_33_CB Col_33_CB Col_38_IF Col_16_TS Col_33_IF Col_33_CB

RI PT


Marker ID

538

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT TOP BOT TOP BOT TOP TOP BOT TOP BOT TOP BOT TOP TOP BOT TOP TOP BOT TOP BOT TOP BOT TOP TOP BOT BOT BOT TOP

[C/G] [T/C] [A/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [G/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/C] [A/G] [T/C] [A/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/C] [T/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/C] [T/C] [A/G] [A/G] [T/C] [T/G] [T/G] [A/G]

19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19

19417145 19578450 19602873 19619542 19714804 19714804 19715794 19787767 19830928 19839801 19842053 19863014 20009817 20091702 20470564 20505103 20657781 20682055 21123919 21157697 21206463 21474389 21835313 21884636 21884636 22001761 22075780 22272743 22502724 22772647 22835939 22974503 23089596 23124745 23829737 24069166 24275883 27759740 28403552 28451369 28616007 28651614 28701186 28927856 28948389 29008941 29103301 29228056 29350597 29391897 29573687 29847088 30095911 30185697 30197155 30241241 30303352 30466303 30466303 30516720

SC

M AN U TE D

AC C

EP

chr19_19417145_C_G chr19_19578450_A_G chr19_19602873_G_T chr19_19619542_A_G chr19_19714804_C_T chr19_19714804_C_T rs739461 chr19_19787767_A_G chr19_19830928_C_T chr19_19839801_C_G rs247778 rs247789 rs2110589 rs2009723 rs12462067 chr19_20505103_A_C rs8106213 rs2021399 rs12162258 rs10426340 rs11085423 rs8112775 rs8103138 rs74506867 rs74506867 chr19_22001761_C_T rs11672223 rs9304994 chr19_22502724_C_T chr19_22772647_C_T rs4346315 rs7252224 rs1824794 rs390911 rs12609670 rs4932736 chr19_24275883_C_T kgp752197 rs811029 rs2190801 rs6510517 chr19_28651614_A_C rs2607217 chr19_28927856_C_T rs7246810 rs12150955 rs2192630 rs10406794 rs759636 rs7251859 rs6509228 rs79152084 rs16963085 rs8101689 rs3746314 chr19_30241241_A_G chr19_30303352_C_T rs1118924 rs1118924 rs1601050

genotype difference Col_52_TS Col_33_IF Col_33_CB Col_12_CB Col_38_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_TS Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_38_CB Col_33_IF Col_38_IF Col_34_TS Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_16_TS Col_12_IF Col_52_TS Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_33_TS Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_52_IF Col_16_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_33_CB Col_52_CB Col_33_IF

RI PT


Marker ID

539

IlmnStrand

SNP

Chr

MapInfo

BOT PLUS PLUS PLUS TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP BOT BOT TOP BOT TOP BOT TOP TOP BOT BOT BOT TOP TOP BOT MINUS TOP BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT

[T/C] [D/I] [D/I] [D/I] [A/C] [A/T] [A/G] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/C] [A/C] [T/C] [T/G] [T/G] [A/G] [A/G] [T/C] [D/I] [A/G] [T/C] [T/C] [A/G] [T/G] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [T/G] [T/G]

19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19

30908586 31015675 31015675 31015675 31710915 32589702 32594869 33033222 33048358 33099289 33170701 33250690 33289463 33322907 33333155 33430664 33489039 33495231 33520073 33533698 33609441 33612000 33626009 33628438 33651233 33749562 33749562 33749562 33749562 33789010 33805470 33824946 33848777 33850767 33903668 33914570 34022842 34022842 34145361 34911223 34911223 35002775 35085872 35138256 35250691 35844745 36007330 36019115 36825458 36902219 37221835 37512117 37534339 37534339 37534339 37534339 37686953 37717357 38043260 38043260

SC

M AN U TE D

AC C

EP

rs2195948 chr19_31015675_INDEL_TC chr19_31015675_INDEL_TC chr19_31015675_INDEL_TC chr19_31710915_A_C chr19_32589702_A_T rs3816053 rs16967224 rs16967248 rs76427814 rs76469138 rs12610342 rs4805811 rs73035385 rs2287881 rs78375921 rs11665739 rs71351705 rs6510330 rs2112420 rs4805852 rs75547787 rs66943234 rs10402746 rs3909410 rs74629046 rs74629046 rs74629046 rs74629046 rs2081045 rs7249112 rs4081724 rs16967984 rs73028280 rs12974468 rs17760904 rs2081964 rs2081964 rs6510392 chr19_34911223_G_T chr19_34911223_G_T rs10408252 rs1564200 rs11671675 chr19_35250691_AG_INDEL corect_rs186934616 chr19_36007330_C_T chr19_36019115_C_T chr19_36825458_C_T rs17206379 rs3108582 chr19_37512117_A_C rs7246473 rs7246473 rs7246473 rs7246473 rs10411176 rs1234256 rs4803228 rs4803228

genotype difference Col_33_IF Col_16_IF Col_33_IF Col_59_TS Col_59_TS Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_16_TS Col_33_CB Col_33_IF Col_12_CB Col_45_IF Col_33_IF Col_33_IF Col_33_CB Col_33_TS Col_33_IF Col_33_IF Col_52_CB Col_38_TS Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_45_IF Col_52_CB Col_12_CB Col_33_IF Col_52_CB Col_16_TS Col_38_TS Col_52_CB Col_12_TS Col_33_IF Col_38_IF Col_52_TS Col_33_IF Col_08_TS Col_33_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_08_CB Col_16_TS Col_34_IF Col_38_IF Col_33_IF Col_38_IF Col_16_TS Col_33_IF

RI PT


Marker ID

540

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP BOT TOP BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP BOT TOP BOT TOP BOT BOT TOP BOT BOT TOP TOP TOP BOT MINUS BOT BOT BOT BOT TOP BOT MINUS BOT BOT

[A/G] [A/T] [A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [T/A] [A/C] [T/G] [A/G] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [A/T] [A/T] [C/G] [A/G] [T/C] [A/G] [T/C] [A/C] [T/A] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/C] [A/G] [A/G] [T/C] [I/D] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [I/D] [T/C] [T/G]

19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19

38066760 38208092 38229824 38257313 38257364 38297041 38447110 38578183 38688457 38694050 38735480 38914576 38945402 38987793 39605882 39915650 40257116 40263966 40271066 40634006 40636400 41058802 41245742 41354458 41372475 41502522 41523303 41546196 41612241 41960711 42037185 42042331 42042331 42065449 42066556 42103552 42233840 42353436 42405236 42710239 44058239 44344722 44377834 44381286 44392100 44395489 44400668 44421937 45530552 46560693 47182597 47273268 47555734 47569003 47985220 48092907 48336188 48735017 48751808 48783302

SC

M AN U TE D

AC C

EP

chr19_38066760_A_G chr19_38208092_A_T chr19_38229824_C_T chr19_38257313_C_T chr19_38257364_A_G chr19_38297041_A_G chr19_38447110_G_T chr19_38578183_A_G chr19_38688457_C_T chr19_38694050_C_T chr19_38735480_A_G c19_pos43606416 chr19_38945402_A_G c19_pos43679633 rs692364 rs36038883 rs3810389 rs10412191 chr19_40271066_C_T rs71356897 rs10420328 rs4332846 rs2290693 rs28399442 rs7247903 rs8101756 kgp10606989 rs11881146 rs78260438 chr19_41960711_C_T chr19_42037185_A_C chr19_42042331_A_T chr19_42042331_A_T chr19_42065449_C_G chr19_42066556_A_G chr19_42103552_A_G chr19_42233840_A_G chr19_42353436_C_T chr19_42405236_G_T chr19_42710239_A_T rs3213356 chr19_44344722_C_T chr19_44377834_A_G chr19_44381286_A_G chr19_44392100_C_T chr19_44395489_A_G chr19_44400668_G_T rs378109 chr19_45530552_A_G rs16959242 chr19_47182598_A_INDEL chr19_47273268_A_G chr19_47555734_A_G chr19_47569003_A_G rs17271418 chr19_48092907_A_G rs11083899 chr19_48735017_INDEL_TT rs10405717 rs1504519

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_CB Col_38_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_52_CB Col_52_TS Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_38_TS

RI PT


Marker ID

541

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP BOT PLUS TOP PLUS TOP TOP TOP BOT TOP BOT MINUS TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT TOP BOT BOT TOP BOT BOT BOT PLUS PLUS BOT TOP TOP TOP BOT BOT BOT BOT TOP BOT BOT TOP TOP PLUS TOP MINUS TOP TOP BOT BOT

[A/G] [T/C] [D/I] [A/G] [D/I] [A/G] [A/C] [A/G] [G/C] [A/G] [T/C] [I/D] [A/G] [T/C] [A/G] [A/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/C] [T/C] [T/C] [A/G] [G/C] [T/C] [T/G] [I/D] [I/D] [T/G] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [D/I] [A/C] [I/D] [A/G] [A/G] [T/G] [T/G]

19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19

49823047 49878115 50914214 51015869 51196332 51209949 51281225 51295195 51323473 51357920 51369074 51432746 51566268 51762218 52018540 52267703 52349499 52349499 52386723 52396541 52433467 52532576 52620269 52670905 52825032 52825032 52941171 52941171 53189572 53411448 53474389 53591921 53791613 53801482 53841698 53854501 53992143 54149225 54392678 54392678 54452015 54469051 54491089 54491089 54497287 54499570 54525413 54544851 54549548 54549586 54573806 54590836 54682975 54698196 54789266 54799692 54814558 54814558 54857568 54857568

SC

M AN U

TE D

rs10414921 rs1054770 chr19_50914214_CT_INDEL chr19_51015869_C_T chr19_51196332_INDEL_TCCGTGGAAACC rs10414691 chr19_51281225_G_T chr19_51295195_A_G chr19_51323473_C_G chr19_51357920_A_G chr19_51369074_A_G chr19_51432754_GGCA_INDEL chr19_51566268_C_T chr19_51762218_C_T chr19_52018540_C_T rs17694990 rs10153456 rs10153456 rs16983200 rs892039 rs13343310 rs7255485 chr19_52620269_A_G rs7246914 chr19_52825032_C_T chr19_52825032_C_T rs1428180 rs1428180 rs899218 rs7256400 rs10164358 chr19_53591921_G_T chr19_53791613_C_T rs12461082 rs2017084 exm1501415 rs2617671 chr19_54149225_A_C chr19_54392679_INDEL_T chr19_54392688_INDEL_T chr19_54452015_G_T chr19_54469051_G_T chr19_54491089_C_T chr19_54491089_C_T chr19_54497287_C_T chr19_54499570_C_T chr19_54525413_C_T chr19_54544851_A_G rs11669716 chr19_54549586_C_T chr19_54573806_A_G rs654765 chr19_54682975_C_T chr19_54698196_GGA_INDEL rs8100863 chr19_54799692_A_INDEL chr19_54814558_C_T chr19_54814558_C_T chr19_54857568_A_C chr19_54857568_A_C

genotype difference Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_52_TS Col_33_CB Col_12_CB Col_12_CB Col_12_CB Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_52_TS Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_16_IF Col_08_TS Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_33_TS Col_33_CB Col_33_IF Col_08_IF Col_16_TS Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_16_TS Col_33_CB Col_59_IF Col_52_IF Col_16_TS Col_38_TS Col_38_TS Col_45_TS

RI PT


Marker ID

542

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP BOT BOT TOP BOT TOP PLUS TOP TOP BOT BOT BOT PLUS TOP TOP BOT BOT BOT TOP TOP TOP TOP BOT TOP BOT TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT TOP TOP BOT TOP TOP TOP BOT TOP TOP BOT BOT TOP BOT TOP TOP BOT TOP TOP TOP BOT TOP TOP TOP

[T/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [I/D] [A/G] [A/G] [T/C] [T/G] [T/C] [D/I] [A/C] [A/C] [T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/C] [T/G] [A/C] [T/C] [T/C] [T/C] [A/G] [A/C] [A/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/G] [T/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/C] [T/C] [A/C] [A/C] [A/C]

19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20

54857568 54862026 54876909 54910516 54919859 55017438 55035973 55059049 55123343 55208800 55227731 56123766 56350247 56426548 56789355 56898853 56955343 57189718 57189718 57388895 57606561 57608596 57663794 58196864 58518534 58576358 58808709 63244 100699 101362 296374 300482 531174 531978 772614 787341 800648 847355 854754 1130033 1180222 1243153 1296811 1336654 1347968 1886624 2040813 2040813 2187430 2205138 2299329 2299329 2647040 3128951 3346954 3495935 3551133 3587698 3587698 3587698

SC

M AN U TE D

AC C

EP

chr19_54857568_A_C chr19_54862026_A_G chr19_54876909_C_T rs7260632 chr19_54919859_C_T chr19_55017438_A_G chr19_55035973_C_T chr19_55059049_A_G chr19_55123353_INDEL_T rs1812827 corect_rs116973532 chr19_56123766_A_G rs385349 chr19_56426548_C_T chr19_56789355_C_INDEL rs7250471 corect_rs150381605 chr19_57189718_C_T chr19_57189718_C_T chr19_57388895_A_C rs6510040 rs7257831 rs7245501 chr19_58196864_C_T rs9304811 rs11673436 rs931258 rs6139074 rs6116236 chr20_101362_A_G rs6049015 chr20_300482_A_G rs157438 rs188205 rs6085922 rs2180465 chr20_800648_C_T rs1556170 rs944109 rs6077915 rs6078117 chr20_1243153_A_G rs6033417 rs6131399 rs6041734 chr20_1886624_A_G chr20_2040813_A_C chr20_2040813_A_C rs6075795 rs6082442 rs214817 rs214817 rs6132905 chr20_3128951_A_G rs2092991 rs237405 rs397647 rs661377 rs661377 rs661377

genotype difference Col_12_CB Col_33_IF Col_34_CB Col_33_CB Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_33_CB Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_52_CB Col_33_IF Col_08_TS Col_33_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_38_TS Col_12_CB Col_12_IF Col_38_TS Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_16_TS Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_16_IF Col_33_TS Col_12_IF

RI PT


Marker ID

543

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP BOT TOP TOP TOP MINUS BOT BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT BOT MINUS TOP TOP BOT BOT BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT

[T/C] [T/C] [A/G] [T/G] [A/G] [A/C] [A/G] [I/D] [T/C] [T/C] [T/C] [T/C] [A/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [I/D] [A/G] [A/G] [T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/C] [A/C] [A/G] [A/G] [A/G] [T/C] [A/C] [A/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [T/C] [T/C] [T/C]

20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20

3707715 3938757 4045339 4060198 4068793 4183819 4373054 4445548 4449931 4516796 4611746 4648538 5022052 5039253 5301501 5326616 5340447 5355703 5378864 5378864 5380875 5412777 5466940 5675623 5756281 5785074 5904040 5908128 5917086 5918258 5935522 5949534 5986234 6081526 6081526 6096632 6126103 6127448 6127448 6143379 6186488 6206897 6293023 6314987 6314987 6318583 6321944 6328844 6329093 6334683 6345709 6360748 6362730 6362730 6364637 6377334 6377629 6383821 6388068 6399494

SC

M AN U TE D

AC C

EP

rs6052038 chr20_3938757_C_T chr20_4045339_C_T rs58113252 chr20_4068793_A_G rs1217369 rs4813692 chr20_4445548_AA_INDEL rs6133123 rs8123671 rs11698242 rs2025115 rs371581 chr20_5039253_C_T rs6053306 rs6085118 rs6085130 rs1159562 rs10485487 rs10485487 chr20_5380876_A_INDEL rs2180578 rs910700 chr20_5675623_C_T rs4813773 rs413596 rs742711 rs73596142 rs73085167 rs236167 rs77839128 rs4815879 rs6139887 rs6038356 rs6038356 rs1056141 rs77030646 rs2260752 rs2260752 rs3844457 rs6053974 rs2748550 rs6085477 rs6038431 rs6038431 rs6038439 rs2876017 rs6038443 rs6038445 rs8118802 rs6085518 rs6139974 rs959278 rs959278 rs2025837 rs384409 rs12625146 rs11700029 rs355527 rs2876032

genotype difference Col_12_CB Col_33_IF Col_08_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_IF Col_12_CB Col_12_CB Col_38_TS Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_38_CB Col_59_TS Col_33_CB Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_16_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_45_IF Col_38_CB Col_59_TS Col_16_IF Col_12_CB Col_33_IF Col_59_TS Col_33_IF Col_34_TS Col_33_CB Col_12_CB Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_12_CB Col_38_CB Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

544

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP

[A/C] [A/C] [A/C] [A/C] [T/C] [T/G] [T/G] [T/G] [T/C] [T/C] [T/G] [A/G] [T/C] [A/G] [A/C] [A/C] [A/C] [T/C] [T/C] [A/C] [T/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/G] [T/C] [T/C] [A/C] [A/C] [T/C] [A/C] [T/G] [T/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/C] [A/G] [A/G]

20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20

6400688 6400688 6400688 6400688 6404117 6404281 6404281 6404281 6406610 6406610 6425165 6470265 6476906 6484674 6488806 6488806 6488806 6501199 6538049 6540290 6553531 6569802 6571034 6571034 6585670 6638798 6650682 6662436 6670381 6693879 6739398 6743306 6760431 6771073 6771431 6781861 6781861 6782025 6791301 6803897 6816151 6818722 6827364 6884809 6894899 6914617 6929637 6929637 6936978 6952829 6967818 6967818 6968506 6990833 6993629 6993629 6993629 7012107 7023522 7029823

SC

M AN U TE D

AC C

EP

rs62198491 rs62198491 rs62198491 rs62198491 rs4292146 exm-rs961253 rs961253 rs961253 rs62198539 rs62198539 rs74754695 rs928202 rs35886097 rs6077016 rs1411297 rs1411297 rs1411297 rs6117316 rs6077027 rs1407029 rs6085606 rs62198792 rs17796182 rs17796182 rs77475271 rs6107855 rs6140058 rs6085648 rs6054459 rs990928 rs235712 rs74973356 rs170986 rs6054516 rs73086965 rs73086980 rs73086980 rs76537270 rs170983 rs75637135 rs6117462 rs76670209 rs8119635 rs79546676 rs35666953 rs6140124 rs75248345 rs75248345 rs66466249 rs6077115 rs4416292 rs4416292 rs2209988 rs2149639 rs6038683 rs6038683 rs6038683 rs56022760 rs75619726 rs2026056

genotype difference Col_33_IF Col_38_CB Col_45_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_TS Col_34_TS Col_38_IF Col_59_TS Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_TS Col_16_TS Col_12_CB Col_33_CB Col_12_IF Col_38_TS Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_52_CB Col_12_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_12_IF Col_38_CB Col_52_CB Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_34_TS Col_33_IF Col_12_IF Col_16_IF

RI PT


Marker ID

545

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT TOP TOP BOT TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT BOT TOP BOT TOP BOT TOP TOP TOP TOP BOT BOT BOT

[A/G] [T/C] [T/C] [A/G] [A/C] [A/G] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [A/C] [A/G] [T/C] [T/C] [T/G] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/C] [T/C] [A/G] [T/C] [T/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/G] [T/C] [A/G] [T/C] [T/C] [T/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/G] [T/G]

20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20

7029823 7035282 7035282 7053379 7062061 7096163 7129819 7129819 7145825 7295118 7316834 7317250 7317250 7320168 7320168 7349731 7389067 7491494 7500529 7502797 7513447 7516000 7519612 7521396 7530600 7533180 7539048 7544167 7592424 7608851 7648350 7663063 7666258 7704428 7704428 7711820 7720630 7740976 7753728 7754311 7756302 7758402 7777673 7777673 7786656 7795073 7797349 7802284 7802284 7812350 7819447 7828382 7830533 7831980 7836981 7838478 7840662 7842830 7850371 7850371

SC

M AN U TE D

AC C

EP


genotype difference Col_12_IF Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_16_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_45_IF Col_12_CB Col_16_TS Col_12_CB Col_33_IF Col_33_IF Col_33_TS Col_12_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_12_IF Col_52_IF Col_33_IF Col_12_CB Col_08_TS Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_12_IF Col_33_IF Col_16_TS Col_16_IF Col_16_IF Col_59_TS Col_52_TS Col_34_IF Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_52_IF Col_12_CB Col_34_CB Col_12_IF

RI PT


Marker ID

546

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT TOP BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT PLUS BOT TOP MINUS TOP BOT TOP TOP

[T/G] [A/C] [T/G] [T/C] [T/G] [T/G] [T/C] [T/C] [T/G] [T/G] [T/G] [A/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [A/C] [T/C] [A/G] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/A] [T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [D/I] [T/C] [A/G] [D/I] [A/C] [T/C] [A/G] [A/G]

20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20

7851422 7877295 7877416 7883163 7923049 7923049 7924672 7924672 7939576 7939576 7939576 7953919 7955302 8007491 8010364 8025971 8042423 8045840 8063473 8084526 8118531 8124682 8130943 8138483 8180078 8181001 8205124 8225148 8225148 8227989 8259176 8261432 8267576 8279734 8298480 8298953 8298953 8308556 8342948 8410722 8454206 8508498 8589727 8605552 8707927 8754983 8974362 9069657 9096563 9126762 9174693 9174693 9333024 9352971 9368288 9460219 9519467 9559277 9562922 9646834

SC

M AN U

TE D

rs6117972 rs74683908 rs1569454 rs2205821 rs17424349 rs17424349 rs73895456 rs73895456 rs2876109 rs2876109 rs2876109 rs989804 rs6055430 rs6055475 chr20_8010364_C_T rs59825185 rs6039021 rs73895507 rs16994407 rs2207317 rs6140549 rs74798078 rs16994453 rs1033398 rs2423354 rs58536373 rs2876128 rs6039107 rs6039107 rs73084336 rs35224005 rs6140584 rs2745764 rs17431067 rs6086403 chr20_8298953_A_G chr20_8298953_A_G rs59430770 chr20_8342948_A_G rs771945 rs2294552 chr20_8508498_A_G chr20_8589727_A_T rs956522 rs1015170 rs2235614 rs6118412 rs4816122 chr20_9096563_A_G rs8122469 rs2876163 rs2876163 chr20_9333024_INDEL_TGACAAGA exm1524862 chr20_9368288_C_T chr20_9460219_G_INDEL rs3185693 chr20_9559277_C_T rs6039512 rs6133735

genotype difference Col_59_TS Col_33_IF Col_12_CB Col_33_IF Col_08_TS Col_33_IF Col_16_TS Col_33_CB Col_16_TS Col_38_TS Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_45_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_16_IF Col_59_TS Col_33_IF Col_33_CB Col_38_CB Col_33_IF Col_12_CB Col_12_IF Col_34_TS Col_12_IF Col_33_CB Col_34_TS Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_16_IF Col_12_CB Col_12_CB Col_38_TS Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_16_TS

RI PT


Marker ID

547

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT PLUS TOP BOT BOT TOP BOT TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP BOT TOP TOP BOT

[A/G] [A/G] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [T/G] [T/G] [T/C] [A/C] [A/G] [T/G] [A/C] [A/C] [T/G] [A/G] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [D/I] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/C] [T/G] [A/G] [A/G] [T/C]

20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20

9646834 9700532 9756258 9760258 9836779 9842719 9842719 9908694 9935686 9974732 9974732 9974732 9976721 10092642 10164632 10335923 10340266 10347418 10366398 10386013 10418801 10641633 10683471 10769074 10903249 10988099 11003605 11046619 11056617 11056617 11143832 11240420 11257091 11270892 11395219 11479234 11572805 11703372 11865731 11879248 12018469 12154048 12214450 12230651 12294968 12294968 12329661 12332448 12580365 12670231 12713069 12790887 12963663 12988524 13058296 13104065 13143562 13184251 13184251 13407243

SC

M AN U TE D

AC C

EP

rs6133735 chr20_9700532_A_G rs6056864 rs6039576 rs12479522 chr20_9842719_C_T chr20_9842719_C_T rs6057027 chr20_9935686_C_T rs8122279 rs8122279 rs8122279 rs1884397 rs6077654 rs17518345 rs6108500 chr20_10340266_G_T rs2327290 rs2327293 rs1545 rs6074138 rs3748479 rs2057053 rs6032951 chr20_10903249_G_T rs6104690 chr20_11003605_G_T rs6104699 rs6040339 rs6040339 chr20_11143832_C_T chr20_11240420_C_T chr20_11257091_C_T rs6134174 chr20_11395219_INDEL_TC rs8123165 rs6078255 rs2423586 rs6033250 rs1232487 rs7268184 chr20_12154048_C_T rs4814068 rs4814077 chr20_12294968_A_G chr20_12294968_A_G rs6041280 rs6074409 chr20_12580365_C_T rs1333384 rs6033504 rs1582033 rs6078856 rs360534 rs6109686 chr20_13104065_A_C rs7264061 rs6131447 rs6131447 chr20_13407243_C_T

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_12_CB Col_33_IF Col_16_CB Col_45_IF Col_12_IF Col_12_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_38_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_38_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_59_TS Col_16_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_12_CB Col_16_TS Col_33_IF Col_33_IF Col_12_CB Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_16_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_12_IF Col_33_IF

RI PT


Marker ID

548

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT TOP BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP PLUS PLUS BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT

[A/G] [A/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/C] [T/C] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/G] [A/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [I/D] [I/D] [T/C] [A/G] [A/C] [A/C] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [T/C] [T/G] [A/C] [A/G] [T/C] [A/G] [A/G] [A/C] [A/C] [T/C] [T/C] [T/C] [T/G] [A/G] [A/G] [A/G] [T/A]

20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20

13520928 13688842 13695464 13695464 13922955 13943861 13950946 14111226 14295645 14364927 14530220 14814090 14926587 15039515 15088585 15088585 15191622 15359412 15359412 15424659 15438901 15509110 15560374 15560486 15583443 15583443 15613738 15710357 15794439 15819495 15864245 15864245 15990705 16022260 16455774 16455774 16486202 16739083 16739083 16752851 16753321 16812739 16828017 16848186 16855603 17017933 17050262 17477865 17490410 17555980 17566854 17723206 17784030 17879866 17992979 18135262 18310171 18390129 18645033 19109546

SC

M AN U TE D

AC C

EP

rs6079095 chr20_13688842_A_C rs6079145 rs6079145 chr20_13922955_C_T rs4052974 rs6079241 rs1969777 rs6033941 rs10485772 rs6074755 rs368380 kgp9735405 rs6079646 rs17357522 rs17357522 rs6079705 rs6043241 rs6043241 rs6043282 chr20_15438901_A_C rs6110655 rs11905928 chr20_15560486_C_T rs11905049 rs11905049 chr20_15613738_C_T rs6079948 rs6131725 chr20_15819495_A_G rs6147303 rs6147303 rs775112 rs6043681 rs932541 rs932541 chr20_16486202_G_T chr20_16739083_C_T chr20_16739083_C_T chr20_16752851_C_T chr20_16753321_C_T rs6034641 rs6034656 chr20_16848186_C_T chr20_16855603_G_T chr20_17017933_A_C rs16998644 rs6136120 rs6080725 rs73258636 rs16999438 chr20_17723206_A_C chr20_17784030_C_T rs6105835 rs3748493 rs6111862 rs2424158 rs6136365 rs4813338 chr20_19109546_A_T

genotype difference Col_38_CB Col_33_CB Col_33_IF Col_52_CB Col_12_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_12_CB Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_38_TS Col_12_CB Col_33_IF Col_12_CB Col_33_IF

RI PT


Marker ID

549

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT TOP TOP BOT TOP TOP TOP BOT TOP BOT TOP BOT BOT BOT BOT TOP BOT BOT BOT TOP TOP TOP TOP BOT TOP TOP BOT BOT TOP BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP PLUS BOT TOP

[T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/G] [T/C] [T/C] [T/C] [T/G] [A/G] [T/C] [T/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/C] [A/C] [G/C] [A/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/C] [T/C] [T/G] [T/C] [A/G] [A/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [I/D] [T/G] [A/C]

20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20

19247594 19297263 19455203 19536127 19816307 19852250 19915251 20033319 20222978 20241544 20940527 21375826 21381121 21703615 21741526 21776735 22154060 22346652 22464949 22820537 23011278 23044147 23044147 23120959 23406519 23625746 23722319 23910276 23941139 24329074 24526724 24752226 24832080 25056697 25301022 25402778 25559881 25983284 26224651 26239964 26285899 29908963 31385814 31514100 31700160 31757737 31819150 32505976 32547699 32551279 32589141 32678043 32715842 32727430 32795026 32819871 32980139 33004686 33213196 33214541

SC

M AN U TE D

AC C

EP

rs6045943 rs979370 rs6046121 rs1555852 chr20_19816307_C_T rs6046393 rs16981330 rs2273058 rs1003356 rs996568 rs7273530 rs6035868 rs1409818 chr20_21703615_A_C rs2424405 rs2208312 rs6047941 rs16983841 rs17753678 rs6036230 rs6082981 rs6113922 rs6113922 rs6036318 chr20_23406519_A_C rs911122 rs6049048 rs1797036 chr20_23941139_C_T rs926607 rs6049775 rs6132764 rs6036932 chr20_25056697_A_C rs2274890 rs4423675 rs13040726 kgp22805023 rs6138833 rs6132939 chr20_26285899_C_T chr20_29908963_C_T rs2424921 chr20_31514100_C_T rs6059082 chr20_31757737_C_T rs71349715 chr20_32505976_A_G chr20_32547699_G_T rs6141435 chr20_32589141_C_T chr20_32678043_A_G chr20_32715842_C_T chr20_32727430_A_G rs6088427 rs6142129 chr20_32980139_A_G chr20_33004687_A_INDEL rs6058093 rs6087609

genotype difference Col_12_CB Col_16_TS Col_16_IF Col_12_IF Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_12_IF Col_52_CB Col_59_TS Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_59_TS Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF

RI PT


Marker ID

550

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP TOP BOT TOP BOT TOP TOP BOT BOT TOP BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP BOT TOP BOT TOP TOP BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT TOP TOP TOP

[A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [A/G] [T/C] [A/C] [A/G] [T/C] [T/C] [A/G] [T/G] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [T/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/C] [A/C] [A/G] [T/C] [A/C] [T/C] [A/C] [A/C] [T/C] [A/G] [A/G] [T/C] [T/A] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/G] [T/C] [A/G] [A/G] [A/G]

20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20

33350987 33370005 33545616 33689308 33706011 33980860 34074831 34994192 35550871 35636323 35945343 36286035 37232009 37852969 38167517 38219781 38296566 38296566 38296566 38428911 38428911 38574690 38574690 38574690 38574690 38735222 38764006 38774289 38797747 38804793 38969291 38979736 39231106 39240946 39476563 39481274 39481274 39496839 39548828 39617032 39936815 40464214 40507392 40646583 40915410 40943696 40952914 41046245 41065554 41096292 41096292 41168798 41182311 41806861 42083862 42237067 42912062 43272637 43312397 43312397

SC

M AN U TE D

AC C

EP

rs4417778 exm1535619 rs17310467 rs6060230 rs6088721 rs1210224 rs224371 rs6072251 rs7268811 rs6093789 chr20_35945343_C_T rs1928630 rs1005611 rs1332883 rs7262018 rs4812402 rs11698956 rs11698956 rs11698956 rs2024907 rs2024907 rs6016200 rs6016200 rs6016200 rs6016200 chr20_38735222_A_G chr20_38764006_A_G rs6028900 chr20_38797747_G_T rs6028938 chr20_38969291_A_G rs6029056 rs6124255 rs6072072 chr20_39476563_A_G rs6129693 rs6129693 rs875627 rs6065285 chr20_39617032_G_T chr20_39936815_C_T rs6029839 chr20_40507392_G_T rs6093553 rs6016737 rs6030128 rs6102774 chr20_41046245_A_T rs6102832 chr20_41096292_C_T chr20_41096292_C_T rs6093673 rs6016824 rs2425614 rs6017075 rs2145214 rs6073394 chr20_43272637_C_T rs912914 rs912914

genotype difference Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_45_TS Col_08_TS Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_16_IF Col_33_IF Col_45_TS Col_33_CB Col_12_CB Col_16_TS Col_45_CB Col_52_TS Col_12_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_38_CB Col_52_TS Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_08_TS Col_16_TS Col_33_CB

RI PT


Marker ID

551

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT TOP TOP BOT BOT TOP TOP BOT TOP BOT TOP TOP TOP BOT BOT TOP BOT TOP TOP BOT TOP BOT BOT TOP TOP TOP TOP TOP BOT PLUS BOT TOP BOT MINUS TOP BOT BOT TOP BOT BOT BOT TOP TOP TOP TOP TOP

[A/G] [T/G] [T/C] [A/G] [T/C] [T/G] [T/C] [T/C] [T/A] [A/G] [T/A] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/G] [A/C] [T/C] [T/C] [A/G] [C/G] [A/G] [A/G] [A/G] [T/G] [I/D] [T/G] [A/G] [T/C] [I/D] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G]

20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20

43312397 43378509 43539123 43555961 43557596 43627313 44059586 44165587 44211104 44220832 44394418 44412463 44547068 44667904 44787478 45131759 45174216 45187808 45483606 45609148 45705792 45707370 45814923 46258577 46616578 46714579 46833715 47092846 47142287 48309807 48325554 48983697 49070716 49099961 49257403 49268051 49369006 49441362 49511907 49703627 49770023 50574627 50607274 50608713 50743818 50800289 50839274 50867313 50963243 51083441 51527183 51570693 51737601 51861958 51875914 51911782 51952522 51971152 51988626 52382784

SC

M AN U TE D

AC C

EP

rs912914 chr20_43378509_G_T chr20_43539123_A_G chr20_43555961_A_G chr20_43557596_C_T chr20_43627313_G_T chr20_44059586_A_G rs6032276 rs3091845 rs6130867 chr20_44394418_A_T rs6032530 rs17447545 rs6017731 chr20_44787478_C_T chr20_45131759_C_T chr20_45174216_C_T kgp19378629 rs3092689 chr20_45609148_C_T rs1206818 chr20_45707370_A_G rs6512433 rs6018600 rs8116086 rs6018912 chr20_46833715_A_C rs6125340 rs6122695 rs4809751 rs6067191 rs6067417 chr20_49070716_C_T rs73131939 rs6096038 chr20_49268051_C_T rs1054185 rs8114995 chr20_49511907_C_G chr20_49703627_A_G chr20_49770023_A_G chr20_50574627_C_T rs12481632 chr20_50608714_INDEL_T rs12481222 chr20_50800289_A_G chr20_50839274_C_T chr20_50867314_INDEL_T rs2904155 rs6096966 chr20_51527183_A_G rs6022182 rs1293427 rs2426474 chr20_51875914_C_T rs8125417 rs200602 rs200631 rs465880 rs6126943

genotype difference Col_38_TS Col_38_IF Col_33_CB Col_33_IF Col_16_TS Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_CB Col_12_CB Col_12_CB Col_12_CB Col_38_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_12_CB Col_33_IF Col_33_IF Col_16_IF Col_12_CB Col_12_IF Col_33_IF Col_33_CB Col_38_IF

RI PT


Marker ID

552

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP BOT BOT MINUS TOP TOP BOT BOT TOP TOP TOP TOP BOT TOP TOP BOT TOP BOT TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP TOP BOT TOP BOT TOP TOP BOT BOT BOT TOP BOT TOP

[T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [I/D] [A/G] [A/G] [T/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/G] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [A/G] [A/C] [T/C] [A/G] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G]

20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20

52450204 52632275 52711324 52756548 52766807 52770054 52770055 52770439 52770439 52790005 52886844 52948117 52973558 53192714 53192714 53268303 53288422 53423066 53444793 53482244 53546488 53612140 53783736 54080512 54080512 54134369 54134369 54196396 54204541 54238237 54255844 54701230 54813533 54845796 55183614 55339620 55410084 55421015 55431571 55474297 55505582 55530787 56063319 56132784 56906582 56956470 57293350 57685723 57743581 57900429 57999598 58089094 58098827 58118612 58164911 58278918 58279849 58839876 58961136 59096532

SC

M AN U TE D

AC C

EP

chr20_52450204_A_G chr20_52632275_A_G rs290404 rs2762924 rs8124792 kgp182705 chr20_52770055_AT_INDEL kgp5754287 kgp5754287 kgp11380220 rs6023083 chr20_52948117_A_G rs793034 chr20_53192714_C_T chr20_53192714_C_T rs6091942 rs6023479 chr20_53423066_C_T chr20_53444793_A_G rs2137224 rs428281 rs6098360 rs1571172 rs2870631 rs2870631 rs6024203 rs6024203 rs13041728 rs945751 rs1361051 rs6123512 chr20_54701230_C_T rs6024725 rs6064362 rs7266311 rs6092361 chr20_55410084_A_G chr20_55421015_A_G rs4811766 chr20_55474297_A_G rs6099356 rs6064475 rs3810541 rs78867175 rs8118305 rs713406 rs12480759 chr20_57685723_A_G chr20_57743581_G_T chr20_57900429_C_T rs16982720 chr20_58089094_G_T chr20_58098827_A_G rs6070841 rs734814 rs2426817 chr20_58279849_A_G rs1381100 rs6015743 rs6100948

genotype difference Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_08_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_52_IF Col_12_CB Col_38_CB Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_16_IF Col_38_CB Col_16_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_12_CB

RI PT


Marker ID

553

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT TOP BOT PLUS TOP BOT TOP TOP TOP BOT TOP BOT BOT MINUS BOT TOP BOT BOT BOT BOT MINUS MINUS BOT BOT MINUS BOT BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT TOP BOT TOP BOT PLUS

[A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [I/D] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [D/I] [T/C] [A/G] [G/C] [T/C] [T/C] [T/C] [D/I] [D/I] [T/C] [T/C] [I/D] [T/C] [T/C] [T/C] [A/C] [A/G] [A/G] [A/C] [T/C] [A/G] [A/G] [A/C] [T/G] [T/G] [T/G] [A/G] [T/G] [A/C] [A/G] [T/C] [A/G] [T/A] [A/G] [T/C] [I/D]

20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 20 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21

59195485 59762217 60114759 60174399 60326201 60550082 60786719 60849854 60849854 60892813 60946237 60949043 61044227 61288370 61332144 61429144 61443716 61470725 61470725 61520957 61544714 61574660 61594493 61854549 61998517 62190631 62294447 62328829 62336258 62343845 62353933 62394039 62394040 62425966 62661052 62789526 14749043 14749043 14844368 15345734 15500426 15500426 15501522 15527617 15536548 15536548 15538304 15548798 15548798 15548798 15551289 15649522 15656052 15663291 15671844 15720558 15827922 15844481 15867560 15875556

SC

M AN U TE D

AC C

EP

rs846209 rs817701 chr20_60114759_C_T chr20_60174399_A_G rs11699916 rs1046137 rs6089691 chr20_60849854_A_G chr20_60849854_A_G exm1555702 rs2427300 rs59553816 rs6061245 kgp27911765 rs71820682 rs6010746 rs41309371 rs4809261 rs4809261 rs41282988 rs6010786 rs2254953 rs3729555 chr20_61854549_C_T rs73611615 exm1559353 rs6062297 rs1291205 rs6062497 rs2315007 chr20_62353933_A_G chr20_62394039_AAC_INDEL chr20_62394040_AC_INDEL chr20_62425966_A_G rs2275292 chr20_62789526_CT_INDEL chr21_14749043_C_T chr21_14749043_C_T kgp4438617 corect_rs117852611 rs8127852 rs8127852 rs2822426 rs9984592 rs12482146 rs12482146 chr21_15538304_G_T rs442882 rs442882 rs442882 chr21_15551289_C_T rs4816274 rs2822548 rs2822554 rs2822558 rs8128871 chr21_15827922_A_T rs2822676 rs1735484 chr21_15875557_A_INDEL

genotype difference Col_12_CB Col_12_CB Col_33_CB Col_38_TS Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_38_TS Col_33_IF Col_33_CB Col_33_IF Col_08_TS Col_08_TS Col_12_CB Col_08_TS Col_33_CB Col_33_IF Col_12_CB Col_12_TS Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_52_TS Col_52_CB Col_12_CB Col_12_CB Col_12_CB Col_38_IF Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_12_CB Col_33_IF Col_33_CB Col_38_TS Col_38_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_CB Col_33_IF Col_52_IF Col_33_IF Col_16_IF Col_38_CB Col_52_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_16_IF Col_52_CB Col_33_IF

RI PT


Marker ID

554

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP PLUS TOP BOT BOT BOT TOP PLUS PLUS TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP BOT

[A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [G/C] [A/G] [T/C] [A/G] [A/G] [A/C] [T/G] [T/C] [A/G] [A/C] [A/G] [A/G] [I/D] [A/G] [G/C] [T/C] [T/C] [A/G] [D/I] [D/I] [A/G] [C/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [G/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/A] [A/G] [T/C] [T/G] [T/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [A/G] [T/C]

21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21

16123230 16124291 16187749 16216345 16298530 16298530 16343676 16343676 16343676 16344187 16377650 16395958 16404438 16432068 16438779 16460664 16464118 16465440 16489857 16496429 16509848 16542908 16543071 16543345 16543510 16543510 16545528 16549469 16549469 16551257 16551421 16552154 16563640 16563640 16629033 16649156 16649156 16655631 16725396 16726906 16752625 16767094 16813212 16841195 16844896 16889055 16946020 16946241 16948722 16948722 16978904 16987121 16987121 16999267 16999267 17004155 17010779 17010779 17066268 17139318

SC

M AN U TE D

AC C

EP

chr21_16123230_C_T chr21_16124291_A_G rs7282147 chr21_16216345_A_G chr21_16298530_C_T chr21_16298530_C_T chr21_16343676_C_T chr21_16343676_C_T chr21_16343676_C_T chr21_16344187_C_G rs7280064 rs78421503 chr21_16404438_A_G chr21_16432068_C_T chr21_16438779_A_C chr21_16460664_G_T rs2823052 chr21_16465440_A_G chr21_16489857_G_T chr21_16496429_C_T chr21_16509848_A_G chr21_16542909_A_INDEL chr21_16543071_C_T chr21_16543345_C_G chr21_16543510_A_G chr21_16543510_A_G rs7279893 rs67515900 rs67515900 chr21_16551257_A_G chr21_16551421_C_G chr21_16552154_A_G chr21_16563640_C_T chr21_16563640_C_T rs2823188 chr21_16649156_C_T chr21_16649156_C_T chr21_16655631_C_T chr21_16725396_C_G chr21_16726906_C_T chr21_16752625_C_T chr21_16767094_A_G rs1736148 rs2823289 chr21_16844896_A_G chr21_16889055_A_T chr21_16946020_C_T chr21_16946241_A_G chr21_16948722_A_C chr21_16948722_A_C chr21_16978904_C_T chr21_16987121_C_T chr21_16987121_C_T chr21_16999267_A_G chr21_16999267_A_G chr21_17004155_G_T chr21_17010779_C_T chr21_17010779_C_T chr21_17066268_A_G chr21_17139318_A_G

genotype difference Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_52_CB Col_12_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_34_CB Col_12_TS Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_52_IF Col_33_IF Col_33_IF Col_52_IF Col_08_TS Col_33_IF Col_33_IF Col_38_CB Col_52_IF Col_33_IF Col_38_TS Col_12_IF Col_12_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_52_CB Col_33_IF Col_52_IF Col_08_TS Col_12_CB Col_33_IF Col_33_CB Col_38_TS Col_33_IF Col_52_TS Col_52_CB Col_16_TS Col_12_IF Col_33_CB Col_38_IF

RI PT


Marker ID

555

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT TOP BOT BOT TOP TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT TOP BOT TOP BOT TOP TOP BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT

[A/G] [G/C] [T/C] [T/A] [T/A] [T/C] [A/G] [A/C] [A/C] [A/C] [T/C] [A/G] [C/G] [A/C] [A/C] [T/C] [A/G] [T/G] [T/C] [A/G] [A/G] [T/C] [A/G] [C/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/G] [T/G] [A/T] [A/G] [A/G] [G/C] [T/C] [A/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [A/C] [T/C] [A/G] [A/C] [T/G] [T/G] [A/G] [A/C] [A/C] [A/C] [A/C] [A/G] [A/G] [A/C] [G/C] [T/G]

21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21

17161083 17220320 17266995 17316112 17316112 17346597 17407300 17439825 17439825 17439825 17441210 17472366 17497141 17640378 17640378 17800512 17807929 17812534 17816981 17844078 17844078 17844262 17847529 17847724 17879962 18088196 18099779 18138050 18235587 18370713 18381801 18383943 18384773 18388348 18557617 18814568 19022628 19044975 19044975 19070558 19241597 19337261 19395457 19480548 19553232 19581538 19609295 19627166 19653188 19695261 19717241 19717533 19717533 19717533 19717533 19735401 19742117 19753506 19781300 19787998

SC

M AN U TE D

AC C

EP

chr21_17161083_C_T rs8128766 chr21_17266995_A_G chr21_17316112_A_T chr21_17316112_A_T chr21_17346597_C_T rs2823572 chr21_17439825_G_T chr21_17439825_G_T chr21_17439825_G_T chr21_17441210_A_G chr21_17472366_C_T chr21_17497141_C_G rs2823727 rs2823727 rs11911987 rs2823792 rs2823801 rs13047709 chr21_17844078_A_G chr21_17844078_A_G rs9974386 chr21_17847529_C_T chr21_17847724_C_G chr21_17879962_A_G rs78297552 rs2824006 chr21_18138050_C_T rs2824098 rs2205428 rs2205320 rs2824173 rs2824175 rs985065 chr21_18557617_C_G rs208894 rs2824416 rs2824439 rs2824439 rs2824457 rs2824526 rs197523 rs158044 chr21_19480548_A_G rs4816766 chr21_19581538_A_G chr21_19609295_A_G chr21_19627166_G_T chr21_19653188_A_C rs724128 rs1023388 chr21_19717533_A_C chr21_19717533_A_C chr21_19717533_A_C chr21_19717533_A_C rs2824773 rs2824780 rs2824787 chr21_19781300_C_G rs9982098

genotype difference Col_34_TS Col_33_TS Col_08_IF Col_52_CB Col_12_IF Col_33_IF Col_34_IF Col_16_IF Col_38_CB Col_12_IF Col_33_IF Col_52_TS Col_33_IF Col_16_TS Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_16_TS Col_33_IF Col_33_IF Col_12_CB Col_33_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_16_IF Col_52_IF Col_52_CB Col_52_TS Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_45_IF Col_12_CB Col_33_CB Col_33_IF Col_12_CB Col_16_TS Col_33_IF Col_33_IF Col_33_CB Col_52_IF Col_38_CB Col_52_IF Col_59_TS Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF

RI PT


Marker ID

556

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP BOT BOT BOT BOT

[T/C] [T/C] [A/T] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [T/A] [T/A] [T/C] [T/C] [T/C] [A/G] [A/C] [A/C] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C]

21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21

19983850 19999399 20102928 20195657 20264466 20304227 20343895 20410051 20418452 20419329 20421968 20422754 20422754 20431363 20517159 20813004 20835905 20871728 20889659 20910123 20925657 20966716 20978351 20986798 20993809 21011269 21058174 21069055 21069055 21110627 21177887 21213035 21256579 21302032 21388493 21503715 21521254 21650267 21666997 21696950 21706296 21741409 21741409 21741409 21749232 21816934 21817409 21817409 21907452 21926137 21926137 22107980 22219393 22219393 22323966 22395101 22416428 22418246 22467050 22467050

SC

M AN U TE D

AC C

EP

rs9974998 rs8131046 rs75445042 rs2825170 rs432177 rs2859889 rs11910017 rs2825304 rs2825314 rs8129785 chr21_20421968_A_G rs2825327 rs2825327 rs8133149 rs2825380 rs2825586 rs2825593 rs1489734 rs2825623 chr21_20910123_G_T rs9978286 rs2825673 chr21_20978351_C_T rs2825678 rs2825684 rs2825696 rs2825745 rs190066 rs190066 rs1401046 rs2825802 rs2825861 rs12053729 rs2825900 rs2825943 rs2187022 chr21_21521254_A_G chr21_21650267_A_G rs1077651 chr21_21696950_C_T rs2826182 chr21_21741409_A_G chr21_21741409_A_G chr21_21741409_A_G rs77131684 rs2826257 rs1786354 rs1786354 rs2212668 rs2826388 rs2826388 chr21_22107980_C_T chr21_22219393_G_T chr21_22219393_G_T rs2826620 rs6518027 chr21_22416428_C_T rs7275959 rs2205334 rs2205334

genotype difference Col_12_IF Col_33_IF Col_08_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_38_TS Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_59_TS Col_52_TS Col_38_TS Col_12_IF Col_16_CB Col_33_IF Col_34_IF Col_52_IF Col_12_IF Col_52_IF Col_52_IF Col_08_IF Col_52_IF Col_12_IF Col_16_IF Col_12_TS Col_33_IF Col_16_IF Col_59_TS Col_34_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_38_CB

RI PT


Marker ID

557

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT TOP BOT BOT TOP TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT

[A/G] [A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [A/C] [T/C] [A/G] [A/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/G] [A/G] [A/G] [T/C] [T/C] [G/C] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [G/C] [G/C] [G/C] [T/G] [T/A] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/G] [A/C] [A/G] [A/G] [A/G] [T/C]

21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21

22697897 22697897 22808583 22855892 22864287 23014827 23035381 23207898 23248164 23309707 23366550 23445015 23571308 23721466 23787309 23889906 23984543 24032667 24032667 24189782 24200410 24342754 24342754 24362506 24362506 24458856 24488079 24502350 24515162 24667856 24697989 24697989 24710202 24710202 24790421 24811569 24811569 24811569 24830565 24846538 24878381 24910454 24944202 24951271 24954746 24954746 24954746 24965577 25015303 25055671 25060840 25060840 25060840 25060840 25075551 25130153 25133374 25241584 25317605 25370697

SC

M AN U TE D

AC C

EP

rs232471 rs232471 rs2826838 rs2009029 corect_rs116903257 rs975306 rs2223148 chr21_23207898_G_T chr21_23248164_C_T rs2827143 chr21_23366550_A_C rs4818661 rs10470235 rs2827433 rs2827512 chr21_23889906_C_T chr21_23984543_C_T rs17004249 rs17004249 rs9979872 rs956821 rs244183 rs244183 chr21_24362506_C_T chr21_24362506_C_T chr21_24458856_C_G rs2827875 chr21_24502350_C_T rs8128468 rs2828019 rs973372 rs973372 rs2828074 rs2828074 rs2828136 rs9980598 rs9980598 rs9980598 rs1699996 rs80123969 chr21_24878381_C_T chr21_24910454_A_G rs2828268 rs2828286 chr21_24954746_C_T chr21_24954746_C_T chr21_24954746_C_T rs2828310 rs7278243 rs2828423 chr21_25060840_C_T chr21_25060840_C_T chr21_25060840_C_T chr21_25060840_C_T rs2828443 rs11910832 rs9979663 rs2828572 rs2828640 rs2828682

genotype difference Col_33_IF Col_52_IF Col_33_IF Col_33_CB Col_16_TS Col_52_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_08_CB Col_33_IF Col_52_IF Col_33_IF Col_16_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_12_CB Col_38_IF Col_52_IF Col_16_IF Col_33_IF Col_33_CB Col_16_TS Col_52_IF Col_33_IF Col_52_IF Col_52_IF Col_08_TS Col_16_IF Col_52_IF Col_38_CB Col_52_CB Col_33_CB Col_33_CB Col_16_TS Col_12_CB Col_38_CB Col_45_TS Col_59_TS Col_33_IF Col_16_IF Col_08_TS Col_33_IF Col_38_CB Col_52_IF Col_12_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

558

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT TOP BOT BOT TOP TOP BOT TOP TOP BOT BOT TOP TOP MINUS TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP BOT TOP BOT TOP TOP TOP BOT TOP BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT BOT

[T/C] [T/C] [A/G] [T/G] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/T] [T/C] [T/G] [A/T] [C/G] [T/C] [A/G] [A/G] [T/C] [T/C] [A/C] [A/G] [I/D] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [A/C] [T/A] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/G] [A/G] [T/C] [T/C] [A/G] [T/C] [A/C] [A/C] [A/C] [A/C] [T/C] [T/C] [T/G]

21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21

25378074 25382137 25491856 25502333 25506250 25511445 25594326 25686039 25694655 25694655 25694655 25845837 25845837 25846325 26080959 26099431 26104587 26118250 26128796 26143198 26178417 26182957 26201269 26204697 26330355 26363894 26389184 26392671 26501700 26819664 26831491 26976222 27025078 27065153 27620537 27628297 27676401 27720679 27856726 27861792 27861792 27879342 28008346 28054629 28124456 28221252 28481280 28503077 28547816 28631418 28662012 28663342 28726527 28790923 28799489 28799489 28799489 28830015 28846705 28888680

SC

M AN U TE D

AC C

EP

rs2828690 chr21_25382137_A_G rs1699673 chr21_25502333_G_T chr21_25506250_C_T rs12627523 rs2828918 rs2154705 rs1475580 rs1475580 rs1475580 rs9305222 rs9305222 rs10482950 rs2829285 rs74979414 rs74316576 rs2829317 rs2829332 rs2829349 rs2829394 rs12482995 rs2829426 rs2829429 rs1475903 chr21_26363894_A_G chr21_26389184_A_C rs2156391 rs67775568 rs10154112 rs9977255 exm2254538 rs1018754 rs7283477 rs468813 chr21_27628297_A_G rs459756 chr21_27720679_G_T chr21_27856726_A_T chr21_27861792_A_G chr21_27861792_A_G chr21_27879342_A_G rs1354661 rs9976844 rs7279085 rs67979457 rs2830698 rs1571662 rs2830749 chr21_28631418_C_T rs1557368 rs239611 rs171213 rs2830927 rs2830935 rs2830935 rs2830935 rs2830956 rs2830963 rs2830992

genotype difference Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_CB Col_08_TS Col_38_CB Col_52_IF Col_08_CB Col_16_TS Col_52_IF Col_12_CB Col_33_IF Col_16_CB Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_38_TS Col_52_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_12_CB Col_34_TS Col_33_CB Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_08_CB Col_52_IF Col_33_IF Col_16_IF Col_33_IF Col_16_TS Col_33_IF Col_52_IF Col_33_IF Col_16_TS Col_33_IF

RI PT


Marker ID

559

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT BOT TOP TOP BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP BOT TOP

[A/G] [T/G] [A/G] [A/G] [T/C] [T/C] [A/C] [A/C] [A/C] [A/C] [A/G] [T/C] [A/G] [A/G] [C/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [A/G] [A/G] [T/G] [T/G] [T/C] [A/C] [A/C] [A/C] [A/C] [A/C] [C/G] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [A/C] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/C] [A/G] [G/C] [A/G]

21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21

28912400 29015007 29023819 29031861 29064310 29105491 29213323 29372341 29372341 29372341 29399103 29438449 29563947 29563947 29717436 29844007 29958814 29974493 29974493 30097505 30098166 30133077 30239378 30277102 30277102 30489300 30577848 30717737 30748729 31020875 31033050 31073435 31073435 31073435 31073435 31176807 31213149 31325984 31378933 31401462 31401462 31553500 31627395 31719836 31853951 31947031 31989115 32023886 32183026 32191699 32191699 32191699 32272059 32272059 32296251 32462981 32484078 32720449 33012917 33206932

SC

M AN U TE D

AC C

EP

rs8127160 chr21_29015007_A_C rs2831042 chr21_29031861_C_T rs2831093 rs2831140 rs2831178 chr21_29372341_G_T chr21_29372341_G_T chr21_29372341_G_T chr21_29399103_A_G rs2831450 rs2831626 rs2831626 rs2831713 rs13052611 rs2831912 chr21_29974493_C_T chr21_29974493_C_T rs2831985 rs2831988 rs2832057 rs4817258 rs2248610 rs2248610 rs2832191 chr21_30577848_A_G rs372883 rs9647133 rs12626669 chr21_31033050_C_T rs2832427 rs2832427 rs2832427 rs2832427 chr21_31176807_G_T rs11701347 chr21_31325984_A_G rs2032305 chr21_31401462_A_G chr21_31401462_A_G rs2832649 rs2832720 rs2212507 rs16986809 rs11910082 rs1702403 chr21_32023886_A_G rs9680273 rs2833108 rs2833108 rs2833108 rs743323 rs743323 rs2833162 rs9305450 rs7275720 rs2833384 chr21_33012917_C_G rs8133196

genotype difference Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_16_TS Col_33_IF Col_52_TS Col_33_IF Col_45_IF Col_33_CB Col_12_TS Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_16_TS Col_33_IF Col_12_CB Col_33_IF Col_59_IF Col_12_CB Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_16_TS Col_33_IF Col_59_TS Col_12_TS Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_38_IF Col_16_IF Col_45_IF Col_33_IF Col_33_IF Col_59_TS Col_33_IF Col_33_CB Col_33_IF Col_16_TS Col_38_TS Col_45_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_16_IF

RI PT


Marker ID

560

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT TOP BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT TOP TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP BOT TOP BOT BOT BOT TOP BOT BOT

[A/G] [T/C] [T/G] [T/G] [T/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/A] [T/C] [A/G] [A/G] [A/C] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/G] [T/G] [A/G] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [A/G] [T/C] [A/C] [T/G] [T/C] [A/G] [A/G] [A/G] [A/T] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C]

21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21

33213462 33234438 33315533 33315533 33315533 33496823 34366129 34500784 34581852 34624917 34721782 34968105 35244722 35471878 35535498 35871379 35980029 36064482 36089054 36121293 36349625 36469757 36921513 36940158 37195391 37195391 37475371 37511627 37563298 37571692 37616660 37623447 37829040 38010650 38087642 38191874 38239499 38251558 38343481 38522486 38574018 38702072 38800037 38800037 39092293 39515091 39550080 39581136 39721888 39981673 40125689 40217738 40338995 40471021 41142595 41163233 41309823 42256204 42320796 42320796

SC

M AN U TE D

AC C

EP

rs2833537 rs6517061 rs2833567 rs2833567 rs2833567 rs2833664 rs1892585 chr21_34500784_A_G chr21_34581852_A_G chr21_34624917_A_G rs17875834 exm1568004 chr21_35244722_A_T chr21_35471878_A_G rs8130631 rs7279771 chr21_35980029_A_C chr21_36064482_A_G chr21_36089054_C_T rs2834623 rs2834709 rs1006293 chr21_36921513_C_T rs2776262 rs2222963 rs2222963 chr21_37475371_A_G rs11910763 rs2835311 rs2835316 rs35941561 rs2298450 rs219789 rs1569307 chr21_38087642_A_G rs8134293 rs2835511 rs8131621 rs4817836 rs2298326 rs1053984 rs9975831 rs16995099 rs16995099 rs9979466 rs2836168 chr21_39550080_C_T rs6517451 rs970115 chr21_39981673_A_G chr21_40125689_C_T rs469180 rs2836789 chr21_40471021_C_T rs2837196 rs2837223 chr21_41309823_A_G rs17000375 rs73373573 rs73373573

genotype difference Col_33_IF Col_12_CB Col_16_IF Col_52_IF Col_12_IF Col_34_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_38_TS Col_38_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_52_CB Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_TS Col_33_IF Col_33_CB Col_59_TS Col_12_CB Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_59_IF Col_33_IF Col_33_IF Col_33_CB Col_12_CB Col_33_IF Col_16_IF Col_38_CB

RI PT


Marker ID

561

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP TOP TOP BOT TOP BOT TOP BOT BOT BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP BOT TOP TOP BOT TOP BOT TOP BOT TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP BOT BOT BOT TOP

[T/C] [A/T] [T/G] [T/C] [A/C] [T/G] [A/C] [A/G] [A/G] [A/G] [T/G] [T/C] [A/G] [A/G] [A/G] [T/C] [A/C] [T/C] [C/G] [T/C] [T/C] [G/C] [G/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/C] [A/C] [G/C] [A/T] [A/G] [T/C] [A/C] [T/C] [A/G] [T/G] [A/G] [A/G] [T/C] [T/C] [T/G] [T/G] [A/G] [T/C] [A/G] [A/G] [T/G] [T/C] [T/C] [A/G]

21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 21 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22

42320796 42320879 42501445 42518599 42568419 42577297 42658473 42836476 42836476 42921717 43194459 43296188 43312993 43434141 43434141 43454010 43623281 44161227 44507418 44515685 44791238 44983485 44983485 45358806 45618536 45755736 46017263 46386993 46523623 47436327 47532287 47532287 47552386 48079669 17203103 17227461 17303596 17589794 17718911 17825432 17873099 18009909 18470897 19413299 19431049 19937638 19951237 19951237 20010858 20761063 21009596 21459251 22537581 23406099 23895625 24247310 24414829 24520375 24982233 25113562

SC

M AN U TE D

AC C

EP

rs73373573 rs2150432 chr21_42501445_G_T rs2837961 chr21_42568419_G_T chr21_42577297_A_C rs2410416 rs462471 rs462471 rs2838056 rs13048349 chr21_43296188_A_G rs9974785 chr21_43434141_C_T chr21_43434141_C_T rs220234 rs10084554 rs10451851 rs9977396 rs2839634 rs595587 chr21_44983485_C_G chr21_44983485_C_G chr21_45358806_C_T chr21_45618536_A_G corect_rs147855042 chr21_46017263_A_G exm1578958 rs387536 rs9977276 chr21_47532287_C_T chr21_47532287_C_T exm1580704 rs3088287 rs2845380 rs5748593 rs2192431 chr22_17589794_A_C rs5748976 chr22_17825432_A_T chr22_17873099_A_G rs174330 rs381125 chr22_19413299_A_G chr22_19431049_C_T rs5993883 rs8192488 rs8192488 rs5748503 rs2228236 rs651851 kgp621428 rs10483109 exm1592311 rs17002476 rs5760096 rs5760180 rs2070471 exm1594750 rs131478

genotype difference Col_12_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_TS Col_33_IF Col_33_CB Col_33_IF Col_33_TS Col_16_TS Col_38_TS Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_TS Col_52_CB Col_08_TS Col_33_CB Col_08_TS Col_33_IF Col_12_CB Col_33_CB Col_52_TS Col_08_TS Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_52_CB Col_52_TS Col_33_IF Col_08_TS Col_33_CB Col_33_CB Col_38_IF Col_33_IF Col_33_IF Col_33_CB Col_38_IF Col_33_IF Col_38_IF Col_33_IF Col_33_CB Col_33_CB Col_33_IF

RI PT


Marker ID

562

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT BOT TOP BOT BOT PLUS BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP BOT TOP

[A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/G] [T/C] [A/G] [T/G] [T/C] [T/C] [T/G] [T/C] [T/G] [T/G] [T/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [G/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/G] [T/A] [A/G] [T/C] [T/C] [I/D] [G/C] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [A/C] [A/G] [T/C] [A/C]

22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22

25962988 26046900 26697195 26782251 27250195 27250195 27361465 27409465 27516947 27638996 27740546 27887420 27919967 27920144 27920173 27974819 27992413 28130044 28130044 28130044 28248840 28306607 28324866 28453059 28455418 28478985 28537992 28540809 28558418 28623364 28629526 28629713 28635354 28635354 28635354 28638511 28668624 28672798 28672798 28676218 28683194 28686251 28754042 28769172 28791864 28791864 28820083 28836969 28869010 28873048 28873048 28895265 28898127 28900001 28910521 28964032 28982943 28999721 29022172 29051261

SC

M AN U TE D

AC C

EP

rs16980239 rs5761149 rs591044 rs5752316 rs9625099 rs9625099 rs5761877 rs5997154 chr22_27516947_C_T chr22_27638996_G_T rs73153981 rs11704484 rs4822899 rs6005497 rs5762232 rs762064 rs9608623 rs11913308 rs11913308 rs11913308 chr22_28248840_C_T rs5762399 chr22_28324866_A_G rs77788090 chr22_28455418_C_T rs130408 rs135640 rs135645 rs135653 rs5762528 chr22_28629526_C_T rs16986177 chr22_28635354_C_T chr22_28635354_C_T chr22_28635354_C_T rs134186 rs73168148 rs76453822 rs76453822 chr22_28676218_C_T chr22_28683194_C_T chr22_28686251_A_C rs12157518 rs35313550 chr22_28791864_C_T chr22_28791864_C_T chr22_28820084_INDEL_T rs17504185 chr22_28869010_A_G chr22_28873048_C_T chr22_28873048_C_T chr22_28895265_A_C chr22_28898127_A_G rs5762664 rs73168191 kgp8849071 rs5762702 rs5762712 chr22_29022172_C_T rs73170612

genotype difference Col_33_IF Col_12_TS Col_38_TS Col_33_IF Col_16_TS Col_52_TS Col_33_IF Col_38_IF Col_33_IF Col_33_CB Col_33_IF Col_52_TS Col_34_CB Col_34_CB Col_12_CB Col_33_CB Col_34_TS Col_08_TS Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_45_IF Col_33_IF Col_33_CB Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_12_CB Col_52_CB Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_34_TS Col_33_IF Col_33_IF Col_52_CB Col_38_TS Col_12_IF Col_33_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_08_TS Col_12_CB

RI PT


Marker ID

563

IlmnStrand

SNP

Chr

MapInfo

TOP PLUS PLUS PLUS BOT BOT TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT PLUS TOP TOP TOP MINUS TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT PLUS BOT TOP BOT

[A/G] [I/D] [I/D] [D/I] [G/C] [G/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [A/C] [A/C] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [T/G] [T/G] [T/C] [I/D] [A/C] [A/G] [C/G] [I/D] [A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G] [T/C] [T/G] [T/G] [T/G] [T/C] [T/C] [T/C] [A/C] [T/C] [A/G] [T/G] [T/G] [G/C] [I/D] [T/C] [A/C] [T/C]

22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22

29087041 29107393 29130347 29182671 29185472 29185472 29200393 29351381 29396574 29499936 29502728 29573165 29621861 29621861 29638470 29793835 29865426 29950725 29961986 30075087 30183610 30328070 30328070 30328070 30328070 30344457 30344457 30344457 30378521 30389000 30389400 30486826 30494847 30495463 30521770 30529741 30537526 30539427 30562239 30575812 30581722 30581722 30597810 30606838 30760819 30760819 30760819 30860830 31022952 31086472 31215890 31305842 31334518 31434703 31438975 31443367 31583903 31952045 32007224 32069299

SC

M AN U TE D

AC C

EP

rs4035540 rs17885505 chr22_29130347_INDEL_T chr22_29182671_GAT_INDEL rs56366905 rs56366905 rs35679096 rs13056576 chr22_29396574_C_T rs4508707 rs126077 rs5997452 rs132391 rs132391 rs11704518 rs714962 rs55916029 rs9613952 rs467768 rs2857652 rs12628294 rs36590 rs36590 rs36590 rs36590 rs36609 rs36609 rs36609 rs12484301 chr22_30389001_A_INDEL rs5763680 rs2412970 rs34305723 chr22_30495464_INDEL_T rs11090598 rs5753021 rs5997579 rs9625926 rs8141765 rs12167333 rs5753037 rs5753037 rs9614157 chr22_30606838_C_T chr22_30760819_A_C chr22_30760819_A_C chr22_30760819_A_C rs2269961 rs10418 rs62235878 rs4443 rs714023 rs9609163 rs12484162 rs73156769 rs7285617 rs35222675 rs5753691 exm2006385 rs73402174

genotype difference Col_16_TS Col_33_IF Col_33_IF Col_52_IF Col_33_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_16_TS Col_33_CB Col_38_CB Col_52_IF Col_12_IF Col_33_IF Col_34_CB Col_12_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_CB Col_33_IF Col_38_IF Col_52_IF Col_08_TS Col_33_CB Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_38_IF Col_33_CB Col_33_CB Col_12_CB

RI PT


Marker ID

564

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT BOT TOP BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT MINUS TOP BOT BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP BOT BOT BOT TOP TOP BOT BOT TOP TOP

[T/C] [A/G] [T/C] [T/G] [T/G] [A/G] [T/G] [A/G] [A/C] [T/C] [T/G] [T/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [T/G] [T/C] [T/C] [A/C] [T/C] [A/G] [C/G] [A/C] [A/C] [T/C] [A/G] [A/G] [A/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/G] [D/I] [A/G] [T/C] [G/C] [A/C] [A/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/C] [T/C] [G/C] [T/C] [A/G] [A/G] [G/C] [T/A] [A/G] [A/G]

22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22

32454437 32618956 32738182 32771017 32849712 33096450 33174766 33304362 33465747 33493657 33568560 33624845 33638245 33928049 34287350 34356096 34477467 34485711 34811838 35170796 35338995 35395126 35450940 35522842 36553610 36820656 36820656 37242345 37337409 37490691 37677949 37754442 37789106 37843239 38368069 38504372 38718539 38877776 39286399 39522636 40194117 40242010 40242010 40471188 40481736 40482752 40490136 40497873 40540185 40540185 40585882 40715903 40777072 40855788 40900077 40900077 40909156 40957013 40968616 40977346

SC

M AN U TE D

AC C

EP

rs77956982 rs5998318 rs5753991 rs5754049 rs11703151 chr22_33096450_A_G rs8142758 chr22_33304362_C_T chr22_33465747_A_C rs16991775 rs2213457 rs5749581 rs17721625 rs8140641 rs17747599 chr22_34356096_C_T rs11704266 rs5749726 rs5755038 rs5994992 rs4239875 rs5755492 rs5999690 rs134209 chr22_36553610_C_G chr22_36820656_G_T chr22_36820656_G_T rs131837 chr22_37337409_C_T rs2413451 chr22_37677949_A_C chr22_37754442_C_T rs6000708 rs2097455 corect_rs186669087 rs5750540 corect_rs115082049 chr22_38877776_C_INDEL chr22_39286399_C_T chr22_39522636_A_G chr22_40194117_C_G chr22_40242010_A_C chr22_40242010_A_C chr22_40471188_C_T chr22_40481736_A_G chr22_40482752_A_G chr22_40490136_C_T rs17001632 chr22_40540185_A_G chr22_40540185_A_G chr22_40585882_A_C chr22_40715903_A_G chr22_40777072_C_G chr22_40855788_C_T chr22_40900077_A_G chr22_40900077_A_G rs3091393 chr22_40957013_A_T chr22_40968616_A_G chr22_40977346_C_T

genotype difference Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_52_IF Col_33_IF Col_08_TS Col_33_IF Col_52_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_45_IF Col_52_TS Col_33_TS Col_52_CB Col_33_IF Col_33_IF Col_38_IF Col_52_TS Col_38_TS Col_33_IF Col_12_TS Col_33_TS Col_52_CB Col_33_IF Col_38_IF Col_12_CB Col_33_CB Col_38_CB Col_12_IF Col_33_IF Col_45_IF Col_38_CB Col_33_IF Col_38_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_34_TS Col_33_IF Col_33_IF Col_34_IF

RI PT


Marker ID

565

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT BOT BOT TOP PLUS MINUS BOT BOT TOP TOP TOP MINUS MINUS BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP TOP BOT MINUS BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP TOP BOT TOP BOT BOT TOP BOT BOT TOP TOP BOT TOP BOT BOT TOP TOP TOP TOP

[A/G] [A/C] [A/C] [G/C] [T/C] [T/C] [A/G] [D/I] [I/D] [T/C] [T/C] [A/G] [A/G] [A/G] [I/D] [I/D] [T/C] [T/C] [T/C] [T/A] [T/A] [T/A] [A/G] [A/T] [C/G] [T/G] [T/C] [A/G] [A/G] [A/C] [T/C] [I/D] [T/C] [T/G] [T/G] [T/C] [C/G] [C/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [A/C] [T/C] [T/C] [A/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G]

22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22

40977346 41006612 41011279 41019767 41027870 41031027 41340412 41497085 42063474 42269532 42518426 42525134 42525134 43043087 43069895 43069895 43080880 43151763 43155564 43163714 43163714 43163714 43164369 43174321 43213724 43242267 43303013 43476352 43497898 43515339 43586327 43764772 43777409 43779867 43779867 43799007 43926010 43926010 44083442 44131786 44567435 44572281 44763799 44823657 44898190 44929806 44939242 45097096 45251423 45445934 45754517 45785068 45828546 45916679 46131238 46131238 46633566 46638405 46638405 46638486

SC

M AN U TE D

AC C

EP

chr22_40977346_C_T chr22_41006612_A_C chr22_41011279_A_C chr22_41019767_C_G chr22_41027870_C_T chr22_41031027_C_T rs9619923 chr22_41497085_INDEL_TTC chr22_42063475_A_INDEL rs11702960 rs764481 kgp15099441 kgp15099441 chr22_43043087_A_G chr22_43069895_CA_INDEL chr22_43069895_CA_INDEL chr22_43080880_C_T rs4820478 chr22_43155564_C_T chr22_43163714_A_T chr22_43163714_A_T chr22_43163714_A_T rs8140077 chr22_43174321_A_T chr22_43213724_C_G chr22_43242267_G_T chr22_43303013_C_T chr22_43476352_C_T chr22_43497898_A_G chr22_43515339_G_T chr22_43586327_A_G chr22_43764772_A_INDEL chr22_43777409_C_T rs1555242 rs1555242 chr22_43799007_A_G chr22_43926010_C_G chr22_43926010_C_G rs5764214 exm1615695 rs9614207 chr22_44572281_A_G rs5764925 rs2027859 rs135626 rs1123146 rs2223335 chr22_45097096_A_C rs5766113 chr22_45445934_A_G rs5764701 rs6006740 rs11913200 rs136723 rs138166 rs138166 kgp24654298 kgp11432765 kgp11432765 kgp12001237

genotype difference Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_08_TS Col_33_IF Col_33_CB Col_33_CB Col_34_CB Col_52_TS Col_33_CB Col_45_IF Col_12_CB Col_33_IF Col_34_CB Col_33_IF Col_34_TS Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_52_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_34_CB Col_38_CB Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_52_TS Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_38_IF Col_33_IF Col_08_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_16_IF Col_38_CB Col_12_CB

RI PT


Marker ID

566

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT MINUS MINUS MINUS BOT TOP TOP BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT MINUS BOT BOT BOT TOP TOP PLUS TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT

[T/C] [T/C] [T/C] [D/I] [D/I] [D/I] [T/G] [A/G] [C/G] [T/G] [T/C] [T/C] [T/G] [A/G] [A/G] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [A/G] [A/G] [A/G] [A/C] [A/G] [T/C] [T/C] [T/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [I/D] [T/C] [T/C] [T/C] [A/G] [A/G] [D/I] [A/G] [A/G] [A/G] [T/C] [G/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C]

22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 22 MT X X X X X X X X X X X X X X X X X X X

46638625 46638625 47149570 47576595 47576595 47576595 47879110 47952205 48282309 48305427 48334119 48334119 48353839 48529709 48867031 49033984 49196010 49196010 49196699 49335631 49360424 49570455 49623957 49678713 49681231 49705478 49898587 50015327 50143670 50446550 50830044 14766 3127489 3486289 3486289 3531564 3572435 3572435 3593715 3608067 3614787 3648354 3655944 3678040 3698785 4066743 4136963 4262157 4306793 4355195 4355195

SC

M AN U TE D

AC C

EP

kgp15054859 kgp15054859 chr22_47149570_A_G chr22_47576595_G_INDEL chr22_47576595_G_INDEL chr22_47576595_G_INDEL rs8139889 rs6008263 chr22_48282309_C_G rs12165477 rs5768202 rs5768202 chr22_48353839_A_C rs715500 chr22_48867031_C_T rs7290651 rs5771854 rs5771854 rs9617458 rs13054097 rs9628063 rs8141990 rs9616521 rs11703376 rs2858500 chr22_49705478_G_T chr22_49898587_C_T rs7288869 chr22_50143670_C_T rs137862 rs7510868 corect_rs111564645 corect_rs184893060 kgp21346292 newrs61905507 rs13244318 rs488394 rs6546667 rs79391222 rs79391222 chrMT_14766_C_T chrX_3127490_INDEL_T rs11152521 rs11152521 chrX_3531564_A_G chrX_3572435_C_T chrX_3572435_C_T chrX_3593715_INDEL_TCC chrX_3608067_C_T rs12388873 rs17335296 chrX_3655944_C_T rs11152545 chrX_3698785_A_G rs2056688 chrX_4136963_C_T chrX_4262157_A_G chrX_4306793_A_G rs6640027 rs6640027

genotype difference Col_16_TS Col_52_IF Col_33_IF Col_08_TS Col_38_CB Col_45_TS Col_33_IF Col_33_CB Col_52_IF Col_33_IF Col_38_CB Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_CB Col_38_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_16_TS Col_33_CB Col_45_IF Col_52_CB Col_33_IF Col_12_CB Col_34_CB Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_52_IF Col_33_IF Col_12_TS Col_16_TS Col_12_TS Col_45_IF Col_12_TS Col_16_IF Col_59_TS Col_33_IF Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_33_IF Col_45_IF Col_33_CB Col_33_IF Col_33_IF Col_12_CB

RI PT


Marker ID

567

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP PLUS TOP BOT TOP TOP TOP TOP TOP TOP BOT TOP BOT BOT TOP TOP TOP BOT BOT TOP BOT TOP BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT TOP TOP BOT TOP BOT BOT BOT BOT TOP BOT BOT PLUS BOT PLUS PLUS MINUS BOT BOT BOT

[A/C] [A/C] [A/C] [I/D] [C/G] [T/C] [A/C] [A/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/G] [A/C] [A/C] [A/C] [T/C] [T/C] [A/G] [T/C] [A/C] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [I/D] [T/A] [D/I] [D/I] [I/D] [T/C] [T/C] [T/G]

X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X

4409725 4409725 4409725 4582258 4596710 5172908 5285776 5366521 5425548 5478402 5549979 5588984 5591913 5661536 5736495 5797676 5797884 5919409 5919409 5920150 5920150 5932565 6170418 6176561 6212245 6262277 6492543 6516735 6516735 6708278 6887439 6887439 7421902 7421902 7441920 7851066 7980701 8053206 8135053 8370707 8407958 8554694 8588533 8614638 8865574 9012656 9175603 9211918 9211918 9216763 9271117 9271117 9346198 9396757 9399165 9399169 9409163 9534520 9543889 9549835

SC

M AN U

TE D

rs7063021 rs7063021 rs7063021 chrX_4582258_AA_INDEL chrX_4596710_C_G rs1377666 chrX_5285776_A_C chrX_5366521_G_T rs5916100 chrX_5478402_C_T rs5915578 rs11797752 chrX_5591913_C_T rs5916245 rs5916250 rs5916263 rs5915616 rs17268655 rs17268655 rs11094942 rs11094942 rs6639571 chrX_6170418_C_T rs7065050 rs873276 rs4826724 chrX_6492543_C_T rs4553110 rs4553110 rs6639674 rs5933912 rs5933912 chrX_7421902_C_T chrX_7421902_C_T rs12156790 rs1012224 rs6639985 rs5934376 rs4830389 rs12687232 rs5934417 chrX_8554694_C_T rs6640194 chrX_8614638_C_T rs1232116 rs6640272 rs881599 rs5978307 rs5978307 rs6640327 rs59976947 rs59976947 chrX_9346198_A_INDEL rs6638946 chrX_9399165_GATAGAT_INDEL chrX_9399169_GAT_INDEL chrX_9409163_INDEL_T rs2254091 rs2681649 chrX_9549835_G_T

genotype difference Col_33_TS Col_38_CB Col_59_TS Col_12_CB Col_33_IF Col_16_IF Col_33_CB Col_45_TS Col_52_TS Col_33_IF Col_16_IF Col_33_IF Col_12_CB Col_12_CB Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_52_IF Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_52_IF Col_38_IF Col_16_TS Col_12_CB Col_33_CB Col_16_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_16_TS Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

568

IlmnStrand

SNP

Chr

MapInfo

BOT BOT MINUS MINUS BOT BOT PLUS BOT MINUS MINUS TOP MINUS BOT BOT BOT BOT MINUS BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT TOP TOP TOP BOT

[G/C] [T/C] [D/I] [I/D] [T/C] [T/C] [D/I] [T/G] [I/D] [I/D] [A/G] [D/I] [G/C] [T/C] [T/C] [T/C] [I/D] [T/G] [A/C] [A/G] [T/C] [G/C] [T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/T] [T/G] [T/C] [A/G] [G/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C]


9589768 9591146 9666702 9696852 9741640 9757002 9760497 9760497 9760509 9760509 9808102 9847827 9988639 10033973 10046186 10076870 10084826 10090942 10111190 10221501 10276539 10347702 10801279 11162887 11339211 11554942 11565048 11644490 11716410 11751343 12054572 12160566 12176019 12333171 12333171 12497256 12591245 12657702 12838934 13058967 13124701 13419367 13419367 13515644 13621525 13669408 13757007 13767636 13775827 14269838 14507042 14590646 14629410 14629410 14629410 14667696 14913818 14917186 15008034 15125458

SC

M AN U TE D

AC C

EP

chrX_9589768_C_G rs2023750 chrX_9666702_C_INDEL chrX_9696861_A_INDEL rs4830415 chrX_9757002_C_T chrX_9760497_G_INDEL chrX_9760497_G_T chrX_9760509_INDEL_T chrX_9760510_INDEL_T rs6530331 rs61109201 rs6640588 chrX_10033973_C_T rs4830691 chrX_10076870_C_T chrX_10084826_INDEL_T rs55888301 chrX_10111190_A_C rs7877676 rs1012782 chrX_10347702_C_G chrX_10801279_A_G rs10482314 chrX_11339211_A_G chrX_11554942_G_T chrX_11565048_C_T rs5979437 rs6640761 rs5935154 rs857535 rs17327990 rs5935248 rs5933985 rs5933985 rs5934006 chrX_12591245_A_T rs5979700 rs917580 exm1628711 chrX_13124701_C_G rs5935554 rs5935554 rs5935584 exm1628780 rs12391470 exm1628892 exm1628910 exm1628930 chrX_14269838_A_G chrX_14507042_C_T rs989011 chrX_14629410_A_G chrX_14629410_A_G chrX_14629410_A_G rs6526822 rs1858882 rs5934197 rs7050403 rs5980113

genotype difference Col_16_TS Col_33_IF Col_38_TS Col_16_CB Col_16_TS Col_33_IF Col_33_CB Col_33_CB Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_38_IF Col_52_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_38_TS Col_16_IF Col_12_CB Col_38_CB Col_12_CB Col_12_CB Col_12_TS Col_33_IF Col_52_CB Col_16_IF Col_33_IF Col_33_IF Col_08_TS Col_33_CB Col_33_IF Col_08_IF Col_33_IF Col_52_CB Col_38_TS Col_52_IF Col_38_TS Col_45_IF Col_52_TS Col_33_IF Col_52_IF Col_52_IF Col_33_IF Col_33_IF

RI PT


Marker ID

569

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP MINUS MINUS BOT TOP BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP TOP BOT TOP BOT BOT TOP TOP TOP BOT BOT

[A/G] [A/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/G] [T/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [I/D] [I/D] [T/G] [A/G] [T/G] [T/G] [A/C] [T/C] [A/G] [T/C] [T/C] [T/G] [T/C] [T/C] [G/C] [A/G] [A/G] [T/C] [T/A] [T/A] [T/A] [T/C] [T/C] [A/G] [A/G] [T/C] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C]


15132004 15290053 15779181 16058506 16071445 16571278 16779831 16848598 16860913 17279411 17292210 17358162 17358162 17367319 18063709 18063709 18065734 18065734 18067563 18069752 18069752 18482665 18857543 18857543 19014210 19120568 19264083 19264083 19298788 19450824 19983256 19983256 20204461 20224568 20233538 20261527 20263381 20390274 20757892 20829155 20860579 20901811 21379106 21417766 21449814 21449814 21449814 21529066 21529066 21610145 21610145 21699217 21994683 22359921 22371759 22427884 22427884 22604924 22618700 22672011

SC

M AN U TE D

AC C

EP

chrX_15132004_A_G rs5935919 corect_rs145432050 rs739714 rs5936102 rs6632827 chrX_16779831_C_T rs12383626 rs4828534 rs11094720 chrX_17292210_A_G kgp22756869 kgp22756869 rs5991400 chrX_18063709_G_T chrX_18063709_G_T chrX_18065734_A_G chrX_18065734_A_G chrX_18067563_C_T chrX_18069752_C_T chrX_18069752_C_T kgp22835880 chrX_18857543_C_T chrX_18857543_C_T exm1630608 chrX_19120568_A_G chrX_19264084_A_INDEL chrX_19264084_A_INDEL rs6629329 chrX_19450824_A_G exm1631049 exm1631049 rs12009120 rs4078459 rs5909364 chrX_20261527_A_G rs4825336 kgp22760539 rs7877457 rs16981488 chrX_20860579_C_G kgp30953282 rs9887221 chrX_21417766_A_G chrX_21449814_A_T chrX_21449814_A_T chrX_21449814_A_T chrX_21529066_A_G chrX_21529066_A_G rs12009694 rs12009694 rs5951456 rs5951490 rs3924759 rs17249130 rs5951539 rs5951539 rs16982144 rs5970614 rs7887846

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_12_CB Col_52_CB Col_33_IF Col_12_IF Col_33_IF Col_12_TS Col_33_IF Col_33_IF Col_34_TS Col_33_IF Col_38_TS Col_12_CB Col_16_IF Col_33_CB Col_12_CB Col_16_TS Col_33_IF Col_33_CB Col_33_IF Col_16_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_IF Col_52_TS Col_33_IF Col_33_IF Col_16_IF Col_38_IF Col_52_CB Col_59_TS Col_08_CB Col_52_IF Col_16_IF Col_12_CB Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_38_CB Col_52_TS Col_33_IF Col_33_IF Col_12_IF

RI PT


Marker ID

570

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT BOT BOT TOP TOP BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP BOT TOP TOP BOT BOT TOP BOT TOP TOP BOT TOP TOP TOP

[T/C] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [T/C] [A/G] [T/C] [A/G] [A/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/C] [A/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [A/G] [T/G] [T/C] [A/G] [A/G] [T/C] [A/C] [A/G] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G]


22716467 22730393 22770048 22820488 22820488 22820488 22837661 22862852 22898696 22975801 23027455 23244870 23370707 23410863 23410863 23464519 23485609 24076520 24133466 24263586 24775975 24897581 24930262 24983277 25695462 25834579 25853614 25897544 25897544 25897544 25933568 26001593 26001593 26273505 26277560 26719303 26719303 26719303 26719303 26732740 26732740 26809365 26835262 26851077 27011210 27097315 27097315 27164505 27435308 27480677 27677158 27742555 27830391 28070120 28120239 28120239 28183613 28317929 28317929 28317929

SC

M AN U TE D

AC C

EP

rs5970856 rs5926043 chrX_22770048_G_T rs5926070 rs5926070 rs5926070 rs1974517 rs5926102 rs5970935 chrX_22975801_C_T rs4828952 chrX_23244870_A_G rs2141241 exm1631680 exm1631680 chrX_23464519_A_G rs6627929 chrX_24076520_A_G rs5949288 chrX_24263586_A_G chrX_24775975_C_T chrX_24897581_G_T rs11094975 chrX_24983277_A_G chrX_25695462_A_G rs991338 rs5944185 rs752717 rs752717 rs752717 rs11095017 chrX_26001593_A_C chrX_26001593_A_C chrX_26273505_A_G chrX_26277560_A_G rs4567203 rs4567203 rs4567203 rs4567203 rs5943961 rs5943961 rs4520323 rs13440657 kgp30953422 rs6630313 chrX_27097315_A_G chrX_27097315_A_G rs5926630 rs2379024 chrX_27480677_A_G rs16987956 rs1551201 rs5926910 chrX_28070120_A_G rs1318683 rs1318683 kgp22764417 rs12009109 rs12009109 rs12009109

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_59_TS Col_12_IF Col_38_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_TS Col_12_IF Col_12_CB Col_12_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_16_IF Col_33_IF Col_33_CB Col_33_IF Col_34_TS Col_38_CB Col_59_TS Col_12_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_38_CB Col_38_CB Col_33_IF Col_12_CB Col_12_CB Col_12_CB Col_34_IF Col_33_IF Col_38_CB Col_16_TS Col_38_CB Col_16_IF Col_38_TS Col_33_IF Col_16_IF Col_33_IF Col_38_CB

RI PT


Marker ID

571

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT TOP TOP BOT TOP TOP TOP BOT BOT TOP BOT BOT TOP MINUS TOP TOP TOP BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP MINUS TOP

[T/C] [A/G] [T/C] [T/C] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/C] [A/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [A/G] [T/A] [T/A] [A/G] [I/D] [A/G] [A/G] [A/G] [T/C] [A/C] [A/C] [A/G] [T/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [A/G] [A/G] [I/D] [C/G]


28870882 28964724 28991527 29094723 29104896 29137069 29253356 29526520 29526520 29529457 29529457 29529457 29554471 29554471 29566417 29765912 29961130 29961130 29961130 29991806 29991806 29991806 30064743 30136321 30154272 30201620 30402866 30403469 30403469 30565477 30581998 30587859 30593824 30593824 30900358 31003058 31057093 31165046 31235997 31241938 31277401 31370967 31384174 31453403 31460975 31502157 31678047 31678047 31729978 31779924 31782780 31782780 31799438 31799438 31799438 31854884 31907035 31907035 31938395 31941246

SC

M AN U

TE D

rs5943563 rs629965 rs6630797 kgp22772076 chrX_29104896_G_T chrX_29137069_A_G chrX_29253356_C_T rs6526874 rs6526874 chrX_29529457_C_T chrX_29529457_C_T chrX_29529457_C_T chrX_29554471_A_G chrX_29554471_A_G chrX_29566417_C_T chrX_29765912_A_G rs5973366 rs5973366 rs5973366 rs16998050 rs16998050 rs16998050 kgp22734545 rs2190476 chrX_30154272_G_T rs4483311 rs12556728 rs5972117 rs5972117 chrX_30565477_A_G chrX_30581998_G_T kgp22802320 rs58773563 rs58773563 chrX_30900358_A_G chrX_31003059_A_INDEL rs376406 rs2242311 chrX_31235997_C_T chrX_31241938_A_G chrX_31277401_A_C chrX_31370967_A_C rs2692996 rs17338542 rs12687510 rs6653851 chrX_31678047_A_G chrX_31678047_A_G rs6628627 chrX_31779924_C_T rs16998223 rs16998223 chrX_31799438_A_G chrX_31799438_A_G chrX_31799438_A_G chrX_31854884_G_T rs5972459 rs5972459 chrX_31938395_INDEL_TTATT chrX_31941246_C_G

genotype difference Col_16_TS Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_38_IF Col_59_CB Col_52_IF Col_12_CB Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_52_IF Col_16_TS Col_33_IF Col_33_CB Col_52_IF Col_12_CB Col_33_CB Col_38_TS Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_38_CB Col_33_IF Col_12_CB Col_08_CB Col_33_IF Col_16_CB Col_38_TS Col_33_IF Col_12_CB Col_52_IF Col_52_CB Col_33_IF Col_08_IF Col_38_TS Col_12_CB Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_38_TS Col_33_IF Col_34_IF Col_33_IF Col_52_IF Col_12_IF Col_12_CB Col_33_IF Col_12_IF Col_33_IF Col_12_CB

RI PT


Marker ID

572

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT TOP BOT TOP BOT BOT TOP TOP BOT BOT BOT MINUS BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT TOP BOT BOT

[A/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [T/C] [T/C] [T/G] [A/G] [T/C] [A/C] [T/C] [T/G] [A/G] [A/C] [T/C] [T/C] [T/C] [D/I] [T/C] [T/C] [A/G] [T/C] [A/G] [A/C] [A/C] [A/C] [A/G] [A/G] [T/C] [T/C] [A/C] [A/G] [T/C] [T/C] [T/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/C] [A/G] [A/G] [A/C] [A/C] [A/C] [T/C] [T/C] [A/G] [T/C] [T/C]


31969744 31993673 32015376 32026123 32037457 32047785 32047785 32072768 32113561 32202688 32202688 32388364 32427989 32474022 32494754 32536126 32561313 32563447 32564698 32576347 32604077 32706892 32747874 32763761 32816337 32835845 32850589 32858585 32885694 32885694 32885694 33017142 33018746 33171159 33171159 33193810 33243198 33273667 33630471 33943613 33961764 33962676 34137327 34137327 34218782 34218782 34444872 34449197 34474055 34541283 34598803 34598803 34839962 34839962 34839962 34856970 34903751 34987610 34994085 35175470

SC

M AN U TE D

AC C

EP

rs5927056 rs1458371 rs16990008 chrX_32026123_A_G chrX_32037457_C_T rs5972478 rs5972478 rs16998256 rs1950112 rs2685890 rs2685890 rs6628711 rs5972560 chrX_32474022_C_T chrX_32494754_G_T chrX_32536126_C_T rs7888911 exm1633487 rs228377 rs5972596 rs808559 chrX_32706892_C_T chrX_32747874_INDEL_TTCG rs4829124 chrX_32816337_A_G rs5972677 rs5972684 rs6628742 chrX_32885694_A_C chrX_32885694_A_C chrX_32885694_A_C rs5927123 rs12842136 chrX_33171159_C_T chrX_33171159_C_T rs6527265 rs12847086 rs2897455 rs6653903 rs2455632 rs2455621 kgp22761170 rs3006120 rs3006120 rs12557635 rs12557635 rs12556088 rs4829149 rs5971862 rs5928581 rs4430236 rs4430236 rs34538690 rs34538690 rs34538690 rs5973273 rs5971903 chrX_34987610_C_T rs3128081 rs5927368

genotype difference Col_33_IF Col_52_TS Col_33_IF Col_38_CB Col_33_IF Col_38_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_34_CB Col_33_CB Col_34_TS Col_52_CB Col_33_IF Col_45_IF Col_16_CB Col_33_IF Col_33_IF Col_59_TS Col_38_CB Col_33_IF Col_33_IF Col_52_TS Col_12_CB Col_16_IF Col_33_IF Col_16_TS Col_52_IF Col_16_CB Col_16_TS Col_12_CB Col_52_IF Col_34_CB Col_33_IF Col_34_TS Col_16_IF Col_33_CB Col_38_TS Col_12_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_45_IF Col_59_TS Col_16_TS Col_33_IF Col_52_TS Col_16_TS Col_16_TS Col_33_IF Col_34_CB Col_16_IF

RI PT


Marker ID

573

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP BOT TOP TOP TOP TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP BOT BOT PLUS BOT BOT TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT TOP BOT MINUS BOT

[T/C] [A/G] [A/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [A/T] [A/C] [T/C] [T/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [I/D] [T/G] [T/G] [A/G] [A/G] [T/C] [G/C] [A/T] [A/T] [T/C] [T/G] [T/G] [T/C] [A/G] [T/C] [T/A] [T/A] [T/C] [T/C] [A/C] [A/G] [A/C] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [T/C] [D/I] [T/C]


35175470 35234240 35481364 35507041 35657371 35753528 35993486 35993486 35993486 36007614 36016134 36016810 36089996 36104226 36123860 36257640 36265662 36297591 36573746 36573746 36628635 36639717 36639717 36661780 36688746 36688746 36852415 36886235 36887415 36959807 37024632 37024632 37025073 37722202 37722202 37790643 37910066 37941731 37956856 37956856 37979668 37986733 38351744 38400131 38561893 38884535 39713913 39713913 39713913 39752946 40887566 41170168 41605844 41776742 41842570 42520743 42638572 42662929 42697534 42706387

SC

M AN U

TE D

rs5927368 chrX_35234240_C_T chrX_35481364_A_C rs7062091 chrX_35657371_A_G rs1417750 rs4412518 rs4412518 rs4412518 rs6629027 rs12388605 rs12389891 exm1633924 rs6632476 rs6632488 rs4584314 rs6632536 chrX_36297591_C_T rs5929047 rs5929047 rs5973698 rs4829412 rs4829412 chrX_36661780_INDEL_TT rs4645699 rs4645699 chrX_36852415_A_G chrX_36886235_C_T kgp22760558 chrX_36959807_C_G rs62588501 rs62588501 rs28495724 chrX_37722202_A_C chrX_37722202_A_C rs5918419 rs5918462 rs5918469 chrX_37956856_A_T chrX_37956856_A_T exm1634418 chrX_37986733_A_G rs5917599 rs5963498 kgp22818772 rs5963572 chrX_39713913_A_G chrX_39713913_A_G chrX_39713913_A_G rs3008899 rs7060889 rs17322868 rs2244325 chrX_41776742_C_T chrX_41842570_A_G rs6610707 rs7065559 rs5991588 chrX_42697534_INDEL_TTTAATAG rs5950997

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_45_IF Col_52_IF Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_38_TS Col_12_IF Col_52_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_16_CB Col_59_CB Col_33_IF Col_52_CB Col_33_IF Col_38_IF Col_38_IF Col_59_TS Col_33_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_34_CB Col_34_CB Col_38_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_08_TS Col_16_TS Col_38_TS Col_33_IF Col_52_CB Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_38_TS Col_33_CB

RI PT


Marker ID

574

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT TOP TOP BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP PLUS BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP

[A/G] [A/G] [C/G] [T/C] [T/A] [T/C] [T/G] [A/G] [T/C] [A/G] [A/G] [A/C] [T/A] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/C] [A/G] [T/A] [A/C] [T/C] [T/G] [T/G] [T/G] [T/C] [A/G] [A/G] [A/G] [A/C] [A/G] [A/G] [A/G] [D/I] [T/G] [T/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/C] [A/T] [T/A] [T/C] [A/G] [T/G] [T/C] [T/C] [T/G] [G/C] [G/C] [T/C] [T/C] [C/G]


43068849 43229524 43407229 43633740 43775125 43779913 44033626 44224171 44249895 44349417 44349417 44615148 44658959 44664865 44690341 44690341 44896847 44896847 44945346 44945346 44972785 44976095 45034073 45159039 45801844 46206130 47670421 47670421 47670421 47674903 47918194 48094683 48287221 48348089 48612615 49370901 49370901 49446857 49508426 49508426 49602149 50035804 50683455 50786291 50975524 51063125 51082847 51097275 51145041 51242670 51251800 51253779 51261249 51272176 51289104 51307940 51307940 51338963 51343494 51343635

SC

M AN U TE D

AC C

EP

chrX_43068849_C_T rs4319236 chrX_43407229_C_G rs10521432 chrX_43775125_A_T rs5952388 rs6610898 rs1451511 rs5953390 rs5905820 rs5905820 rs5905884 rs5952262 rs5905896 rs7053025 rs7053025 chrX_44896847_C_T chrX_44896847_C_T chrX_44945346_A_G chrX_44945346_A_G chrX_44972785_C_T chrX_44976095_G_T rs4452929 chrX_45159039_A_T rs6611148 rs5906181 rs1207463 rs1207463 rs1207463 rs1207471 exm1637118 rs7056162 rs2037966 chrX_48348089_G_T rs760393 kgp22802618 kgp22802618 chrX_49446857_GG_INDEL kgp22767981 kgp22767981 rs34334589 rs12014352 chrX_50683455_A_G rs2382893 rs1151705 chrX_51063125_C_T chrX_51082847_A_C chrX_51097275_A_T chrX_51145041_A_T rs5945620 chrX_51251800_A_G chrX_51253779_G_T chrX_51261249_C_T chrX_51272176_A_G chrX_51289104_A_C chrX_51307940_C_G chrX_51307940_C_G chrX_51338963_A_G chrX_51343494_C_T chrX_51343635_C_G

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_33_CB Col_33_CB Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_08_CB Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_12_IF Col_33_IF Col_52_TS Col_52_CB Col_12_CB Col_12_CB Col_33_IF Col_33_CB Col_16_IF Col_33_IF Col_52_IF Col_12_TS Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_33_IF Col_33_CB Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_16_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_38_IF Col_38_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_12_IF

RI PT


Marker ID

575

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP TOP TOP TOP PLUS PLUS TOP TOP TOP TOP TOP TOP TOP PLUS BOT TOP BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT TOP BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP BOT

[T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [I/D] [I/D] [A/T] [A/T] [A/C] [A/C] [A/C] [C/G] [A/T] [D/I] [T/G] [A/G] [T/G] [T/C] [A/G] [A/C] [G/C] [T/C] [G/C] [A/C] [A/G] [A/G] [A/G] [T/G] [A/G] [A/G] [A/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/G] [A/C] [T/C] [T/G] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C]


51346833 51354217 51354217 51377103 51399440 51399440 51401367 51438171 51497731 51497731 51499343 51499343 51499884 51499884 51572573 51572937 51573281 51576338 51581757 51583100 51592979 51625567 51628824 51651558 51661058 51696847 51712721 51725083 51747940 51975598 52589992 53029008 53055500 53055500 53060045 53403186 53817216 54285734 54649633 54649633 54903713 54946636 55653162 56387689 56588987 56595634 56647898 56840723 56845385 57518979 57518979 57628448 57687399 57687399 57687399 57687399 57723347 57723347 58372879 58389872

SC

M AN U

TE D

chrX_51346833_G_T chrX_51354217_A_G chrX_51354217_A_G chrX_51377103_C_T chrX_51399440_C_T chrX_51399440_C_T chrX_51401367_C_T chrX_51438171_A_G chrX_51497734_INDEL_T chrX_51497734_INDEL_T chrX_51499343_A_T chrX_51499343_A_T chrX_51499884_G_T chrX_51499884_G_T chrX_51572573_A_C chrX_51572937_C_G chrX_51573281_A_T chrX_51576338_INDEL_TTACT chrX_51581757_A_C chrX_51583100_C_T kgp22745451 chrX_51625567_A_G chrX_51628824_A_G chrX_51651558_A_C chrX_51661058_C_G chrX_51696847_A_G chrX_51712721_C_G chrX_51725083_A_C chrX_51747940_A_G chrX_51975598_C_T chrX_52589992_C_T chrX_53029008_A_C chrX_53055500_C_T chrX_53055500_C_T chrX_53060045_A_C chrX_53403186_C_T rs10854983 exm1641307 rs5960321 rs5960321 chrX_54903713_A_G rs5914241 rs17277287 rs12396569 chrX_56588987_C_T rs5913960 chrX_56647898_A_C kgp22798880 rs6611566 rs5915054 rs5915054 rs2982249 rs5915080 rs5915080 rs5915080 rs5915080 chrX_57723347_C_T chrX_57723347_C_T rs3000821 rs5947435

genotype difference Col_16_IF Col_38_CB Col_12_CB Col_33_IF Col_34_IF Col_52_IF Col_34_TS Col_33_IF Col_45_CB Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_59_TS Col_33_IF Col_12_CB Col_33_IF Col_12_IF Col_33_IF Col_16_TS Col_33_IF Col_38_CB Col_52_IF Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_52_CB Col_45_TS Col_33_IF Col_59_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_IF Col_38_IF Col_34_TS Col_12_CB Col_52_IF Col_16_IF Col_33_IF Col_34_TS Col_52_IF Col_16_IF Col_52_TS Col_52_IF Col_12_CB

RI PT


Marker ID

576

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP MINUS TOP BOT TOP BOT MINUS MINUS MINUS TOP TOP TOP BOT MINUS TOP TOP TOP BOT PLUS BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP BOT BOT TOP BOT PLUS BOT BOT BOT TOP BOT BOT TOP TOP MINUS MINUS BOT BOT TOP TOP BOT BOT

[T/C] [C/G] [C/G] [A/G] [D/I] [A/G] [T/C] [A/G] [T/G] [I/D] [I/D] [I/D] [A/G] [A/T] [C/G] [T/C] [I/D] [A/G] [A/G] [A/G] [T/C] [I/D] [T/C] [A/T] [T/C] [T/C] [A/G] [A/C] [A/G] [A/G] [A/C] [A/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [I/D] [T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [A/G] [A/G] [D/I] [D/I] [T/C] [T/C] [A/C] [A/G] [T/C] [T/C]


58534206 62208179 62208179 62223813 62225319 62564993 62662080 62745606 62785865 62805181 62805181 62805181 63137288 63250753 63271277 63272045 63460279 63537783 63568366 63568366 63569727 63576708 63773825 63799402 63831851 63831851 63868650 63868815 63941947 63945068 63953762 63953762 63989204 63989204 63989204 64019485 64048894 64056749 64061341 64096216 64106404 64259559 64330635 64359496 64450412 64450412 64494172 64582681 64588417 64588417 64652535 64652535 64957670 64969492 65003735 65005607 65008875 65089788 65121504 65124301

SC

M AN U TE D

AC C

EP

rs7879695 chrX_62208179_C_G chrX_62208179_C_G rs1582197 chrX_62225319_AAC_INDEL chrX_62564993_C_T chrX_62662080_C_T chrX_62745606_A_G chrX_62785865_A_C chrX_62805181_A_INDEL chrX_62805181_A_INDEL chrX_62805181_A_INDEL chrX_63137288_A_G chrX_63250753_A_T chrX_63271277_C_G chrX_63272045_C_T chrX_63460279_AGA_INDEL chrX_63537783_C_T chrX_63568366_A_G chrX_63568366_A_G chrX_63569727_C_T chrX_63576708_A_INDEL chrX_63773825_A_G chrX_63799402_A_T chrX_63831851_A_G chrX_63831851_A_G chrX_63868650_C_T chrX_63868815_A_C chrX_63941947_A_G chrX_63945068_C_T chrX_63953762_A_C chrX_63953762_A_C chrX_63989204_A_G chrX_63989204_A_G chrX_63989204_A_G chrX_64019485_A_G chrX_64048894_C_T chrX_64056749_A_G chrX_64061341_A_G chrX_64096216_C_T chrX_64106404_C_T rs10126240 chrX_64330635_A_G chrX_64359496_A_INDEL chrX_64450412_A_G chrX_64450412_A_G chrX_64494172_A_G chrX_64582681_G_T chrX_64588417_A_G chrX_64588417_A_G chrX_64652535_A_G chrX_64652535_A_G chrX_64957670_ACCC_INDEL chrX_64969492_AAAG_INDEL chrX_65003735_A_G rs12013547 chrX_65008875_G_T chrX_65089788_A_G chrX_65121504_A_G chrX_65124301_C_T

genotype difference Col_52_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_16_IF Col_38_CB Col_52_CB Col_12_CB Col_12_CB Col_16_IF Col_33_IF Col_33_IF Col_12_CB Col_16_TS Col_38_TS Col_33_CB Col_52_CB Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_52_IF Col_16_CB Col_33_IF Col_33_IF Col_33_IF Col_52_CB Col_16_TS Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_52_IF Col_33_CB Col_33_IF Col_33_IF Col_33_CB Col_52_CB Col_52_IF Col_33_IF Col_12_CB Col_33_TS Col_33_CB Col_38_CB Col_52_IF Col_38_TS Col_45_IF Col_33_CB Col_38_CB Col_12_CB Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF

RI PT


Marker ID

577

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP BOT BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT PLUS TOP TOP BOT TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP BOT

[T/G] [T/C] [T/C] [A/C] [T/C] [T/G] [C/G] [C/G] [C/G] [C/G] [T/C] [T/C] [A/C] [T/C] [T/C] [T/C] [T/C] [A/T] [T/C] [T/C] [T/C] [T/C] [T/C] [I/D] [A/G] [A/G] [G/C] [A/G] [A/G] [A/G] [T/C] [G/C] [A/G] [C/G] [A/G] [A/C] [T/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/G] [T/C] [T/C] [T/G] [T/G] [T/G] [A/G] [T/C] [A/G] [A/C] [A/C] [T/G]


65125042 65179142 65231655 65271688 65280315 65301800 65306658 65306658 65306658 65306658 65306949 65306949 65329887 65338335 65365405 65365405 65365935 65376728 65388585 65388585 65452795 65468516 65503599 65520497 65532178 65557145 65565923 65607994 65679894 65680559 65813960 65814572 65816499 65873045 65913685 66100503 66245886 66256631 66267248 66267248 66271549 66298376 66302821 66307253 66310260 66318768 66318768 66354952 66358966 66382255 66382255 66386085 66386085 66386085 66548980 66576324 66586571 66596289 66596289 66627440

SC

M AN U TE D

AC C

EP

chrX_65125042_G_T chrX_65179142_A_G chrX_65231655_C_T chrX_65271688_G_T rs6624844 chrX_65301800_A_C chrX_65306658_C_G chrX_65306658_C_G chrX_65306658_C_G chrX_65306658_C_G chrX_65306949_A_G chrX_65306949_A_G chrX_65329887_A_C chrX_65338335_A_G chrX_65365405_C_T chrX_65365405_C_T chrX_65365935_C_T chrX_65376728_A_T chrX_65388585_A_G chrX_65388585_A_G chrX_65452795_A_G chrX_65468516_A_G chrX_65503599_A_G chrX_65520497_INDEL_T chrX_65532178_A_G kgp22832788 chrX_65565923_C_G chrX_65607994_A_G chrX_65679894_C_T chrX_65680559_A_G chrX_65813960_C_T chrX_65814572_C_G chrX_65816499_C_T chrX_65873045_C_G chrX_65913685_C_T chrX_66100503_A_C chrX_66245886_A_C chrX_66256631_C_T chrX_66267248_A_G chrX_66267248_A_G chrX_66271549_C_T chrX_66298376_C_T chrX_66302821_A_G chrX_66307253_A_G chrX_66310260_C_T chrX_66318768_C_T chrX_66318768_C_T chrX_66354952_A_G chrX_66358966_G_T chrX_66382255_A_G chrX_66382255_A_G chrX_66386085_G_T chrX_66386085_G_T chrX_66386085_G_T chrX_66548980_A_G chrX_66576324_C_T chrX_66586571_C_T chrX_66596289_A_C chrX_66596289_A_C chrX_66627440_A_C

genotype difference Col_33_IF Col_38_CB Col_34_TS Col_33_IF Col_52_IF Col_38_IF Col_16_CB Col_33_IF Col_34_CB Col_52_IF Col_33_IF Col_12_IF Col_33_IF Col_12_CB Col_38_CB Col_52_IF Col_12_CB Col_33_IF Col_52_CB Col_12_CB Col_52_IF Col_16_IF Col_38_CB Col_33_IF Col_33_IF Col_38_CB Col_52_CB Col_52_CB Col_38_TS Col_08_TS Col_33_IF Col_59_TS Col_33_IF Col_45_CB Col_38_IF Col_12_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_12_CB Col_45_CB Col_16_IF Col_34_IF Col_16_CB Col_38_CB Col_59_TS Col_12_CB Col_52_TS Col_38_CB Col_12_IF Col_16_IF Col_52_IF Col_12_IF Col_33_IF Col_16_TS Col_52_CB Col_33_IF Col_12_IF Col_12_TS

RI PT


Marker ID

578

IlmnStrand

SNP

Chr

MapInfo

BOT BOT TOP TOP TOP TOP TOP PLUS BOT TOP TOP TOP PLUS TOP BOT TOP TOP BOT BOT BOT TOP BOT TOP MINUS TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT TOP BOT TOP TOP BOT BOT BOT TOP MINUS

[T/C] [G/C] [A/C] [A/C] [A/C] [A/C] [A/C] [I/D] [T/A] [A/G] [A/G] [A/C] [D/I] [A/C] [T/C] [A/G] [A/G] [T/C] [T/C] [G/C] [A/G] [T/C] [A/C] [I/D] [C/G] [T/C] [T/C] [T/C] [T/G] [T/G] [T/C] [T/A] [T/A] [T/A] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/C] [A/G] [T/C] [T/C] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/G] [G/C] [T/C] [A/G] [I/D]


66632343 66639848 66640413 66640413 66640413 66640413 66656276 66656940 66673443 66676395 66683678 66707389 66744097 66748355 66765627 66786016 66798111 66812459 66812459 66814465 66828385 66829060 66854931 66865610 66909171 66959642 66972478 66978463 66997948 66997948 67013605 67013859 67013859 67013859 67025123 67077911 67077911 67089063 67102031 67103764 67162053 67169622 67179224 67188222 67191338 67193040 67193040 67197107 67197107 67197107 67199104 67201617 67263293 67289974 67289974 67366518 67374400 67383900 67385808 67399052

SC

M AN U TE D

AC C

EP

chrX_66632343_A_G chrX_66639848_C_G chrX_66640413_A_C chrX_66640413_A_C chrX_66640413_A_C chrX_66640413_A_C chrX_66656276_A_C chrX_66656940_INDEL_T chrX_66673443_A_T chrX_66676395_C_T chrX_66683678_C_T chrX_66707389_G_T chrX_66744097_C_INDEL chrX_66748355_A_C chrX_66765627_A_G chrX_66786016_C_T chrX_66798111_C_T chrX_66812459_C_T chrX_66812459_C_T chrX_66814465_C_G chrX_66828385_A_G chrX_66829060_A_G chrX_66854931_A_C chrX_66865610_A_INDEL chrX_66909171_C_G chrX_66959642_A_G chrX_66972478_C_T chrX_66978463_A_G chrX_66997948_A_C chrX_66997948_A_C chrX_67013605_C_T chrX_67013859_A_T chrX_67013859_A_T chrX_67013859_A_T chrX_67025123_A_G chrX_67077911_A_G chrX_67077911_A_G rs7885198 chrX_67102031_A_G chrX_67103764_A_G chrX_67162053_G_T chrX_67169622_C_T chrX_67179224_C_T chrX_67188222_C_T chrX_67191338_A_C chrX_67193040_A_G chrX_67193040_A_G chrX_67197107_A_G chrX_67197107_A_G chrX_67197107_A_G chrX_67199104_A_G chrX_67201617_A_G rs7888212 chrX_67289974_C_T chrX_67289974_C_T rs5918817 chrX_67374400_C_G chrX_67383900_A_G chrX_67385808_C_T chrX_67399052_CTT_INDEL

genotype difference Col_52_CB Col_33_IF Col_16_IF Col_33_IF Col_38_CB Col_52_IF Col_12_CB Col_38_CB Col_33_IF Col_12_CB Col_12_CB Col_34_IF Col_12_CB Col_38_TS Col_33_CB Col_33_IF Col_52_TS Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_16_CB Col_52_TS Col_12_IF Col_33_IF Col_16_IF Col_33_CB Col_12_IF Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_38_CB Col_34_TS Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_38_TS Col_12_TS Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_34_CB Col_33_IF Col_12_CB Col_16_IF Col_33_IF Col_38_CB

RI PT


Marker ID

579

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT TOP BOT MINUS TOP TOP TOP BOT TOP TOP BOT BOT TOP TOP BOT TOP TOP TOP TOP BOT TOP BOT BOT BOT TOP BOT BOT BOT TOP TOP TOP TOP BOT TOP BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP

[A/G] [A/G] [T/C] [A/G] [T/C] [I/D] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/G] [T/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/G] [T/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [A/C] [A/C] [T/C] [T/G] [T/G] [T/C] [T/G] [A/G] [T/C] [A/G] [T/G] [T/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G]


67460074 67460074 67496002 67804565 67859571 67878356 67893314 67897904 68160546 68694474 68741836 68913367 68951250 68951250 69023243 69023243 69242081 69290070 69564215 69572504 69704125 69774548 69871769 70080295 70108247 70108247 70133683 70142581 70142581 70142581 70143597 70201767 70436987 70868591 70879082 71379777 71530701 71725755 71881237 72228285 72279433 72279433 72296071 72426879 72552727 72808248 72901739 72932228 72932228 73224352 73514687 73559752 73559752 73891713 73999821 73999821 73999821 74330296 74345938 74345938

SC

M AN U TE D

AC C

EP

chrX_67460074_A_G chrX_67460074_A_G chrX_67496002_C_T chrX_67804565_C_T chrX_67859571_A_G chrX_67878356_A_INDEL chrX_67893314_C_T chrX_67897904_C_T chrX_68160546_A_G rs5937244 chrX_68741836_A_G rs7890121 kgp22772833 kgp22772833 chrX_69023243_C_T chrX_69023243_C_T rs5980892 rs12007284 chrX_69564215_A_G exm1644384 rs12854192 exm1644597 chrX_69871769_C_T rs6625698 chrX_70108247_A_C chrX_70108247_A_C chrX_70133683_A_G rs4844279 rs4844279 rs4844279 chrX_70143597_C_T chrX_70201767_A_G chrX_70436987_C_T chrX_70868591_A_G chrX_70879082_C_T exm1645732 chrX_71530701_A_G chrX_71725755_A_C rs7051006 rs3130884 chrX_72279433_A_C chrX_72279433_A_C rs17265553 rs2362987 rs1592772 kgp22768997 rs12559655 chrX_72932228_A_C chrX_72932228_A_C rs1243755 chrX_73514687_A_G rs1263248 rs1263248 rs5981675 rs5981301 rs5981301 rs5981301 rs5937944 rs2153814 rs2153814

genotype difference Col_33_IF Col_52_CB Col_33_IF Col_16_CB Col_12_CB Col_33_CB Col_33_CB Col_16_TS Col_12_CB Col_33_CB Col_12_CB Col_33_IF Col_33_IF Col_34_IF Col_52_IF Col_12_CB Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_38_CB Col_16_CB Col_38_IF Col_33_IF Col_33_IF Col_34_CB Col_52_IF Col_33_IF Col_38_IF Col_33_CB Col_16_IF Col_33_IF Col_16_TS Col_34_IF Col_33_IF Col_33_IF Col_52_IF Col_16_CB Col_52_CB Col_38_IF Col_52_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_38_CB Col_52_IF Col_12_TS Col_45_CB Col_52_IF Col_12_IF Col_33_IF Col_16_IF Col_59_TS

RI PT


Marker ID

580

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP BOT BOT BOT TOP TOP BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP BOT BOT TOP TOP TOP TOP BOT

[T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [T/G] [A/C] [T/C] [T/C] [G/C] [T/G] [T/C] [T/C] [T/G] [T/G] [T/G] [A/C] [A/G] [A/G] [T/C] [A/G] [A/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/C] [A/C] [A/C] [A/C] [A/C] [A/G] [T/G] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/G]


74438998 74843150 75340588 75569644 75573122 75683986 75848727 75956506 75972365 76340985 76358824 76462999 76593233 76946434 76946434 77202042 77260840 77379935 77476591 77492338 77505481 77505481 77606210 77711036 77711036 78349526 78362719 78559535 78587795 78596496 78601102 78649193 78651246 78670840 78703371 78703371 78703371 78703371 78817919 78904591 78960253 78991261 79075329 79089159 79089159 79167277 79231674 79342388 79356035 79425402 79425402 79485731 79485952 79523542 79564426 79749251 79970865 80126603 80298883 80394256

SC

M AN U TE D

AC C

EP

kgp22751840 rs4892411 rs12008464 rs5937530 rs1910445 rs5981470 chrX_75848727_C_T rs234249 rs966660 kgp22743424 chrX_76358824_A_G chrX_76462999_A_C chrX_76593233_A_C kgp31030815 kgp31030815 chrX_77202042_C_G chrX_77260840_A_C rs717689 rs5959138 chrX_77492338_G_T chrX_77505481_G_T chrX_77505481_G_T chrX_77606210_G_T chrX_77711036_A_G chrX_77711036_A_G chrX_78349526_C_T chrX_78362719_A_G rs1736673 rs13441063 rs1736646 rs1751107 rs1474563 rs12559773 rs5959348 rs6615881 rs6615881 rs6615881 rs6615881 rs7879572 chrX_78904591_G_T rs1496194 kgp22808682 rs3098478 rs5958957 rs5958957 rs6621129 rs73241426 rs1005295 rs6621690 rs6621796 rs6621796 rs2082350 kgp22793553 chrX_79523542_A_G rs4498691 rs12006996 chrX_79970865_C_T rs12845101 rs1166680 chrX_80394256_A_C

genotype difference Col_33_IF Col_33_IF Col_34_IF Col_33_CB Col_38_TS Col_59_IF Col_33_IF Col_16_TS Col_33_IF Col_12_CB Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_12_TS Col_52_IF Col_33_IF Col_33_IF Col_59_TS Col_38_CB Col_33_IF Col_52_CB Col_12_CB Col_38_TS Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_12_TS Col_52_CB Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_38_IF Col_52_IF Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_33_IF Col_52_CB Col_33_IF Col_16_TS Col_33_IF Col_34_TS Col_16_IF Col_52_CB Col_33_IF Col_33_IF Col_38_CB Col_16_TS Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB

RI PT


Marker ID

581

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT TOP TOP BOT TOP TOP BOT TOP BOT TOP TOP TOP BOT BOT BOT TOP BOT TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP TOP TOP BOT BOT TOP BOT BOT BOT TOP BOT TOP TOP BOT

[A/G] [T/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/A] [T/A] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G] [A/C] [T/C] [A/G] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/C] [T/G] [A/G] [T/G] [T/G] [G/C] [G/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/C] [T/G] [T/G] [T/C] [A/G] [T/G] [A/G] [A/C] [T/C]


80855919 81186814 81236016 81236016 81243685 81552545 81577474 81592627 81988941 81988941 82064591 82064591 82264785 82724989 82854962 82871195 82959062 82985042 82985042 82985042 83130202 83319767 83523916 83563695 83741593 83745901 83770931 83788791 83857664 84184293 84184293 84686012 84686012 84686012 84969510 85072282 85106265 85163876 85163876 85283775 85283775 85300759 85748294 85754664 85818787 85886924 85924196 85971578 86021185 86187124 86193988 86360122 86527294 86527294 86550046 86563949 86587300 86623256 86667733 86770350

SC

M AN U TE D

AC C

EP

rs5912534 kgp31156696 rs1731373 rs1731373 kgp22795357 chrX_81552545_C_T rs717819 kgp22826106 chrX_81988941_A_T chrX_81988941_A_T rs5968022 rs5968022 rs4828210 rs213451 rs5968193 rs5922838 rs7060133 rs5968212 rs5968212 rs5968212 rs5922001 chrX_83319767_A_C rs11796793 rs724981 kgp22828260 chrX_83745901_A_G chrX_83770931_A_G rs11798633 chrX_83857664_C_T chrX_84184293_A_G chrX_84184293_A_G rs6617055 rs6617055 rs6617055 rs3116785 rs12008641 rs1013033 rs1006924 rs1006924 chrX_85283775_C_G chrX_85283775_C_G rs1883795 rs4828389 rs5923544 rs5923562 rs6623743 rs7882392 rs1883666 rs5968986 rs4828401 rs5967770 chrX_86360122_G_T chrX_86527294_A_C chrX_86527294_A_C rs1589075 rs5923956 rs5923967 rs6623997 chrX_86667733_A_C chrX_86770350_A_G

genotype difference Col_33_IF Col_12_TS Col_52_IF Col_12_IF Col_33_IF Col_33_IF Col_34_CB Col_12_CB Col_34_CB Col_38_IF Col_16_IF Col_59_TS Col_33_IF Col_16_TS Col_12_CB Col_33_IF Col_33_IF Col_38_CB Col_52_IF Col_12_IF Col_16_IF Col_33_IF Col_33_IF Col_52_TS Col_52_IF Col_33_IF Col_33_IF Col_38_TS Col_52_IF Col_33_IF Col_52_IF Col_16_TS Col_33_IF Col_52_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_52_IF Col_16_TS Col_33_IF Col_52_IF Col_52_IF Col_33_IF Col_12_CB Col_16_IF Col_59_TS Col_38_TS Col_33_TS Col_12_CB Col_33_IF Col_16_TS Col_16_IF Col_52_IF Col_33_IF Col_33_CB Col_33_IF Col_52_IF Col_33_IF Col_33_IF

RI PT


Marker ID

582

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT

[A/G] [T/C] [A/C] [T/C] [T/C] [A/C] [A/C] [T/C] [T/C] [T/C] [T/C] [T/A] [C/G] [C/G] [A/G] [A/G] [A/T] [T/C] [T/G] [T/G] [T/G] [T/G] [T/G] [T/C] [A/G] [A/C] [A/C] [A/G] [A/C] [A/G] [A/G] [A/G] [A/C] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [A/G] [A/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C]


86922086 87193822 87317611 87381304 87399741 87452794 87686747 87755026 87815849 87934140 87991878 88008785 88009170 88009170 88016285 88078879 88487770 88711150 88772675 88772675 88772675 88876865 88876865 89078553 89662079 89979101 89979101 89999752 90538872 90624514 90624514 90624514 90992315 91029438 91063807 91162118 91445423 91456393 91456393 91461938 91483968 91490925 91504606 91522337 91677165 91951616 91963085 92087478 92087478 92529428 92529428 92581348 92594352 92620062 92881638 92881824 92964617 93088113 93178157 93181586

SC

M AN U TE D

AC C

EP

rs222113 rs11092988 rs9887236 rs17279526 rs5969457 rs5924244 chrX_87686747_G_T rs7392297 chrX_87815849_A_G rs16981346 chrX_87991878_C_T exm1648504 exm1648516 exm1648516 kgp22835911 rs3128261 chrX_88487770_A_T chrX_88711150_A_G rs2534039 rs2534039 rs2534039 chrX_88876865_A_C chrX_88876865_A_C rs5941370 kgp22803046 chrX_89979101_G_T chrX_89979101_G_T chrX_89999752_A_G rs5984706 chrX_90624514_A_G chrX_90624514_A_G chrX_90624514_A_G chrX_90992315_A_C chrX_91029438_G_T rs12858374 rs2524594 chrX_91445423_A_G exm1648646 exm1648646 rs5942157 rs418001 chrX_91490925_A_C rs6652627 rs12557070 chrX_91677165_C_T rs5942313 kgp22757397 chrX_92087478_A_G chrX_92087478_A_G rs6619260 rs6619260 chrX_92581348_A_C rs6619280 rs12013377 chrX_92881638_A_G rs1326175 chrX_92964617_A_G rs6615563 rs16983758 rs12156716

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_CB Col_59_TS Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_16_IF Col_16_TS Col_33_IF Col_33_IF Col_16_TS Col_38_IF Col_52_CB Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_16_CB Col_52_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_33_IF Col_52_IF Col_12_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_38_CB Col_16_IF Col_12_CB Col_38_TS Col_12_CB Col_08_TS Col_12_CB Col_52_IF Col_33_IF Col_33_IF Col_38_CB Col_16_IF Col_33_IF Col_33_IF

RI PT


Marker ID

583

IlmnStrand

SNP

Chr

MapInfo

TOP BOT BOT TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP BOT BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP

[A/G] [T/C] [T/C] [A/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/G] [T/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/G] [T/C] [T/C] [A/G] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/C]


93457415 93472052 93477824 93605273 93661161 93661161 93707260 93707260 93707260 93719167 93794701 93900793 93900793 94036285 94159202 94159202 94159202 94193068 94293196 94298338 94862551 95039810 95155798 95160998 95169651 95169651 95241956 95243787 95303337 95303337 95389644 95389644 95670034 95721436 95807322 95807322 95838889 96084008 96162702 96296581 96372415 96372415 96377158 96403120 96441493 96441828 96441828 96505188 96544128 96544128 96544128 96547901 96547901 96759595 96932550 97008577 97008577 97398789 97398789 97691040

SC

M AN U TE D

AC C

EP

rs808774 rs213678 rs213684 rs1577365 rs2799854 rs2799854 chrX_93707260_C_T chrX_93707260_C_T chrX_93707260_C_T rs1361913 rs7890123 chrX_93900793_A_C chrX_93900793_A_C rs6619631 rs6522853 rs6522853 rs6522853 chrX_94193068_A_G chrX_94293196_C_T chrX_94298338_G_T rs12388803 rs5949639 rs5949697 rs16981962 chrX_95169651_A_G chrX_95169651_A_G chrX_95241956_A_G rs4969656 corect_rs116259720 corect_rs116259720 kgp22807280 kgp22807280 chrX_95670034_A_C rs7879223 rs4969676 rs4969676 rs5949419 chrX_96084008_G_T rs829294 chrX_96296581_A_G rs600455 rs600455 chrX_96377158_A_G rs1886893 rs2209550 kgp22752557 kgp22752557 chrX_96505188_C_T chrX_96544128_A_G chrX_96544128_A_G chrX_96544128_A_G rs5921769 rs5921769 rs2104687 rs5967345 rs2170314 rs2170314 rs2890349 rs2890349 rs952496

genotype difference Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_45_IF Col_52_CB Col_16_IF Col_33_IF Col_12_IF Col_38_CB Col_38_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_52_CB Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_52_IF Col_52_CB Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_16_IF Col_38_CB Col_33_IF Col_52_IF Col_38_CB Col_12_IF Col_16_IF Col_52_IF Col_52_TS Col_33_IF Col_33_CB Col_16_IF Col_38_CB Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_08_CB Col_33_IF Col_12_CB Col_33_IF Col_34_CB Col_33_IF Col_33_IF Col_16_IF Col_12_CB Col_52_IF Col_12_CB Col_33_IF

RI PT


Marker ID

584

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT TOP PLUS BOT TOP BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT TOP

[T/C] [T/C] [T/C] [A/G] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [A/G] [I/D] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/A] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/C] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [T/G] [T/C] [T/C] [T/C] [A/G]


97708809 97740108 97749158 97761493 97761493 97767953 97898625 97898625 97898625 97898625 97957071 97992057 97994496 97996770 98004532 98004532 98013835 98013835 98014615 98040684 98042841 98042841 98044754 98044754 98045040 98050401 98050401 98054486 98054869 98054869 98054869 98054896 98054896 98061640 98061640 98144557 98223360 98236099 98243321 98323227 98323227 98323227 98427439 98427439 98427439 98429007 98429007 98445396 98445396 98585186 98587334 98599310 98599310 98614411 98647112 98712330 99088625 99104091 99104091 99115863

SC

M AN U TE D

AC C

EP

rs1933800 rs6620509 chrX_97749158_A_G rs5921114 rs5921114 rs6523198 chrX_97898625_C_T chrX_97898625_C_T chrX_97898625_C_T chrX_97898625_C_T rs1041884 chrX_97992065_A_INDEL rs241852 chrX_97996770_C_T chrX_98004532_C_T chrX_98004532_C_T chrX_98013835_C_T chrX_98013835_C_T rs875494 chrX_98040684_C_T chrX_98042841_A_G chrX_98042841_A_G chrX_98044754_A_G chrX_98044754_A_G chrX_98045040_C_T chrX_98050401_A_G chrX_98050401_A_G chrX_98054486_C_T chrX_98054869_A_G chrX_98054869_A_G chrX_98054869_A_G chrX_98054896_A_G chrX_98054896_A_G chrX_98061640_A_G chrX_98061640_A_G chrX_98144557_A_T rs2498867 rs2498878 chrX_98243321_A_G chrX_98323227_C_T chrX_98323227_C_T chrX_98323227_C_T chrX_98427439_C_T chrX_98427439_C_T chrX_98427439_C_T chrX_98429007_A_C chrX_98429007_A_C chrX_98445396_A_G chrX_98445396_A_G chrX_98585186_A_G kgp22744219 chrX_98599310_C_T chrX_98599310_C_T chrX_98614411_C_T chrX_98647112_A_G chrX_98712330_G_T chrX_99088625_A_G rs5921397 rs5921397 chrX_99115863_C_T

genotype difference Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_38_IF Col_33_TS Col_38_CB Col_52_IF Col_59_TS Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_52_IF Col_33_IF Col_12_TS Col_33_IF Col_12_IF Col_33_IF Col_52_IF Col_08_TS Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_59_TS Col_45_CB Col_52_IF Col_59_TS Col_16_IF Col_59_TS Col_16_TS Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_38_CB Col_52_IF Col_59_TS Col_16_IF Col_52_CB Col_12_CB Col_33_IF Col_12_CB Col_38_CB Col_52_IF Col_33_IF Col_33_IF Col_33_CB Col_52_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_38_IF Col_52_TS Col_52_CB

RI PT


Marker ID

585

IlmnStrand

SNP

Chr

MapInfo

TOP TOP BOT BOT TOP TOP BOT BOT TOP BOT BOT BOT TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT TOP BOT BOT TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP TOP BOT TOP TOP BOT BOT BOT BOT

[A/G] [A/G] [T/C] [G/C] [C/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/A] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/T] [A/T] [A/T] [A/G] [T/G] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [A/C] [T/C] [T/G] [A/G] [T/C] [T/C] [A/G] [A/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C]


99197326 99620990 100078029 100079227 100154531 100477860 100931969 101036576 101108990 101243266 101362769 102191083 102247233 102440171 102443308 102449976 102449976 102862129 102881454 102885649 102885649 102885649 102930960 103098923 103117881 103591309 103820950 103895921 103895921 103895921 103927653 104106712 104106712 104375253 104587776 104664336 104782637 104973602 104984989 105012496 105012496 105152282 105935561 106234343 107296894 107296894 107625088 107625088 107849336 107849336 107978325 108786314 108787973 109296696 109515694 109537062 110015041 110757014 110757014 110767125

SC

M AN U TE D

AC C

EP

chrX_99197326_C_T chrX_99620990_C_T rs929082 chrX_100079227_C_G chrX_100154531_C_G rs5921753 rs2885447 chrX_101036576_C_T rs5944875 rs6616323 corect_rs185842975 rs5987498 rs5987653 chrX_102440171_A_G rs5987697 rs12009331 rs12009331 rs7892745 rs2057099 chrX_102885649_A_T chrX_102885649_A_T chrX_102885649_A_T rs874 chrX_103098923_A_C chrX_103117881_A_C chrX_103591309_A_G kgp22763237 rs7879244 rs7879244 rs7879244 rs5916817 rs5917157 rs5917157 rs5916724 chrX_104587776_A_G chrX_104664336_A_C rs7877795 rs7891511 kgp22825332 chrX_105012496_C_T chrX_105012496_C_T rs209373 rs5962356 chrX_106234343_A_G rs6622289 rs6622289 rs16985465 rs16985465 rs17326911 rs17326911 exm1652795 rs5943382 rs1321289 rs5985439 kgp31162080 rs3788769 rs4893460 rs7879724 rs7879724 rs6420638

genotype difference Col_33_IF Col_33_IF Col_12_CB Col_33_CB Col_38_TS Col_52_IF Col_33_CB Col_33_IF Col_38_TS Col_12_CB Col_38_CB Col_34_TS Col_52_IF Col_38_TS Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_38_TS Col_08_TS Col_34_TS Col_38_CB Col_38_CB Col_38_TS Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_34_CB Col_52_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_12_IF Col_33_IF Col_52_IF Col_59_TS Col_12_CB Col_33_IF Col_16_TS Col_52_IF Col_16_IF Col_45_TS Col_52_IF Col_59_TS Col_33_IF Col_33_IF Col_33_CB Col_34_CB Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_52_IF Col_33_IF

RI PT


Marker ID

586

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP BOT TOP TOP BOT BOT TOP BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT TOP BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP PLUS TOP TOP BOT BOT BOT TOP TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT BOT BOT BOT

[A/G] [T/C] [A/C] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [C/G] [A/G] [A/G] [A/G] [A/T] [T/C] [T/C] [A/G] [G/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [T/C] [T/C] [T/C] [T/C] [A/G] [I/D] [C/G] [A/G] [T/C] [T/A] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/G] [T/G] [T/C] [T/G] [T/C]


110856589 111000850 112276706 112406536 112472113 112472113 112531076 112675693 112770265 112791268 112858100 112954773 112954773 112954773 113078912 113133997 113133997 113180737 113226008 113371827 113371827 113387991 113387991 113573031 113594520 113635884 113635884 113768869 113790147 114083625 114083625 114083625 114083625 114278938 114381466 115017665 115080417 115302192 115356095 115475543 115525023 115525023 115585601 115611387 115667761 115753330 115756177 115976900 115976900 115986516 115986516 116035972 116040913 116142263 116142263 116402017 116402017 116573666 116817147 117521338

SC

M AN U

TE D

rs9943026 exm1653568 chrX_112276706_G_T rs3125982 rs7471802 rs7471802 rs9320065 chrX_112675693_A_G rs2369732 chrX_112791268_A_G chrX_112858100_C_G rs17174202 rs17174202 rs17174202 chrX_113078912_A_T rs3007174 rs3007174 rs5974183 chrX_113226008_C_G rs5929437 rs5929437 rs7062059 rs7062059 chrX_113573031_A_G rs6643887 chrX_113635884_A_G chrX_113635884_A_G rs1401414 rs12560109 rs4272555 rs4272555 rs4272555 rs4272555 rs5988207 chrX_114381466_ACATAC_INDEL chrX_115017665_C_G rs5950619 chrX_115302192_A_G chrX_115356095_A_T rs5905267 chrX_115525023_A_G chrX_115525023_A_G exm1654299 rs5905294 rs5905346 rs10907035 rs12557454 rs7052457 rs7052457 rs5910369 rs5910369 rs5956097 chrX_116040913_A_G rs7886259 rs7886259 rs2840710 rs2840710 rs5911865 rs4825530 rs17318100

genotype difference Col_52_IF Col_52_TS Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_08_CB Col_33_IF Col_16_IF Col_38_TS Col_59_TS Col_33_IF Col_16_IF Col_12_IF Col_59_TS Col_33_IF Col_16_TS Col_12_CB Col_08_CB Col_16_IF Col_33_IF Col_33_IF Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_08_IF Col_16_IF Col_33_IF Col_12_CB Col_16_IF Col_33_IF Col_38_TS Col_34_IF Col_33_IF Col_38_CB Col_52_CB Col_33_IF Col_34_CB Col_12_CB Col_38_CB Col_08_TS Col_33_IF Col_12_CB Col_52_IF Col_12_CB Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_16_IF Col_33_CB Col_34_TS Col_52_CB Col_33_IF Col_34_CB Col_33_IF

RI PT


Marker ID

587

IlmnStrand

SNP

Chr

MapInfo

BOT BOT BOT BOT BOT BOT TOP TOP BOT BOT TOP TOP TOP BOT BOT BOT TOP BOT BOT TOP BOT TOP TOP BOT TOP BOT TOP TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP BOT TOP BOT TOP TOP BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT BOT TOP TOP

[T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [A/G] [T/C] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/G] [T/G] [A/G] [T/A] [A/T] [A/C] [T/C] [A/G] [T/C] [A/G] [A/C] [T/C] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [T/C] [T/C] [T/A] [A/G] [T/C] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/C] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/C] [A/C]


117622214 117622214 117715203 117952655 117952655 118419194 118579284 118849495 118859055 118966701 119116754 119116754 119387688 119449953 119449953 119829873 120125545 120247463 120247463 120477020 120631657 120880356 120895123 121084702 121300517 121349797 121532885 121565206 121606469 121606469 121760310 121992913 122021926 122021926 122060570 122226268 122280170 122471412 122557548 122561357 122594354 122675638 122688557 123187984 123315379 123315379 123449683 124186438 124239354 124255514 124255514 124276645 124416058 124504968 124594348 124669231 124669231 124720741 124749542 124749542

SC

M AN U TE D

AC C

EP

rs1294790 rs1294790 rs1294808 rs261676 rs261676 rs9988376 rs403558 rs11797876 chrX_118859055_C_T chrX_118966701_A_C rs7063278 rs7063278 exm1655425 chrX_119449953_A_G chrX_119449953_A_G corect_rs112442486 rs4825738 chrX_120247463_G_T chrX_120247463_G_T rs5957660 chrX_120631657_A_T chrX_120880356_A_T rs2507282 rs1601859 rs5957911 rs12010609 rs1988741 rs2622939 rs11260382 rs11260382 rs1349916 chrX_121992913_C_T chrX_122021926_A_G chrX_122021926_A_G rs766843 rs4825828 rs4553044 chrX_122471412_A_T rs602086 rs651595 rs5958240 chrX_122675638_A_G rs17325366 rs6608141 rs1846322 rs1846322 rs12557797 chrX_124186438_A_G rs16998315 rs16998329 rs16998329 rs2213485 rs6655850 rs1034434 rs5931774 rs1841135 rs1841135 rs2213355 rs2819540 rs2819540

genotype difference Col_33_IF Col_12_CB Col_33_IF Col_38_IF Col_45_IF Col_52_IF Col_16_CB Col_12_TS Col_33_IF Col_33_IF Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_12_CB Col_38_TS Col_33_IF Col_08_IF Col_52_IF Col_16_IF Col_12_CB Col_33_IF Col_38_TS Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_34_IF Col_12_IF Col_38_TS Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_12_IF Col_38_CB Col_12_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_38_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_38_TS Col_38_IF Col_52_IF

RI PT


Marker ID

588

IlmnStrand

SNP

Chr

MapInfo

BOT TOP BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP TOP BOT BOT TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP BOT BOT BOT BOT BOT TOP BOT BOT BOT TOP TOP BOT TOP TOP TOP TOP TOP BOT BOT TOP TOP BOT BOT BOT BOT BOT TOP BOT BOT TOP TOP TOP BOT BOT

[T/C] [A/C] [T/C] [A/C] [A/C] [A/G] [T/C] [A/C] [A/G] [T/A] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/C] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [A/C] [T/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [T/C] [T/C] [A/C] [A/C] [T/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/G] [T/G] [A/G] [A/C] [T/C] [T/C] [T/C] [T/G] [T/G] [A/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/G] [T/G]


124896835 124942286 125128432 125140381 125140381 125468675 125503099 125523927 125548558 125672280 125903600 125903600 125960729 125960876 125977091 126110699 126249850 126358564 126615914 126706446 126706446 126706446 127130606 127139593 127452799 127464671 127466400 127589381 127948120 128123968 128132425 128268623 128272951 128884155 129335721 129349295 129349295 129603836 129942892 129942892 129958396 130285426 130285426 130400308 130400308 130431286 130719077 130781153 131177457 131335534 132203377 132203377 132340069 132343448 132442315 132448938 132484104 132557734 133379287 133379287

SC

M AN U TE D

AC C

EP

rs5932706 rs5932762 rs209629 rs639 rs639 rs5929678 rs5975657 rs5930921 chrX_125548558_A_G rs2500195 chrX_125903600_A_G chrX_125903600_A_G rs12557112 rs6636085 rs3131425 rs5931793 rs11096073 rs423613 chrX_126615914_C_T chrX_126706446_C_T chrX_126706446_C_T chrX_126706446_C_T rs5932280 chrX_127139593_C_T chrX_127452799_G_T rs2479096 rs171259 rs5932435 chrX_127948120_A_G rs12688007 chrX_128132425_C_T rs2027862 rs763070 rs12690359 rs626362 rs209238 rs209238 rs5977296 rs7878825 rs7878825 kgp22789523 rs5932853 rs5932853 rs6637820 rs6637820 chrX_130431286_A_G rs5930493 rs859866 rs4579676 rs7049577 chrX_132203377_A_C chrX_132203377_A_C chrX_132340069_G_T chrX_132343448_A_G chrX_132442315_A_G chrX_132448938_A_G chrX_132484104_A_G kgp22802181 chrX_133379287_G_T chrX_133379287_G_T

genotype difference Col_33_IF Col_33_IF Col_38_CB Col_16_TS Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_52_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_16_TS Col_52_CB Col_33_CB Col_38_TS Col_52_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_16_IF Col_33_IF Col_38_IF Col_33_IF Col_33_CB Col_33_IF Col_33_IF Col_33_IF Col_59_TS Col_38_CB Col_52_CB Col_52_TS Col_33_IF Col_34_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_IF Col_12_CB Col_33_IF Col_33_TS Col_33_IF Col_52_IF Col_52_CB Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_12_CB Col_33_IF Col_12_IF

RI PT


Marker ID

589

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP BOT TOP BOT BOT BOT TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT TOP TOP BOT TOP TOP TOP BOT BOT BOT TOP BOT BOT BOT PLUS BOT TOP BOT BOT TOP BOT BOT TOP TOP TOP BOT BOT TOP BOT BOT TOP TOP BOT BOT TOP BOT BOT TOP TOP BOT BOT

[A/G] [A/G] [A/C] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [A/G] [A/C] [A/G] [A/C] [T/A] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [T/G] [T/G] [G/C] [A/G] [T/C] [T/G] [T/G] [I/D] [T/G] [A/C] [T/C] [T/C] [A/C] [T/C] [T/G] [A/G] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [A/G] [T/C] [T/C] [A/G] [T/C] [T/C] [A/G] [C/G] [T/C] [T/C]


133599629 133599629 133699960 133963268 134035125 134302722 134707883 135066470 135416441 135786242 136203759 136274324 136451975 136678572 136763395 137334802 137334802 137459674 137660928 137660928 137901986 137952223 137994454 138076940 138076940 138261492 138439843 138439843 138687922 139329818 139654482 139703772 139703772 139822838 139943799 139944992 140230896 140230896 140449638 140559503 140841146 140884306 140957618 141099094 141181177 141590594 141614142 141629075 141633411 141668459 141693165 142158305 142158305 142222028 142224230 142241362 142275122 142277858 142278309 142278309

SC

M AN U TE D

AC C

EP

rs6638241 rs6638241 chrX_133699960_G_T exm1658343 rs1894517 rs7062590 exm1658563 chrX_135066470_C_T rs6654158 rs10126808 chrX_136203759_A_C rs1111099 chrX_136451975_A_C chrX_136678572_A_T rs5975975 rs5929909 rs5929909 rs5931398 chrX_137660928_C_T chrX_137660928_C_T rs5931498 rs6528568 rs560944 rs2021830 rs2021830 rs12392810 rs5931627 rs5931627 exm1659735 rs667002 rs6528717 rs6528729 rs6528729 chrX_139822838_AA_INDEL rs6634206 rs5953533 rs1016824 rs1016824 rs844959 kgp30963788 chrX_140841146_G_T rs12009454 chrX_140957618_C_T chrX_141099094_C_T rs5908146 rs6636709 chrX_141614142_C_T rs5954698 chrX_141633411_A_G rs5908371 rs5953745 rs5908530 rs5908530 chrX_142222028_C_T rs5908564 chrX_142241362_A_G chrX_142275122_A_G chrX_142277858_C_G chrX_142278309_C_T chrX_142278309_C_T

genotype difference Col_33_CB Col_12_IF Col_33_IF Col_33_IF Col_38_TS Col_52_IF Col_12_CB Col_33_IF Col_33_IF Col_38_IF Col_12_IF Col_12_IF Col_59_TS Col_34_CB Col_33_IF Col_16_CB Col_33_IF Col_33_IF Col_33_IF Col_38_CB Col_12_IF Col_33_IF Col_33_IF Col_33_IF Col_34_IF Col_33_IF Col_38_IF Col_52_IF Col_52_TS Col_12_CB Col_12_IF Col_16_TS Col_33_IF Col_33_CB Col_34_IF Col_33_CB Col_16_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_CB Col_33_IF Col_12_CB Col_12_CB Col_16_CB Col_59_TS Col_34_IF Col_33_IF Col_38_IF Col_12_IF Col_16_IF Col_16_CB Col_33_IF Col_16_TS Col_52_IF Col_52_IF Col_12_CB

RI PT


Marker ID

590

IlmnStrand

SNP

Chr

MapInfo

BOT TOP TOP TOP BOT TOP TOP TOP TOP BOT BOT BOT BOT TOP TOP TOP BOT TOP TOP BOT BOT BOT TOP BOT TOP BOT BOT TOP BOT BOT TOP TOP TOP TOP TOP TOP TOP TOP TOP TOP BOT TOP BOT BOT BOT BOT BOT BOT TOP TOP TOP TOP TOP BOT BOT BOT BOT TOP BOT TOP

[T/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [T/G] [A/G] [T/G] [T/G] [A/G] [T/C] [T/C] [A/G] [A/T] [A/T] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [A/C] [A/C] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [A/G] [T/C] [A/G]


142307467 142307629 142307629 142607397 142695326 142747496 142747496 142756404 142756404 142769077 142956096 143107057 143308705 143320589 143320589 143364083 143400269 143406787 143406787 143456672 143757890 143828652 143923730 143949304 144071710 144095697 144095697 144150821 144249724 144249724 144309114 144398766 144398766 144578085 144797364 144827721 144827721 144915235 144915235 145109744 145235723 145599538 145605893 145608730 145608730 145744293 145882738 145905262 146072687 146092051 146092051 146101287 146145504 146201687 146450919 146581262 146670112 146673013 146675282 146709130

SC

M AN U TE D

AC C

EP

chrX_142307467_G_T chrX_142307629_A_G chrX_142307629_A_G rs5907429 rs5953859 chrX_142747496_A_G chrX_142747496_A_G rs4825172 rs4825172 rs6637065 rs237496 rs2500129 rs5953936 rs708583 rs708583 rs9306817 chrX_143400269_C_T rs5908964 rs5908964 rs5955332 rs2742596 rs11094371 rs5966279 rs1736865 rs5920385 rs6627040 rs6627040 rs5920423 rs491117 rs491117 chrX_144309114_C_T chrX_144398766_A_T chrX_144398766_A_T rs1454685 chrX_144797364_C_T chrX_144827721_A_G chrX_144827721_A_G rs4827661 rs4827661 rs12848113 chrX_145235723_C_T rs5966232 chrX_145605893_C_T rs6626622 rs6626622 rs5920253 rs7884388 rs5920315 chrX_146072687_C_T corect_rs142842115 corect_rs142842115 rs6525803 rs12842738 rs5904699 rs4588990 rs612561 rs5904750 rs2761608 chrX_146675282_C_T rs16994248

genotype difference Col_33_IF Col_52_IF Col_12_IF Col_33_IF Col_33_CB Col_33_IF Col_52_TS Col_16_IF Col_59_TS Col_33_IF Col_12_CB Col_52_IF Col_33_IF Col_16_IF Col_38_CB Col_33_IF Col_33_IF Col_38_TS Col_52_IF Col_38_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_12_CB Col_52_IF Col_12_IF Col_52_IF Col_33_IF Col_12_CB Col_33_IF Col_33_IF Col_38_IF Col_33_IF Col_33_IF Col_16_IF Col_38_CB Col_33_IF Col_52_TS Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_IF Col_12_IF Col_52_CB Col_12_IF Col_33_IF Col_38_CB Col_33_IF Col_33_IF Col_33_IF Col_12_CB Col_16_CB Col_33_IF Col_33_IF

RI PT


Marker ID

591

AC C

EP

IlmnStrand

SNP

Chr

MapInfo

TOP TOP TOP TOP TOP BOT BOT PLUS TOP BOT TOP TOP TOP TOP BOT TOP BOT BOT BOT TOP TOP TOP BOT BOT BOT BOT BOT BOT TOP BOT TOP TOP TOP TOP TOP BOT TOP TOP TOP TOP BOT BOT BOT TOP TOP

[A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [D/I] [A/G] [T/G] [A/G] [A/G] [A/C] [A/G] [T/C] [C/G] [T/C] [T/C] [T/C] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [T/C] [T/C] [T/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [A/G] [T/C] [A/G] [A/G] [A/G] [A/G] [T/C] [T/C] [T/C] [A/G] [A/G]

X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X X XY XY XY XY XY XY XY Y

147006725 147006725 147038507 147038507 147088249 147590136 147661887 147721477 147778631 148127596 148129541 148129541 148149497 148566218 148900845 148960738 149515771 149515771 149515771 149915992 149915992 150324731 150406455 150869926 150878212 151264020 151444751 151477124 151548721 151598719 151631409 151654070 151758195 152482022 152919338 153022263 154247392 1916283 89101067 89999799 90160577 91340786 91964090 92043765 22735599

SC

M AN U

TE D

chrX_147006725_A_G chrX_147006725_A_G chrX_147038507_A_G chrX_147038507_A_G exm1661046 chrX_147590136_A_G rs6540385 chrX_147721477_AGAG_INDEL rs5980580 rs4844001 kgp22833396 kgp22833396 chrX_148149497_G_T rs5936294 chrX_148900845_C_T chrX_148960738_C_G chrX_149515771_A_G chrX_149515771_A_G chrX_149515771_A_G chrX_149915992_C_T chrX_149915992_C_T chrX_150324731_A_G rs1149371 chrX_150869926_A_G chrX_150878212_C_T rs2471378 rs11796898 rs1492295 rs1229423 rs5969896 rs6627597 kgp22816959 rs1554916 corect_rs189996915 chrX_152919338_C_T chrX_153022263_A_G rs5987079 corect_rs141412044 corect_rs181774696 chrX_89999799_C_T kgp22770401 rs16988375 kgp22735776 kgp22808782 chrY_22735599_A_G

genotype difference Col_38_IF Col_12_CB Col_16_IF Col_33_CB Col_33_IF Col_52_TS Col_12_CB Col_33_IF Col_33_IF Col_33_IF Col_33_IF Col_52_IF Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_38_TS Col_45_IF Col_52_TS Col_16_TS Col_38_TS Col_38_TS Col_16_IF Col_33_CB Col_34_CB Col_12_IF Col_33_IF Col_12_IF Col_33_IF Col_33_IF Col_52_CB Col_33_IF Col_33_IF Col_33_CB Col_33_CB Col_33_IF Col_33_IF Col_16_TS Col_33_IF Col_33_IF Col_33_IF Col_16_TS Col_12_CB Col_33_IF Col_33_IF

RI PT


Marker ID

592

ACCEPTED MANUSCRIPT Supplementary Table 3. Percentage of different cellular components in each intratumoral region in a representative set of the studied CRC samples and its relation to epigenetic heterogeneity values.

COL-55

COL-86

COL-76

COL-59

TS

80%

15%

5%

CB

80%

15%

5%

IF

80%

15%

5%

TS

90%

8%

2%

CB

90%

8%

2%

IF

90%

8%

2%

TS

80%

2%

18%

CB

80%

2%

18%

IF

80%

2%

18%

TS

90%

8%

2%

CB

90%

8%

2%

IF

96%

2%

2%

TS

80%

5%

15%

CB

80%

IF

80%

TS

80%

CB

80%

IF

80%

COL-24

15%

5%

15%

5%

10%

0%

20%

0%

80%

20%

0%

80%

18%

2%

95%

5%

0%

80%

18%

2%

90%

5%

5%

80%

10%

10%

80%

15%

5%

90%

8%

2%

90%

8%

2%

IF

86%

12%

2%

CB

CB

CB

AC C

COL-33

5%

IF

IF

COL-29

15%

80%

TS

COL-62

5%

15%

90%

TS

COL-38

15%

TS

IF COL-46

5%

CB

TS COL-28

EPIGENETIC HOMOGENEITY

IF

HIGH

RI PT

INFLAMMATION

EPIGENETICALLY MOST DIVERGENT ZONE

CB

HIGH

TS

HIGH

SC

COL-4

STROMA

M AN U

COL-31

TUMOR CELLS

TE D

COL-85

PERCENTAGE IN THE STUDIED SECTION

INTRATUMORAL REGION

EP

SAMPLE ID

TS

90%

5%

5%

CB

98%

2%

0%

IF

96%

2%

2%

TS

80%

15%

5%

CB

85%

10%

5%

IF

80%

15%

5%

TS

80%

15%

5%

CB

80%

15%

5%

IF

80%

15%

5%

TS

90%

8%

2%

CB

80%

18%

2%

IF

80%

18%

2%

CB

HIGH

CB

HIGH

CB

HIGH

IF

HIGH

TS

HIGH

IF

HIGH

CB

HIGH

IF

HIGH

TS

HIGH

CB

HIGH

CB

HIGH

ACCEPTED MANUSCRIPT

COL-32

COL-36

COL-5

COL-45

10%

IF

80%

10%

10%

TS

80%

18%

2%

CB

80%

18%

2%

IF

80%

18%

2%

TS

80%

15%

5%

CB

80%

15%

5%

IF

80%

15%

5%

TS

80%

10%

10%

CB

80%

15%

5%

IF

80%

15%

5%

TS

90%

10%

0%

CB

90%

10%

0%

IF

90%

10%

0%

TS

80%

18%

2%

CB

80%

18%

2%

IF

80%

TS

90%

CB

80%

IF

90%

TS

80%

CB

80%

IF

80%

TS

80%

CB IF TS

COL-7

CB IF TS

COL-67

CB

COL-44

COL-83

COL-64

COL-78

18%

2%

8%

2%

15%

5%

8%

2%

2%

18%

2%

18%

2%

18%

18%

2%

90%

10%

0%

90%

5%

5%

95%

5%

0%

95%

5%

0%

95%

5%

0%

90%

8%

2%

85%

10%

5%

90%

8%

2%

TS

88%

10%

2%

CB

95%

5%

0%

IF

80%

10%

10%

AC C

IF

TS

HIGH

TS

HIGH

TS

HIGH

RI PT

COL-89

8%

10%

CB

HIGH

IF

HIGH

SC

COL-50

2%

80%

M AN U

COL-47

90%

TE D

COL-54

TS CB

EP

COL-77

TS

80%

2%

18%

CB

80%

2%

18%

IF

80%

2%

18%

TS

80%

10%

10%

CB

80%

10%

10%

IF

80%

10%

10%

TS

80%

15%

5%

CB

80%

15%

5%

IF

80%

15%

5%

TS

HIGH

CB

HIGH

TS

HIGH

CB

HIGH

TS

HIGH

IF

HIGH

IF

LOW

TS

LOW

CB

LOW

CB

LOW

ACCEPTED MANUSCRIPT

COL-61

COL-40

COL-82

COL-43

0%

IF

80%

20%

0%

TS

80%

20%

0%

CB

80%

10%

10%

IF

80%

15%

5%

TS

85%

15%

0%

CB

80%

15%

5%

IF

80%

15%

5%

TS

80%

15%

5%

CB

80%

15%

5%

IF

80%

15%

5%

TS

80%

10%

10%

CB

80%

15%

5%

IF

85%

10%

5%

TS

90%

5%

5%

CB

90%

5%

5%

IF

90%

TS

90%

CB

80%

IF

80%

TS

95%

CB

95%

IF

95%

TS

85%

CB IF TS

COL-37

CB IF TS

COL-71

CB

AC C

IF

5%

5%

10%

0%

20%

0%

20%

0%

5%

0%

5%

0%

5%

0%

5%

10%

80%

15%

5%

95%

5%

0%

80%

5%

15%

80%

15%

5%

90%

5%

5%

95%

5%

0%

95%

5%

0%

90%

10%

0%

CB: central bulk; IF: invasive front; TS: tract surface

CB

LOW

TS

LOW

TS

LOW

RI PT

COL-79

0%

20%

TS

LOW

CB

LOW

SC

COL-41

20%

80%

M AN U

COL-12

80%

TE D

COL-90

TS CB

EP

COL-81

TS

LOW

CB

LOW

TS

LOW

TS

LOW

TS

LOW

CB

LOW

ACCEPTED MANUSCRIPT Supplementary Table 4. Characteristics of CRC cohort with locoregional disease. n = 50

n (%)

SD median promoters* Low EH

High EH

P**

Gender Male Female

45 (90%) 5 (10%)

22 (49%) 2 (40%)

23 (51%) 3 (60%)

0.54

60

16 (32%) 34 (68%)

11 (69%) 13 (38%)

5 (31%) 21 (62%)

0.07

Right colon Left colon

19 (38%) 31 (62%)

8 (42%) 16 (52%)

11 (58%) 15 (48%)

0.57

T1-T2 T3-T4

5 (10%) 45 (90%)

3 (60%) 21 (47%)

2 (40%) 24 (53%)

0.35

Surgery Surgery plus AT

13 (26%) 37 (74%)

Wild-Type Mutated

35 (70%) 15 (30%)

ADC ADC mucinous or PD Unknown / NA

Tumor size

Treatment strategy

4 (31%) 20 (54%)

9 (69%) 17(46%)

0.20

20 (57%) 4 (27%)

15 (43%) 11 (73%)

0.07

38 (76%) 10 (20%) 2 (4%)

16 (42%) 7 (70%) 1 (50%)

22 (58%) 3 (30%) 1 (50%)

0.29

21 (42%) 25 (50%) 4 (8%)

14 (67%) 8 (32%) 2 (50%)

7 (33%) 17 (68%) 2 (50%)

0.06

M AN U

KRAS status

Histology subtype

Type of Invasive Front

AC C

Tumor Necrosis


32 (64%) 13 (26%) 5 (10%)

17 (53%) 5 (39%) 2 (40%)

15 (47%) 8 (61%) 3 (60%)

0.62


29 (58%) 19 (38%) 2 (4%)

13 (45%) 10 (53%) 1 (50%)

16 (55%) 9 (47%) 1 (50%)

0.87


40 (80%) 6 (12%) 4 (8%)

20 (50%) 2 (33%) 2 (50%)

20 (50%) 4 (67%) 2 (50%)

0.74

yes no

18 (36%) 32 (64%)

5 (28%) 19 (59%)

13 (72%) 0.042 13 (41%)

Alive Death

44 (88%) 6 (12%)

24 (55%) 0 (0%)

20 (45%) 0.023 6 (100%)

EP

Tumor Inflamation

TE D

Expansive Infiltrative Unknown / NV Tumor Budding

SC

Localization

RI PT

Age

Relapse

Survival status

* Coefficient of epigenetic homogeneity (EH) based in standard deviation differences between the three tumor regions **p-value from Chi-Square and Fisher's test; p-value under 0.05 is considered as statistical significant T1-T2 = submucosa or muscularis propia infiltration; T3-T4 = the outermost or all colon layers infiltration AT = adjuvant therapy; ADC = adenocarcinoma; PD = poor differentiated; NA = Not available

ACCEPTED MANUSCRIPT Supplementary Table 5. Characteristics of stage IV CRC patients treated at first-line with FOLFIRI n = 17

n (%)

SD median promoters* Low EH

High EH

P**

Gender Male Female Ns

8 (47.1%) 6 (35.3%) 3 (17.6%)

4 (50.0%) 1 (16.7%) 3 (100%)

4 (50.0%) 5 (83.3%) 0 (100%)

0.30

60

9 (52.9%) 8 (47.1%)

3 (33.3%) 5 (62.5%)

6 (66.7%) 3 (37.5%)

0.35

Colon Rectum Ns

13 (76.5%) 3 (17.6%) 1 (5.9%)

6 (46.2%) 2 (66.7%) 0 (0%)

7 (53.8%) 1 (33.3%) 1 (100%)

0.51

G1-G2 G3-G4

3 (17.6%) 14 (82.4%)

2 (66.7%) 6 (42.9%)

1 (33.3%) 8 (57.1%)

0.58

CR or PR SD or PD

10 (58.8%) 7 (41.2%)

7 (70.0%) 1 (14.3%)

3 (30.0%) 0.049 6 (85.7%)

Alive Death

5 (29.4%) 12 (70.6%)

5 (100%) 3 (25.0%)

0 (0%) 0.009 9 (75.0%)

Histology grade

M AN U

Response rate

SC

Localization

RI PT

Age

Survival status

AC C

EP

TE D

* Coefficient of epigenetic homogeneity (EH) based in standard deviation differences between the three tumor regions **p-value from Chi-Square and Fisher's test; p-value under 0.05 is considered as statistical significant Ns: not specified; CR: complete response; PR: partial response; SD: stable disease; PD: progressive disease