#+ PIPELINE_NAME = Generate_Variome_Data.chromosome.v.0.3.6.for.KRISS-Korean-Variome-2012-03.in.TGI.Eagle.on.2017-08-26 #+ SCRIPT_DIR_PATH = /BiO/Share/Live/Jho/Pipeline/Generate_Variome_Data.chromosome.v.0.3.6/ #+ WORKSPACE_DIR_PATH = /BiO/Research/Project1/KRISS-Korean-Variome-2012-03/Variome_Data_Generation/Workspace/Pipeline.by.Sungwoong.Jho/Generate_Variome_Data.chromosome.v.0.3.6.on.2017-08-26/ #+ DATA_ID_FILE_PATH = /BiO/Research/Project1/KRISS-Korean-Variome-2012-03/Variome_Data_Generation/Workspace/Pipeline.by.Sungwoong.Jho/Generate_Variome_Data.chromosome.v.0.3.6.on.2017-08-26/inp_data_id/data_id_list.txt #+ CHR_NAME_LIST = chr1,chr2,chr3,chr4,chr5,chr6,chr7,chr8,chr9,chr10,chr11,chr12,chr13,chr14,chr15,chr16,chr17,chr18,chr19,chr20,chr21,chr22,chrX,chrY,chrM #+ CHR_DBSNP_FILE_PATH = /BiO/Research/Project1/KRISS-Korean-Variome-2012-03/Variome_Data_Generation/Resource/Reference/hg19/snp/GATK-bundle-2.5/dbsnp_137.hg19.of.each.chromosome/dbsnp_137.hg19.{CHR_NAME}.vcf #+ CHR_SEQ_FILE_PATH = /BiO/Research/Project1/KRISS-Korean-Variome-2012-03/Variome_Data_Generation/Resource/Reference/hg19/chromosome/each/{CHR_NAME}.upper.fa #+ CHR_LEN_FILE_PATH = /BiO/Research/Project1/KRISS-Korean-Variome-2012-03/Variome_Data_Generation/Resource/Reference/hg19/chromosome/each/{CHR_NAME}.len.txt #+ CMD_BCFTOOLS = /BiO/Share/Live/Jho/Program/bcftools-1.3.1/bcftools #+ CHR_ALL_SITE_GENOTYPE_FILE_PATH = /BiO/Research/Project1/KRISS-Korean-Variome-2012-03/Variome_Data_Generation/Analysis/GenoType.to.hg19.by.GATK.UnifiedGenotyper/WGS.of.CleanRead.of.Grade1.mapped.by.BWA.aln/{DATA_ID}/{DATA_ID}.{CHR_NAME}.genotype.rs.gz #+ PLOIDY_FILE_PATH = /BiO/Research/Project1/KRISS-Korean-Variome-2012-03/Variome_Data_Generation/Resource/Sample_Ploidy/{DATA_ID}.ploidy.txt #+ DO_INTEGRATE_PRIOR_GENOTYPE_FILE = True #+ PRIOR_GENOTYPE_FILE_PATH = /BiO/Research/Project1/KRISS-Korean-Variome-2012-03/Variome_Data_Generation/Analysis/VariomeData.to.hg19/VariomeData.0.5/Variome_Data/genotype/{INDIVIDUAL_ID}/variomeData.genotype.allSite.{INDIVIDUAL_ID}.{CHR_NAME}.txt.gz #+ SNP_ID_PREFIX = ks #+ DO_INTEGRATE_PRIOR_SNP_ID = True #+ PRIOR_SNP_ID_FILE_PATH = /BiO/Research/Project1/KRISS-Korean-Variome-2012-03/Variome_Data_Generation/Analysis/VariomeData.to.hg19/VariomeData.0.5/SNP_ID/snp.id.{CHR_NAME}.txt #+ CHR_ALL_SITE_SNP_FILE_PATH = /BiO/Research/Project1/KRISS-Korean-Variome-2012-03/Variome_Data_Generation/Analysis/SNP.to.hg19.by.MAC.1.MAF.0.00.from.GenoType/WGS.of.CleanRead.of.Grade1.mapped.by.BWA.aln/VariomeData.80.Korean.with.Extended.Statistics/SNP/snp.{CHR_NAME}.allSite.txt.gz #+ CHR_VAR_SITE_SNP_ANNOTATION_FILE_PATH = /BiO/Research/Project1/KRISS-Korean-Variome-2012-03/Variome_Data_Generation/Analysis/SNP.to.hg19.by.MAC.1.MAF.0.00.from.GenoType/WGS.of.CleanRead.of.Grade1.mapped.by.BWA.aln/VariomeData.80.Korean.with.Extended.Statistics/SNPeff/snp.{CHR_NAME}.varSite.snpEff.vcf #+ INDEL_ID_PREFIX = ki #+ INDEL_FILE_PATH = /BiO/Research/Project1/KRISS-Korean-Variome-2012-03/Variome_Data_Generation/Analysis/IDP.to.hg19.by.FreeBayes/WGS.of.CleanRead.of.Grade1.mapped.by.BWA.aln/VariomeData.80.Korean/IDP/IDP.vcf #+ CNV_FILE_PATH = /BiO/Research/Project1/KRISS-Korean-Variome-2012-03/Variome_Data_Generation/Analysis/CNV.to.hg19.by.CNVnator/WGS.of.CleanRead.of.Grade1.mapped.by.BWA.aln/{DATA_ID}/{DATA_ID}.cnvnator.cnv #+ DO_INTEGRATE_PRIOR_CNV_FILE = False #+ PRIOR_CNV_FILE_PATH = None #+ SV_TYPE_LIST = BND,DEL,DUP,INS,INV #+ SV_BCF_FILE_PATH = /BiO/Research/Project1/KRISS-Korean-Variome-2012-03/Variome_Data_Generation/Analysis/SV.to.hg19.by.DELLY/WGS.of.CleanRead.of.Grade1.mapped.by.BWA.aln/{DATA_ID}/{DATA_ID}.delly.{SV_TYPE}.bcf #+ DO_INTEGRATE_PRIOR_SV_FILE = False #+ PRIOR_SV_BCF_FILE_PATH = None #+ PRIOR_SV_CSI_FILE_PATH = None #+ TELSEQ_MTL_FILE_PATH = /BiO/Research/Project1/KRISS-Korean-Variome-2012-03/Variome_Data_Generation/Analysis/TelomereLength.by.TelSeq/WGS.of.CleanRead.of.Grade0/{DATA_ID}/{DATA_ID}.telseq.tsv #+ COMPUTEL_MTL_FILE_PATH = /BiO/Research/Project1/KRISS-Korean-Variome-2012-03/Variome_Data_Generation/Analysis/TelomereLength.by.Computel/WGS.of.CleanRead.of.Grade0/{DATA_ID}/{DATA_ID}.computel.xls #+ DO_INTEGRATE_PRIOR_MTL_FILE = False #+ PRIOR_MTL_FILE_PATH = None #+ DO_CHECK_CONSISTENCY = True #+ DO_SAMPLING = True #+ SAMPLING_OPTION_FILE_PATH = /BiO/Research/Project1/KRISS-Korean-Variome-2012-03/Variome_Data_Generation/Workspace/Pipeline.by.Sungwoong.Jho/Generate_Variome_Data.chromosome.v.0.3.6.on.2017-08-26/inp_sampling/sampling_option.opt #+ SAMPLING_SNP_FUNC_LIST = SPLICE-SITE,NON-SYNONYMOUS #+ SAMPLING_SNP_MINOR_ALLELE_CHR_COUNT = 3 #+ SAMPLING_SNP_MINOR_ALLELE_FREQUENCY = 0.050000 #+ SAMPLING_INDEL_FUNC_LIST = SPLICE-SITE,CODON_CHANGE,FRAME_SHIFT #+ SAMPLING_INDEL_MINOR_ALLELE_CHR_COUNT = 3 #+ SAMPLING_INDEL_MINOR_ALLELE_FREQUENCY = 0.050000 #+ SAMPLING_SV_INS_SIZE_MAX = 23 #* chrName : chromosome name. #* pss : position. #* refNt : reference nucleotide. #* snpNts : SNP nucleotides. #* snpId : SNP id. #! chrName pss refNt snpNts snpId chrM 64 C C,T ks15163891 chrM 93 A A,G ks13784065 chrM 94 G A,G ks13784066 chrM 103 G A,G ks12081579 chrM 131 T C,T ks12081580 chrM 143 G A,G ks12081581 chrM 146 T C,T ks12081582 chrM 150 T C,T ks12081583 chrM 151 C C,T ks12081584 chrM 152 T C,T ks12081585 chrM 153 A A,G ks12081586 chrM 185 G A,G ks15163892 chrM 189 A A,G ks12081587 chrM 194 C C,T ks12081588 chrM 195 C C,T ks12081589 chrM 197 A A,G ks12081590 chrM 198 C C,T ks12081591 chrM 199 T C,T ks12081592 chrM 200 A A,G ks12081593 chrM 203 G A,G ks12081594 chrM 204 T C,T ks12081595 chrM 207 G A,G ks13784067 chrM 210 A A,G ks13784068 chrM 211 A A,G ks15163893 chrM 214 A A,G ks12681734 chrM 222 C C,T ks15163894 chrM 225 G A,G ks15163895 chrM 228 G A,G ks15163896 chrM 235 A A,G ks12081596 chrM 260 G A,G ks12081597 chrM 311 T C,T ks12081598 chrM 318 G A,G ks12081599 chrM 320 T C,T ks12081600 chrM 328 A A,G ks12081601 chrM 458 C C,T ks12081602 chrM 491 T C,T ks12081603 chrM 501 G A,G ks13784069 chrM 510 A A,G ks15163897 chrM 548 A A,G ks12081604 chrM 569 A A,C ks13784070 chrM 665 A A,G ks12081605 chrM 683 T C,T ks12081606 chrM 711 G A,G ks12081607 chrM 747 A A,G ks15163898 chrM 754 C C,T ks12081608 chrM 829 A A,G ks12081609 chrM 963 T C,T ks12081610 chrM 1050 C C,T ks12081611 chrM 1097 T C,T ks12081612 chrM 1109 T C,T ks12081613 chrM 1121 T C,T ks15163899 chrM 1384 A A,C ks12081614 chrM 1440 G A,G ks12081615 chrM 1600 G A,G ks12081616 chrM 1711 G A,G ks12081617 chrM 1713 C C,T ks15163900 chrM 1717 C C,T ks13784071 chrM 1721 G A,G ks13784072 chrM 1738 A A,G ks12081618 chrM 1851 C C,T ks15163901 chrM 1945 A A,G ks12081619 chrM 1980 A A,G ks12081620 chrM 2058 G A,G ks13784073 chrM 2354 C C,T ks15163902 chrM 2628 T C,T ks12081621 chrM 2708 G A,G ks12081622 chrM 2774 C C,T ks12081623 chrM 2859 T C,T ks12081624 chrM 2889 T C,T ks15163903 chrM 3012 G A,G ks12081625 chrM 3145 A A,G ks15163904 chrM 3207 C C,T ks12081626 chrM 3222 A A,G ks15163905 chrM 3317 G A,G ks12081627 chrM 3336 T C,T ks15163906 chrM 3369 T C,T ks12081628 chrM 3395 T C,T ks15163907 chrM 3498 C C,T ks15163908 chrM 3538 A A,G ks13784074 chrM 3553 T A,T ks12081629 chrM 3568 C C,T ks12081630 chrM 3715 A A,G ks13784075 chrM 3730 A A,G ks12081631 chrM 3760 A A,G ks12081632 chrM 3797 A A,G ks13784076 chrM 3835 G A,G ks12081633 chrM 3961 C C,T ks12681735 chrM 3971 C C,T ks12081634 chrM 4048 T C,T ks12081635 chrM 4049 G A,G ks12081636 chrM 4072 C C,T ks12081637 chrM 4087 C C,T ks12681736 chrM 4093 G A,G ks15163909 chrM 4114 G A,G ks12081638 chrM 4165 A A,G ks12081639 chrM 4204 A A,G ks12681737 chrM 4217 T C,T ks15163910 chrM 4219 T C,T ks13784077 chrM 4249 T C,T ks12081640 chrM 4344 A A,G ks12081641 chrM 4364 T C,T ks12081642 chrM 4387 T C,T ks12081643 chrM 4492 G A,G ks15163911 chrM 4539 C C,T ks12081644 chrM 4563 A A,G ks12681738 chrM 4640 T C,T ks13784078 chrM 4656 G A,G ks12081645 chrM 4671 C C,T ks13784079 chrM 4697 T C,T ks15163912 chrM 4706 T C,T ks12081646 chrM 4716 A A,G ks12081647 chrM 4733 A A,G ks12081648 chrM 4737 T C,T ks12081649 chrM 4743 T C,T ks15163913 chrM 4794 A A,G ks12081650 chrM 4821 G A,G ks13784080 chrM 4825 A A,G ks12081651 chrM 4834 A A,G ks12081652 chrM 4842 G A,G ks12081653 chrM 4884 C C,T ks12081654 chrM 4896 A A,G ks12081655 chrM 4908 T C,T ks13784081 chrM 4959 A A,G ks12081656 chrM 5047 G A,G ks15163914 chrM 5050 C C,T ks12081657 chrM 5085 A A,G ks12081658 chrM 5109 T C,T ks12081659 chrM 5148 G A,G ks12081660 chrM 5154 A A,G ks12081661 chrM 5179 C A,C ks12081662 chrM 5191 A A,G ks12081663 chrM 5232 G A,G ks12081664 chrM 5238 G A,G ks12081665 chrM 5264 C C,T ks12081666 chrM 5292 T C,T ks12081667 chrM 5302 A A,G ks12081668 chrM 5352 A A,G ks12081669 chrM 5358 A A,G ks15163915 chrM 5418 G A,G ks12081670 chrM 5419 T C,T ks12081671 chrM 5436 C C,T ks15163916 chrM 5461 G A,G ks12081672 chrM 5466 T C,T ks12681739 chrM 5484 T C,T ks12081673 chrM 5530 A A,G ks15163917 chrM 5540 A A,G ks12081674 chrM 5602 C C,T ks13784082 chrM 5619 T C,T ks12081675 chrM 5641 A A,G ks15163918 chrM 5774 G A,G ks12081676 chrM 5807 T C,T ks12081677 chrM 5822 G A,G ks12081678 chrM 5827 T C,T ks15163919 chrM 5928 C C,T ks15163920 chrM 5988 C C,T ks12081679 chrM 6024 G A,G ks13784083 chrM 6027 G A,G ks12081680 chrM 6075 C C,T ks12081681 chrM 6087 T C,T ks12081682 chrM 6126 A A,G ks12681740 chrM 6217 T C,T ks13784084 chrM 6222 T C,T ks12081683 chrM 6254 T C,T ks12081684 chrM 6268 G A,G ks12081685 chrM 6294 T C,T ks15163921 chrM 6339 A A,G ks12081686 chrM 6366 T C,T ks12081687 chrM 6367 G A,G ks15163922 chrM 6393 T C,T ks12081688 chrM 6408 T C,T ks12081689 chrM 6414 T C,T ks13784085 chrM 6456 C C,T ks12081690 chrM 6504 A A,C ks12081691 chrM 6532 C C,T ks12081692 chrM 6552 C C,T ks15163923 chrM 6681 T C,T ks12081693 chrM 6702 A A,G ks13784086 chrM 6748 T C,T ks12081694 chrM 6753 A A,G ks12081695 chrM 6816 T C,T ks15163924 chrM 6963 G A,G ks12081696 chrM 7197 C A,C ks12081697 chrM 7246 A A,G ks13784087 chrM 7271 T C,T ks12081698 chrM 7309 A A,T ks12081699 chrM 7373 T C,T ks12081700 chrM 7425 A A,G ks13784088 chrM 7601 G A,G ks13784089 chrM 7622 T C,T ks12081701 chrM 7643 G A,G ks12081702 chrM 7650 A A,G ks12681741 chrM 7685 T C,T ks12081703 chrM 7712 T C,T ks15163925 chrM 7806 G A,G ks15163926 chrM 7817 C C,T ks12081704 chrM 7854 G A,G ks12081705 chrM 7868 C C,T ks12081706 chrM 7880 A A,G ks13784090 chrM 7910 C C,T ks15163927 chrM 7928 C C,T ks12681742 chrM 7959 C A,C ks12081707 chrM 7981 A A,G ks15163928 chrM 8000 T C,T ks13784091 chrM 8021 G A,G ks12081708 chrM 8030 C C,T ks13784092 chrM 8109 A A,G ks12081709 chrM 8201 T C,T ks12081710 chrM 8228 T C,T ks12081711 chrM 8270 G A,G ks12081712 chrM 8278 T C,T ks15163929 chrM 8309 A A,G ks12081713 chrM 8393 G A,G ks12681743 chrM 8415 C C,T ks12081714 chrM 8474 T C,T ks12081715 chrM 8486 G A,G ks12081716 chrM 8558 G A,G ks13784093 chrM 8564 A A,G ks12081717 chrM 8585 G A,G ks12081718 chrM 8702 G A,G ks12081719 chrM 8706 T C,T ks12081720 chrM 8765 G A,G ks12081721 chrM 8785 A A,G ks12081722 chrM 8791 G A,G ks12081723 chrM 8794 T C,T ks12081724 chrM 8795 C C,T ks12081725 chrM 8830 C C,T ks12081726 chrM 8857 G A,G ks12081727 chrM 8963 A A,G ks12081728 chrM 8965 C C,T ks12081729 chrM 9011 G A,G ks12081730 chrM 9054 G A,G ks12681744 chrM 9080 A A,G ks12081731 chrM 9091 T C,T ks12081732 chrM 9121 A A,G ks12081733 chrM 9124 G A,G ks12681745 chrM 9181 A A,G ks12081734 chrM 9267 G A,G ks12081735 chrM 9297 C C,T ks12081736 chrM 9302 C C,T ks12081737 chrM 9337 A A,G ks13784094 chrM 9378 G A,G ks13784095 chrM 9495 A A,G ks12081738 chrM 9541 C C,T ks12081739 chrM 9546 A A,G ks12081740 chrM 9549 G A,G ks12681746 chrM 9555 G A,G ks15163930 chrM 9576 G A,G ks13784096 chrM 9712 C C,T ks12081741 chrM 9825 T A,C,T ks12081742 chrM 9939 T C,T ks12081743 chrM 9951 T C,T ks12081744 chrM 9963 G A,G ks13784097 chrM 10031 C A,C ks15163931 chrM 10032 T C,T ks15163932 chrM 10043 A A,G ks13784098 chrM 10104 A A,G ks12081745 chrM 10182 C C,T ks15163933 chrM 10209 T C,T ks12081746 chrM 10239 T C,T ks12681747 chrM 10290 A A,G ks12081747 chrM 10311 G A,G ks12081748 chrM 10323 T C,T ks15163934 chrM 10346 T C,T ks12081749 chrM 10380 A A,G ks12681748 chrM 10398 A A,G ks12081750 chrM 10399 G A,G ks12081751 chrM 10401 C C,T ks12081752 chrM 10411 T C,T ks12081753 chrM 10610 T C,T ks12081754 chrM 10686 G A,G ks15163935 chrM 10802 G A,G ks12081755 chrM 10874 C C,T ks12081756 chrM 10883 T C,T ks12081757 chrM 10944 A A,T ks15163936 chrM 10977 C C,T ks12081758 chrM 10979 A A,G ks12081759 chrM 11018 C C,T ks12081760 chrM 11055 C C,T ks12681749 chrM 11062 C C,T ks15163937 chrM 11085 A A,G ks12081761 chrM 11150 G A,G ks13784099 chrM 11152 C C,T ks13784100 chrM 11216 C C,T ks12081762 chrM 11256 T C,T ks12081763 chrM 11384 T C,T ks12081764 chrM 11537 C C,T ks12081765 chrM 11648 C C,T ks12081766 chrM 11697 G A,G ks12081767 chrM 11879 T C,T ks15163938 chrM 11888 G A,G ks12081768 chrM 11909 A A,G ks12081769 chrM 11915 G A,G ks12081770 chrM 11945 T C,T ks12081771 chrM 11966 C C,T ks13784101 chrM 11970 G A,G ks12081772 chrM 12008 G A,G ks15163939 chrM 12014 A A,G ks12081773 chrM 12027 A A,G ks12081774 chrM 12071 G A,G ks15163940 chrM 12086 C C,T ks12081775 chrM 12093 C A,C ks15163941 chrM 12122 T C,T ks13784102 chrM 12136 C C,T ks12081776 chrM 12235 A A,G ks13784103 chrM 12359 A A,G ks12081777 chrM 12362 A A,G ks12081778 chrM 12363 C C,T ks12081779 chrM 12373 G A,G ks12081780 chrM 12398 A A,G ks12081781 chrM 12406 C C,T ks12081782 chrM 12407 G A,G ks12081783 chrM 12439 T C,T ks12081784 chrM 12500 A A,G ks13784104 chrM 12625 T C,T ks15163942 chrM 12634 C C,T ks12081785 chrM 12655 A A,G ks13784105 chrM 12673 A A,G ks12081786 chrM 12706 T C,T ks12081787 chrM 12716 A A,G ks13784106 chrM 12760 C C,T ks12081788 chrM 12772 G A,G ks12081789 chrM 12812 T C,T ks12081790 chrM 12881 T C,T ks12081791 chrM 12883 C C,T ks12081792 chrM 12951 A A,G ks15163943 chrM 12958 T C,T ks12081793 chrM 13075 A A,G ks12081794 chrM 13087 C C,T ks15163944 chrM 13105 A A,G ks12081795 chrM 13175 T C,T ks12081796 chrM 13183 T C,T ks12081797 chrM 13195 G A,G ks13784107 chrM 13234 A A,G ks12081798 chrM 13240 C C,T ks12081799 chrM 13264 A A,G ks12081800 chrM 13270 A A,G ks15163945 chrM 13384 C C,T ks13784108 chrM 13414 A A,G ks13784109 chrM 13438 T C,T ks12081801 chrM 13478 G A,G ks12081802 chrM 13486 A A,G ks12081803 chrM 13564 A A,G ks13784110 chrM 13591 G A,G ks13784111 chrM 13652 A A,C,G ks12081804 chrM 13666 T C,T ks15163946 chrM 13682 A A,G ks15163947 chrM 13717 A A,G ks12081805 chrM 13760 G A,G ks12681750 chrM 13880 T C,T ks12081806 chrM 13929 G C,G ks12081807 chrM 13943 A A,G ks12081808 chrM 14149 A A,G ks12081809 chrM 14150 C C,T ks13784112 chrM 14159 C C,T ks13784113 chrM 14163 G A,G ks12081810 chrM 14179 T C,T ks12081811 chrM 14181 T C,T ks15163948 chrM 14199 G A,G ks12081812 chrM 14201 T C,T ks13784114 chrM 14204 A A,G ks15163949 chrM 14270 A A,G ks15163950 chrM 14309 T C,T ks15163951 chrM 14312 T C,T ks12081813 chrM 14319 T C,T ks12081814 chrM 14320 T C,T ks12081815 chrM 14335 C C,T ks12681751 chrM 14341 C C,T ks12081816 chrM 14365 G A,G ks12081817 chrM 14456 C C,T ks12081818 chrM 14477 G A,G ks12081819 chrM 14531 T C,T ks12081820 chrM 14561 G A,G ks12081821 chrM 14570 G A,G ks12081822 chrM 14669 C C,T ks12081823 chrM 14694 A A,G ks12681752 chrM 14774 C C,T ks12681753 chrM 14784 T C,T ks12081824 chrM 14862 G A,G ks13784115 chrM 14928 A A,G ks15163952 chrM 14945 C C,T ks12081825 chrM 14979 A A,G ks12081826 chrM 14980 T C,T ks12081827 chrM 14981 C A,C ks15163953 chrM 15023 C C,T ks12081828 chrM 15044 G A,G ks12081829 chrM 15068 T C,T ks12081830 chrM 15091 T C,T ks12081831 chrM 15140 T C,T ks12081832 chrM 15149 G A,G ks12081833 chrM 15173 G A,G ks12081834 chrM 15185 T C,T ks12081835 chrM 15205 T C,T ks12081836 chrM 15224 C C,T ks12081837 chrM 15236 A A,G ks13784116 chrM 15251 C C,T ks12081838 chrM 15259 A A,G ks15163954 chrM 15300 T C,T ks15163955 chrM 15302 A A,G ks12081839 chrM 15314 T C,T ks13784117 chrM 15318 G A,G ks15163956 chrM 15324 G A,G ks12081840 chrM 15347 G A,G ks15163957 chrM 15441 T C,T ks15163958 chrM 15460 C C,T ks12081841 chrM 15480 T C,T ks12681754 chrM 15488 A A,T ks12081842 chrM 15498 G A,G ks12081843 chrM 15509 C C,T ks12081844 chrM 15519 C C,T ks12081845 chrM 15536 C C,T ks12081846 chrM 15563 A A,G ks13784118 chrM 15663 A A,G ks12081847 chrM 15725 A A,G ks12081848 chrM 15735 G A,G ks12081849 chrM 15747 A A,G ks12081850 chrM 15774 G A,G ks12081851 chrM 15785 T C,T ks12081852 chrM 15833 C C,T ks12081853 chrM 15851 T C,T ks12081854 chrM 15852 A A,G ks12081855 chrM 15861 A A,G ks12081856 chrM 15875 A A,G ks12081857 chrM 15884 G A,G ks12081858 chrM 15885 G A,G ks15163959 chrM 15928 G A,G ks12081859 chrM 15931 G A,G ks12081860 chrM 15952 A A,G ks15163960 chrM 15955 A A,G ks12081861 chrM 15969 T C,T ks13784119 chrM 16001 G A,G ks12681755 chrM 16071 A A,G ks15163961 chrM 16087 T C,T ks12081862 chrM 16094 T C,T ks12081863 chrM 16112 C C,T ks12081864 chrM 16115 C C,T ks15163962 chrM 16127 T C,T ks12081865 chrM 16130 G A,G ks12081866 chrM 16137 T C,T ks12081867 chrM 16141 T C,T ks12081868 chrM 16146 G A,G ks12081869 chrM 16149 C C,T ks15163963 chrM 16151 C C,T ks12081870 chrM 16155 T C,T ks15163964 chrM 16163 A A,G ks12681756 chrM 16165 A A,G ks12081871 chrM 16168 C C,T ks12081872 chrM 16171 A A,G ks12081873 chrM 16172 A A,G ks12081874 chrM 16173 C C,T ks12081875 chrM 16175 C C,T ks13784120 chrM 16183 A A,C ks12081876 chrM 16185 C A,C ks12081877 chrM 16186 C C,T ks12081878 chrM 16187 C C,T ks15163965 chrM 16188 C C,T ks12081879 chrM 16189 C C,T ks12081880 chrM 16191 C C,T ks12081881 chrM 16194 C C,T ks15163966 chrM 16211 T C,T ks12081882 chrM 16216 C C,T ks13784121 chrM 16219 T C,T ks12081883 chrM 16225 T C,T ks12081884 chrM 16229 A A,G ks13784122 chrM 16233 T C,T ks12681757 chrM 16234 C A,C ks12081885 chrM 16236 C C,T ks12081886 chrM 16245 T C,T ks12081887 chrM 16250 C C,T ks12081888 chrM 16251 T C,T ks12081889 chrM 16258 C C,T ks12081890 chrM 16259 C A,C ks12081891 chrM 16262 C C,T ks12081892 chrM 16263 C C,T ks12081893 chrM 16266 C C,T ks15163967 chrM 16267 A A,C ks12081894 chrM 16268 C A,C,G,T ks13784123 chrM 16268 C C,G,T ks12681758 chrM 16268 C C,T ks12081895 chrM 16276 G A,G ks12081896 chrM 16280 C C,T ks12081897 chrM 16286 A A,G ks15163968 chrM 16292 C C,T ks12081898 chrM 16293 C C,T ks12081899 chrM 16295 A A,G ks15163969 chrM 16299 T C,T ks12081900 chrM 16300 T C,T ks12081901 chrM 16304 A A,G ks15163970 chrM 16306 T C,T ks12081902 chrM 16313 T C,T ks12081903 chrM 16321 G A,G ks12081904 chrM 16326 T C,T ks12081905 chrM 16327 T C,T ks12081906 chrM 16329 C C,T ks12081907 chrM 16346 C C,T ks12081908 chrM 16354 T C,T ks15163971 chrM 16357 C C,T ks12081909 chrM 16359 T C,T ks12081910 chrM 16364 T C,T ks12081911 chrM 16367 C C,T ks12081912 chrM 16401 A A,G ks12681759 chrM 16454 T C,T ks15163972 chrM 16465 A A,G ks12081913 chrM 16499 A A,G ks12081914 chrM 16521 C C,T ks12081915