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##fileformat=VCFv4.2 ##FILTER=<ID=PASS,Description="All filters passed"> ##FILTER=<ID=RefCall,Description="Genotyping model thinks this site is reference."> ##FILTER=<ID=LowQual,Description="Confidence in this variant being real is below calling threshold."> ##FILTER=<ID=NoCall,Description="Site has depth=0 resulting in no call."> ##INFO=<ID=END,Number=1,Type=Integer,Description="End position (for use with symbolic alleles)"> ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype"> ##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Conditional genotype quality"> ##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Read depth"> ##FORMAT=<ID=MIN_DP,Number=1,Type=Integer,Description="Minimum DP observed within the GVCF block."> ##FORMAT=<ID=AD,Number=R,Type=Integer,Description="Read depth for each allele"> ##FORMAT=<ID=VAF,Number=A,Type=Float,Description="Variant allele fractions."> ##FORMAT=<ID=PL,Number=G,Type=Integer,Description="Phred-scaled genotype likelihoods rounded to the closest integer"> ##FORMAT=<ID=MED_DP,Number=1,Type=Integer,Description="Median DP observed within the GVCF block rounded to the nearest integer."> ##DeepVariant_version=1.6.0 ##contig=<ID=20,length=63025520> #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT child 20 10000117 . C T 65.8 PASS . GT:GQ:DP:AD:VAF:PL 0/1:65:18:6,12:0.666667:65,0,74 20 10000211 . C T 61 PASS . GT:GQ:DP:AD:VAF:PL 0/1:60:21:7,14:0.666667:60,0,66 20 10000439 . T G 55.6 PASS . GT:GQ:DP:AD:VAF:PL 1/1:42:26:1,24:0.923077:55,42,0 20 10000598 . T A 66.9 PASS . GT:GQ:DP:AD:VAF:PL 1/1:53:25:1,24:0.96:66,52,0 20 10000694 . G A 54 PASS . GT:GQ:DP:AD:VAF:PL 0/1:53:29:19,10:0.344828:54,0,60 20 10000758 . T A 89.5 PASS . GT:GQ:DP:AD:VAF:PL 1/1:67:23:0,23:1:89,67,0 20 10001019 . T G 47.6 PASS . GT:GQ:DP:AD:VAF:PL 0/1:47:16:10,6:0.375:47,0,61 20 10001298 . T A 59.8 PASS . GT:GQ:DP:AD:VAF:PL 1/1:48:23:0,23:1:59,47,0 20 10001436 . A AAGGCT 62.7 PASS . GT:GQ:DP:AD:VAF:PL 1/1:59:25:0,23:0.92:62,61,0 20 10001474 . C T 71.4 PASS . GT:GQ:DP:AD:VAF:PL 1/1:56:22:0,22:1:71,56,0 20 10001617 . C A 57.8 PASS . GT:GQ:DP:AD:VAF:PL 0/1:58:18:11,7:0.388889:57,0,72 20 10001628 . G A 70.5 PASS . GT:GQ:DP:AD:VAF:PL 1/1:61:20:0,20:1:70,61,0 20 10001661 . T C 66 PASS . GT:GQ:DP:AD:VAF:PL 1/1:51:16:0,16:1:65,51,0 20 10001670 . T G 74.5 PASS . GT:GQ:DP:AD:VAF:PL 1/1:69:18:0,18:1:74,70,0 20 10002058 . T G 99 PASS . GT:GQ:DP:AD:VAF:PL 1/1:65:18:0,18:1:99,64,0 20 10002099 . C T 65.5 PASS . GT:GQ:DP:AD:VAF:PL 0/1:63:17:6,11:0.647059:65,0,65 20 10002138 . C G 99 PASS . GT:GQ:DP:AD:VAF:PL 1/1:65:15:0,15:1:99,65,0 20 10002142 . G C 75.6 PASS . GT:GQ:DP:AD:VAF:PL 1/1:60:15:0,13:0.866667:75,60,0 20 10002458 . G GTT,GTTT 63.7 PASS . GT:GQ:DP:AD:VAF:PL 1/2:35:16:0,6,9:0.375,0.5625:63,41,50,41,0,36 20 10002470 . C T 63.1 PASS . GT:GQ:DP:AD:VAF:PL 1/1:45:14:0,14:1:63,45,0 20 10002625 . G T 64.1 PASS . GT:GQ:DP:AD:VAF:PL 1/1:56:22:0,22:1:64,56,0 20 10003021 . C T 67 PASS . GT:GQ:DP:AD:VAF:PL 1/1:54:17:0,17:1:66,54,0 20 10003358 . A C 50.4 PASS . GT:GQ:DP:AD:VAF:PL 0/1:50:16:12,4:0.25:50,0,66 20 10003651 . T C 64.2 PASS . GT:GQ:DP:AD:VAF:PL 1/1:50:16:0,16:1:64,49,0 20 10003692 . A G 66.9 PASS . GT:GQ:DP:AD:VAF:PL 1/1:48:13:0,13:1:66,47,0 20 10003832 . G A 67.6 PASS . GT:GQ:DP:AD:VAF:PL 1/1:63:27:0,27:1:67,64,0 20 10004094 . A C 69.5 PASS . GT:GQ:DP:AD:VAF:PL 1/1:51:13:0,13:1:69,51,0 20 10004114 . C G 0 RefCall . GT:GQ:DP:AD:VAF:PL 0/0:99:15:13,2:0.133333:0,73,99 20 10004128 . AG A 0 RefCall . GT:GQ:DP:AD:VAF:PL 0/0:69:18:15,2:0.111111:0,67,99 20 10004147 . A G 70.1 PASS . GT:GQ:DP:AD:VAF:PL 1/1:59:15:0,15:1:70,59,0 20 10004187 . A C 0 RefCall . GT:GQ:DP:AD:VAF:PL 0/0:67:16:14,2:0.125:0,65,99 20 10004192 . AG A 0 RefCall . GT:GQ:DP:AD:VAF:PL 0/0:69:16:14,2:0.125:0,70,75 20 10004193 . G T 60.3 PASS . GT:GQ:DP:AD:VAF:PL 0/1:58:14:5,8:0.571429:60,0,63 20 10004202 . A C 0 RefCall . GT:GQ:DP:AD:VAF:PL 0/0:99:16:14,2:0.125:0,72,99 20 10004203 . C A 0 RefCall . GT:GQ:DP:AD:VAF:PL 0/0:99:13:11,2:0.153846:0,96,99 20 10004221 . C CA 0 RefCall . GT:GQ:DP:AD:VAF:PL 0/0:38:16:14,2:0.125:0,38,53 20 10004222 . C CA,CAA 22.9 PASS . GT:GQ:DP:AD:VAF:PL 0/1:3:17:11,1,1:0.0588235,0.0588235:20,0,39,0,39,39 20 10004223 . A AG 49 PASS . GT:GQ:DP:AD:VAF:PL 0/1:45:17:9,7:0.411765:48,0,46 20 10004351 . C G 76.6 PASS . GT:GQ:DP:AD:VAF:PL 1/1:65:20:0,20:1:76,65,0 20 10004389 . T G 70.4 PASS . GT:GQ:DP:AD:VAF:PL 1/1:61:22:0,22:1:70,62,0 20 10004610 . A C 64.8 PASS . GT:GQ:DP:AD:VAF:PL 1/1:49:18:0,18:1:64,48,0 20 10004725 . A G 60.5 PASS . GT:GQ:DP:AD:VAF:PL 0/1:57:21:7,14:0.666667:60,0,59 20 10004769 . TAAAACTATGC T 52.7 PASS . GT:GQ:DP:AD:VAF:PL 0/1:53:22:8,14:0.636364:52,0,66 20 10004874 . A C 99 PASS . GT:GQ:DP:AD:VAF:PL 1/1:99:32:0,32:1:99,75,0 20 10004887 . A G 67.5 PASS . GT:GQ:DP:AD:VAF:PL 0/1:67:30:16,14:0.466667:66,0,99 20 10005010 . C T 65.2 PASS . GT:GQ:DP:AD:VAF:PL 1/1:56:25:0,25:1:65,56,0 20 10005427 . C T 69.3 PASS . GT:GQ:DP:AD:VAF:PL 1/1:56:20:0,20:1:69,55,0 20 10005499 . A G 99 PASS . GT:GQ:DP:AD:VAF:PL 1/1:65:25:0,25:1:99,64,0 20 10005587 . A G 48.6 PASS . GT:GQ:DP:AD:VAF:PL 0/1:48:34:20,14:0.411765:48,0,58 20 10005723 . A G 67.9 PASS . GT:GQ:DP:AD:VAF:PL 1/1:61:32:0,32:1:67,61,0 20 10006291 . G A 52.2 PASS . GT:GQ:DP:AD:VAF:PL 0/1:52:29:17,12:0.413793:52,0,65 20 10006404 . A C 58.5 PASS . GT:GQ:DP:AD:VAF:PL 1/1:48:24:1,23:0.958333:58,48,0 20 10006682 . T A 65.7 PASS . GT:GQ:DP:AD:VAF:PL 1/1:55:23:0,23:1:65,55,0 20 10006819 . AAAAC A 53.9 PASS . GT:GQ:DP:AD:VAF:PL 1/1:49:25:0,25:1:53,50,0 20 10007150 . G C 69.2 PASS . GT:GQ:DP:AD:VAF:PL 0/1:69:32:13,19:0.59375:68,0,99 20 10007175 . C T 69.2 PASS . GT:GQ:DP:AD:VAF:PL 0/1:69:33:17,16:0.484848:67,0,99 20 10007352 . C T 62.1 PASS . GT:GQ:DP:AD:VAF:PL 1/1:50:26:0,26:1:62,50,0 20 10007531 . A G 65.3 PASS . GT:GQ:DP:AD:VAF:PL 1/1:55:21:0,21:1:65,55,0 20 10007980 . A C 56.6 PASS . GT:GQ:DP:AD:VAF:PL 1/1:40:21:1,20:0.952381:56,39,0 20 10008029 . T TA 61 PASS . GT:GQ:DP:AD:VAF:PL 1/1:39:28:1,23:0.821429:61,39,0 20 10008146 . TA T 55.9 PASS . GT:GQ:DP:AD:VAF:PL 1/1:42:29:1,27:0.931035:55,42,0 20 10008221 . T C 57.1 PASS . GT:GQ:DP:AD:VAF:PL 1/1:46:24:1,23:0.958333:57,46,0 20 10008458 . T G 67.3 PASS . GT:GQ:DP:AD:VAF:PL 1/1:60:26:0,26:1:67,60,0 20 10008742 . G T 57 PASS . GT:GQ:DP:AD:VAF:PL 0/1:51:21:6,15:0.714286:57,0,51 20 10008758 . C CA 68.5 PASS . GT:GQ:DP:AD:VAF:PL 1/1:53:20:1,19:0.95:68,52,0 20 10008921 . C CA 31.3 PASS . GT:GQ:DP:AD:VAF:PL 0/1:31:23:15,4:0.173913:31,0,43 20 10008948 . TA T 59.9 PASS . GT:GQ:DP:AD:VAF:PL 1/1:38:30:0,30:1:59,38,0 20 10008952 . CACACACACACA C,CCACACACACA 61.8 PASS . GT:GQ:DP:AD:VAF:PL 1/2:36:28:0,16,12:0.571429,0.428571:61,39,64,39,0,44 20 10009227 . A G 63.7 PASS . GT:GQ:DP:AD:VAF:PL 0/1:61:31:14,17:0.548387:63,0,65 20 10009246 . A G 99 PASS . GT:GQ:DP:AD:VAF:PL 1/1:99:35:0,35:1:99,76,0 20 10009400 . T A 64.6 PASS . GT:GQ:DP:AD:VAF:PL 1/1:56:33:0,32:0.969697:64,56,0 20 10009512 . C G 66.5 PASS . GT:GQ:DP:AD:VAF:PL 1/1:59:26:0,26:1:66,59,0 20 10009719 . A G 66.3 PASS . GT:GQ:DP:AD:VAF:PL 1/1:53:19:0,18:0.947368:66,53,0 20 10009795 . A G 62 PASS . GT:GQ:DP:AD:VAF:PL 1/1:53:22:0,21:0.954545:61,53,0 20 10009844 . G A 58.4 PASS . GT:GQ:DP:AD:VAF:PL 1/1:40:21:1,20:0.952381:58,40,0 20 10009871 . A G 28.8 PASS . GT:GQ:DP:AD:VAF:PL 1/1:5:22:5,17:0.772727:27,3,0 20 10009875 . A G 30.5 PASS . GT:GQ:DP:AD:VAF:PL 1/1:16:19:3,16:0.842105:30,16,0 20 10009879 . A G 53.9 PASS . GT:GQ:DP:AD:VAF:PL 1/1:43:20:0,20:1:53,43,0 20 10009883 . A G 55.5 PASS . GT:GQ:DP:AD:VAF:PL 1/1:44:19:0,19:1:55,44,0