##fileformat=VCFv4.1 ##samtoolsVersion=0.1.18-r572 ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##FORMAT= ##FORMAT= ##FORMAT= ##FORMAT= ##FORMAT= ##FORMAT= ##FORMAT= ##source_20120424.1=vcf-annotate(r735) --fill-AC-AN -f + ##FILTER= ##FILTER= ##FILTER= ##FILTER= ##FILTER= ##FILTER= ##FILTER= ##FILTER= ##FILTER= ##FILTER= ##FILTER= ##FILTER= ##INFO= ##INFO= ##source_20120424.2=vcf-annotate(r735) --fill-AC-AN -f + ##FILTER= ##source_20120710.1=vcf-annotate(r761) -f q=30 mpileup-v1/merged.filt.vcf.gz #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT A B C D 1 10177 . A C 37 MinMQ DP=495;VDB=0.0168;AF1=0.1596;AC1=1;DP4=167,82,52,21;MQ=13;FQ=37;PV4=0.57,1,1,1;AN=8;AC=1 GT:PL:DP:SP:GQ 0/0:0,0,15:101:2:5 0/0:0,36,89:51:5:40 0/0:0,79,103:85:1:83 0/1:41,0,31:85:16:36 1 10250 . A C 61 MinMQ DP=271;VDB=0.0265;AF1=0.125;AC1=1;DP4=87,78,18,9;MQ=17;FQ=61;PV4=0.21,1,1,0.1;AN=8;AC=1 GT:DP:SP:GQ 0/0:60:0:99 0/0:32:5:53 0/0:50:2:83 0/1:50:3:62 1 10257 . A C 31.9 MinMQ DP=400;VDB=0.0245;AF1=0.2404;AC1=2;DP4=93,100,26,10;MQ=16;FQ=31.9;PV4=0.01,1,1,0.013;AN=8;AC=2 GT:PL:DP:SP:GQ 0/0:0,93,197:65:3:95 0/1:13,0,92:41:9:11 0/0:0,91,128:59:0:93 0/1:27,0,70:64:14:25 1 10329 . ACCCC ACCC 26.4 MinMQ INDEL;DP=315;VDB=0.0160;AF1=0.2047;AC1=2;DP4=2,42,9,16;MQ=17;FQ=29.3;PV4=0.0011,1,0.061,1;AN=8;AC=1 GT:PL:DP:SP:GQ 0/0:0,4,68:22:10:7 0/0:2,0,16:7:0:3 0/0:0,15,61:18:0:17 0/1:46,0,34:22:7:40 1 10352 . TACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCC TAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCC 253 MinMQ INDEL;DP=413;VDB=0.0226;AF1=0.8598;AC1=7;DP4=7,17,13,44;MQ=15;FQ=4.35;PV4=0.58,1,1,0.0055;AN=8;AC=7 GT:PL:DP:SP:GQ 1/1:67,6,0:18:2:11 1/1:14,7,0:12:0:12 1/1:111,22,0:23:0:26 0/1:83,0,22:28:2:18 1 10492 . C T 999 PASS DP=213;VDB=0.0102;AF1=0.375;AC1=3;DP4=84,74,34,19;MQ=32;FQ=999;PV4=0.2,0.11,0.057,0.13;AN=8;AC=3 GT:PL:DP:SP:GQ 0/1:85,0,255:57:3:86 0/0:0,123,255:41:0:99 0/1:255,0,255:47:0:99 0/1:114,0,255:66:4:99 1 10583 . G A 20 PASS DP=134;VDB=0.0071;AF1=0.1242;AC1=1;DP4=78,41,6,6;MQ=32;FQ=20;PV4=0.35,0.29,0.052,1;AN=8;AC=1 GT:PL:DP:SP:GQ 0/1:26,0,227:40:8:21 0/0:0,35,255:21:0:40 0/0:0,108,255:36:0:99 0/0:0,21,255:34:0:26 1 10797 . CAGA CAGAGA 90.4 MinMQ INDEL;DP=37;VDB=0.0243;AF1=0.2819;AC1=2;DP4=7,3,0,6;MQ=29;FQ=93.3;PV4=0.011,1,1,1;AN=8;AC=2 GT:PL:DP:SP:GQ 0/0:0,9,104:3:0:10 0/0:0,6,39:2:0:8 0/1:59,0,36:5:0:43 0/1:56,0,32:6:4:39 1 10821 . T A 49.7 MinMQ DP=9;VDB=0.0091;AF1=1;AC1=5;DP4=1,3,0,4;MQ=12;FQ=7.75;PV4=1,1,1,1;AN=8;AC=6 GT:PL:DP:SP:GQ 1/1:42,9,0:3:0:10 0/1:0,3,4:1:0:2 1/1:12,1,0:2:0:4 0/1:0,6,8:2:0:2 1 14907 . A G 999 MinMQ DP=461;VDB=0.0384;AF1=0.5;G3=8.874e-45,1,8.011e-40;HWE=0.0185;AC1=4;DP4=101,122,129,102;MQ=25;FQ=999;PV4=0.031,0.011,1,1;AN=8;AC=4 GT:PL:DP:SP:GQ 0/1:225,0,255:133:0:99 0/1:213,0,225:91:20:99 0/1:255,0,188:104:0:99 0/1:255,0,208:126:4:99 1 14930 . A G 999 MinMQ DP=502;VDB=0.0393;AF1=0.5;G3=1.282e-48,1,7.866e-46;HWE=0.0185;AC1=4;DP4=117,121,135,111;MQ=28;FQ=999;PV4=0.24,0.02,0.42,1;AN=8;AC=4 GT:PL:DP:SP:GQ 0/1:255,0,255:150:0:99 0/1:232,0,255:84:9:99 0/1:255,0,250:114:0:99 0/1:255,0,218:136:4:99 1 15118 . A G 196 MinMQ DP=408;VDB=0.0389;AF1=0.4995;G3=4.894e-09,1,2.035e-09;HWE=0.0193;AC1=4;DP4=79,107,98,101;MQ=13;FQ=196;PV4=0.19,1,0.16,1;AN=8;AC=4 GT:PL:DP:SP:GQ 0/1:42,0,97:110:1:45 0/1:14,0,34:82:7:17 0/1:54,0,93:90:2:57 0/1:92,0,15:103:1:18 1 15211 . T G 999 MinMQ DP=381;VDB=0.0374;AF1=0.6993;AC1=6;DP4=52,44,122,137;MQ=17;FQ=156;PV4=0.28,0.31,1,1;AN=8;AC=6 GT:PL:DP:SP:GQ 0/1:146,0,101:114:5:99 1/1:77,1,0:67:2:4 0/1:121,0,61:78:7:60 1/1:192,89,0:96:11:90 1 15274 . A T 999 MinMQ DP=229;VDB=0.0313;AF1=1;AC1=8;DP4=0,0,99,120;MQ=11;FQ=-92.5;AN=8;AC=8 GT:PL:DP:SP:GQ 1/1:83,114,0:54:0:99 1/1:82,108,0:48:0:99 1/1:84,105,0:47:0:99 1/1:112,175,0:70:0:99 1 15820 . G T 90.6 MinMQ DP=149;VDB=0.0252;AF1=0.374;AC1=3;DP4=24,68,15,40;MQ=17;FQ=90.6;PV4=1,1,2e-07,1;AN=8;AC=3 GT:PL:DP:SP:GQ 0/1:40,0,124:48:1:41 0/0:0,27,153:33:2:26 1/1:65,25,0:15:3:20 0/0:0,65,195:51:5:64 1 15903 . GCC GCCC 158 MinMQ INDEL;DP=14;VDB=0.0182;AF1=1;AC1=8;DP4=0,0,0,7;MQ=29;FQ=-18.2;AN=8;AC=8 GT:PL:DP:SP:GQ 1/1:29,3,0:1:0:13 1/1:44,6,0:2:0:16 1/1:29,3,0:1:0:13 1/1:72,9,0:3:0:19 1 16103 . T G 24.3 PASS DP=110;VDB=0.0122;AF1=0.2119;AC1=2;DP4=49,26,23,2;MQ=31;FQ=24.3;PV4=0.01,1,6.9e-13,0.33;AN=8;AC=1 GT:PL:DP:SP:GQ 0/0:0,2,228:39:11:5 0/0:0,7,189:15:6:10 0/0:0,0,218:25:0:4 0/1:26,0,192:21:5:24 1 16378 . T C 999 MinMQ DP=587;VDB=0.0267;AF1=0.5;G3=9.954e-26,1,3.125e-18;HWE=0.0185;AC1=4;DP4=128,75,245,120;MQ=18;FQ=999;PV4=0.36,0.23,0.024,1;AN=8;AC=4 GT:PL:DP:SP:GQ 0/1:127,0,150:194:9:99 0/1:118,0,139:108:4:99 0/1:156,0,80:130:3:83 0/1:166,0,148:136:1:99 1 16495 . G C 97.7 MinMQ DP=644;VDB=0.0239;AF1=0.2493;AC1=2;DP4=226,252,67,87;MQ=19;FQ=97.7;PV4=0.46,0.14,1,1;AN=8;AC=2 GT:PL:DP:SP:GQ 0/0:0,41,126:190:5:43 0/0:0,17,168:115:1:19 0/1:19,0,132:166:1:17 0/1:87,0,176:161:4:85 1 16534 . C T 264 MinMQ DP=516;VDB=0.0397;AF1=0.5;G3=3.737e-14,1,2.067e-30;HWE=0.0185;AC1=4;DP4=129,149,109,113;MQ=14;FQ=264;PV4=0.59,0.34,1,0.0011;AN=8;AC=4 GT:PL:DP:SP:GQ 0/1:97,0,110:151:4:99 0/1:38,0,92:115:2:41 0/1:50,0,120:118:5:53 0/1:85,0,158:116:5:88 1 16571 . G A 120 MinMQ DP=435;VDB=0.0388;AF1=0.4998;G3=1.594e-10,1,7.561e-11;HWE=0.0189;AC1=4;DP4=94,134,84,109;MQ=10;FQ=120;PV4=0.69,0.018,1,1;AN=8;AC=4 GT:PL:DP:SP:GQ 0/1:33,0,20:123:0:23 0/1:42,0,24:95:2:27 0/1:18,0,43:107:0:21 0/1:33,0,70:96:4:36 1 17538 . C A 64 MinMQ DP=393;VDB=0.0314;AF1=0.125;AC1=1;DP4=138,205,17,27;MQ=28;FQ=64;PV4=0.87,0.32,1,1;AN=8;AC=1 GT:PL:DP:SP:GQ 0/0:0,152,255:148:1:99 0/0:0,29,227:72:4:34 0/0:0,71,255:86:6:76 0/1:70,0,226:81:4:65 1 20144 . G A 98.2 MinMQ DP=304;VDB=0.0356;AF1=0.4851;G3=4.916e-07,1,8.127e-35;HWE=0.0213;AC1=4;DP4=91,122,40,43;MQ=15;FQ=98.2;PV4=0.44,0.0094,1,1;AN=8;AC=4 GT:PL:DP:SP:GQ 0/1:6,0,72:94:6:9 0/1:32,0,80:44:13:35 0/1:28,0,112:81:9:31 0/1:38,0,62:77:0:41 1 28558 . C T 164 MinMQ DP=142;VDB=0.0026;AF1=0.4529;G3=1.465e-06,1,4.392e-30;HWE=0.0307;AC1=4;DP4=38,62,18,20;MQ=17;FQ=164;PV4=0.34,1,1,1;AN=8;AC=4 GT:PL:DP:SP:GQ 0/1:0,0,104:44:9:4 0/1:27,0,28:32:3:27 0/1:77,0,113:35:5:79 0/1:64,0,31:27:0:35 1 28563 . A G 999 MinMQ DP=124;VDB=0.0072;AF1=1;AC1=8;DP4=22,31,27,39;MQ=18;FQ=-3.67;PV4=1,1,1,1;AN=8;AC=8 GT:PL:DP:SP:GQ 1/1:191,6,0:41:1:14 1/1:90,2,0:24:0:11 1/1:213,20,0:31:4:28 1/1:104,0,1:23:0:8 1 28590 . TT TTGGT 116 MinMQ INDEL;DP=112;VDB=0.0233;AF1=0.3933;AC1=3;DP4=5,46,10,16;MQ=19;FQ=54.6;PV4=0.005,1,1,0.00097;AN=8;AC=3 GT:PL:DP:SP:GQ 0/1:80,0,2:23:10:8 0/1:9,0,9:15:15:9 0/1:51,0,26:21:2:31 0/0:0,17,39:18:5:16 1 30867 . CCTCTCTCTCTCTCTCTCTCTCTCTC CCTCTCTCTCTCTCTCTCTCTC 999 PASS INDEL;DP=229;VDB=0.0320;AF1=0.5;G3=4.953e-17,1,5e-52;HWE=0.0185;AC1=4;DP4=56,66,27,32;MQ=37;FQ=999;PV4=1,1,1,1;AN=8;AC=4 GT:PL:DP:SP:GQ 0/1:211,0,255:47:1:99 0/1:74,0,255:20:2:77 0/1:255,0,255:70:3:99 0/1:176,0,255:44:0:99 1 30923 . G T 999 PASS DP=107;VDB=0.0022;AF1=1;AC1=8;DP4=0,0,47,50;MQ=37;FQ=-36;AN=8;AC=8 GT:PL:DP:SP:GQ 1/1:255,75,0:25:0:99 1/1:221,30,0:10:0:72 1/1:255,117,0:39:0:99 1/1:255,69,0:23:0:99 1 40639 . CTTTTTTTTTTTTTTTTTTT CTTTTTTTTTTTTTTTT 118 PASS INDEL;DP=72;VDB=0.0379;AF1=1;AC1=8;DP4=0,0,14,2;MQ=33;FQ=-18.8;AN=8;AC=8 GT:PL:DP:SP:GQ 1/1:77,30,0:11:0:40 1/1:16,3,0:1:0:14 1/1:16,3,0:1:0:14 1/1:25,6,0:3:0:16 1 46633 . T A 46.4 MinMQ DP=169;VDB=0.0275;AF1=0.1322;AC1=1;DP4=67,81,9,9;MQ=15;FQ=46.4;PV4=0.8,0.5,1,1;AN=8;AC=1 GT:PL:DP:SP:GQ 0/1:52,0,60:47:0:47 0/0:0,7,71:30:0:12 0/0:0,114,146:38:0:99 0/0:0,154,179:51:0:99 1 49298 . T C 999 MinMQ DP=124;VDB=0.0376;AF1=1;AC1=8;DP4=17,14,49,36;MQ=24;FQ=-3.76;PV4=0.83,1,1,0.49;AN=8;AC=8 GT:PL:DP:SP:GQ 1/1:130,0,4:20:4:6 1/1:127,8,0:12:3:17 1/1:247,27,0:45:26:36 1/1:252,60,0:39:12:69 1 51803 . T C 999 MinMQ DP=88;VDB=0.0284;AF1=1;AC1=8;DP4=9,30,20,25;MQ=15;FQ=-3.64;PV4=0.065,0.21,1,1;AN=8;AC=8 GT:PL:DP:SP:GQ 1/1:45,2,0:22:11:10 1/1:60,5,0:6:3:13 1/1:105,1,0:30:2:9 1/1:153,6,0:26:2:14 1 51898 . C A 22.2 PASS DP=128;VDB=0.0230;AF1=0.1272;AC1=1;DP4=56,50,14,2;MQ=41;FQ=22.2;PV4=0.013,0.069,9.8e-17,1;AN=8;AC=1 GT:PL:DP:SP:GQ 0/1:28,0,255:23:13:23 0/0:0,35,255:19:3:40 0/0:0,59,255:44:0:64 0/0:0,11,255:36:9:16 1 51928 . G A 54.1 PASS DP=149;VDB=0.0311;AF1=0.1269;AC1=1;DP4=67,52,22,5;MQ=41;FQ=54.1;PV4=0.017,0.0073,7.3e-34,0.37;AN=8;AC=1 GT:PL:DP:SP:GQ 0/1:60,0,255:29:13:55 0/0:0,27,255:19:0:32 0/0:0,30,255:51:2:35 0/0:0,13,255:47:11:18 1 52058 . G C 17.5 PASS DP=132;VDB=0.0277;AF1=0.2308;AC1=2;DP4=55,57,15,2;MQ=35;FQ=17.5;PV4=0.0031,0.036,0.00091,0.03;AN=8;AC=2 GT:PL:DP:SP:GQ 0/1:13,0,178:20:7:11 0/0:0,60,255:20:0:62 0/1:12,0,255:51:8:10 0/0:0,15,255:38:9:17 1 52238 . T G 999 PASS DP=138;VDB=0.0125;AF1=1;AC1=8;DP4=0,0,65,60;MQ=37;FQ=-42;AN=8;AC=8 GT:PL:DP:SP:GQ 1/1:255,63,0:21:0:99 1/1:255,36,0:12:0:84 1/1:255,166,0:55:0:99 1/1:255,111,0:37:0:99 1 54586 . T C 51.1 PASS DP=116;VDB=0.0136;AF1=0.236;AC1=2;DP4=47,45,14,7;MQ=36;FQ=51.1;PV4=0.23,1,6.1e-11,1;AN=8;AC=2 GT:PL:DP:SP:GQ 0/1:48,0,186:24:0:46 0/0:0,26,252:14:0:28 0/1:11,0,255:32:7:9 0/0:0,40,255:43:9:42 1 54676 . C T 999 PASS DP=143;VDB=0.0244;AF1=0.4969;G3=1.224e-08,1,4.851e-96;HWE=0.0191;AC1=4;DP4=54,48,19,21;MQ=40;FQ=999;PV4=0.58,0.47,8.6e-13,0.2;AN=8;AC=4 GT:PL:DP:SP:GQ 0/1:82,0,233:23:7:85 0/1:121,0,237:20:2:99 0/1:173,0,255:49:6:99 0/1:13,0,255:50:2:16 1 54712 . TTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTT TTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTT 423 PASS INDEL;DP=161;VDB=0.0367;AF1=0.8839;AC1=7;DP4=1,0,4,12;MQ=45;FQ=-9.11;PV4=0.29,1,1,0.06;AN=8;AC=7 GT:PL:DP:SP:GQ 0/1:0,3,13:1:0:5 1/1:125,9,0:3:0:14 1/1:67,6,0:2:0:11 1/1:255,33,0:11:0:38 1 54753 . T G 61.5 PASS DP=177;VDB=0.0130;AF1=0.2019;AC1=2;DP4=48,82,1,5;MQ=40;FQ=61.5;PV4=0.42,1,0.27,1;AN=8;AC=2 GT:PL:DP:SP:GQ 0/1:5,0,237:20:3:4 0/1:63,0,193:16:0:60 0/0:0,160,255:53:0:99 0/0:0,141,255:47:0:99 1 54844 . G A 999 MinMQ DP=172;VDB=0.0254;AF1=0.4999;G3=4.104e-12,1,1.068e-33;HWE=0.0185;AC1=4;DP4=70,44,38,18;MQ=20;FQ=999;PV4=0.5,0.27,1,0.29;AN=8;AC=4 GT:PL:DP:SP:GQ 0/1:88,0,103:45:5:91 0/1:31,0,120:25:0:34 0/1:97,0,124:58:2:99 0/1:49,0,181:42:5:52 1 55085 . T A 149 MinMQ DP=190;VDB=0.0199;AF1=0.3891;AC1=3;DP4=73,61,13,39;MQ=25;FQ=149;PV4=0.0003,0.35,0.01,1;AN=8;AC=3 GT:PL:DP:SP:GQ 0/1:79,0,161:48:4:80 0/1:9,0,146:22:13:10 0/1:68,0,250:49:12:69 0/0:0,7,228:67:12:7 1 55164 . C A 999 MinMQ DP=96;VDB=0.0334;AF1=1;AC1=8;DP4=0,0,54,35;MQ=23;FQ=-36;AN=8;AC=8 GT:PL:DP:SP:GQ 1/1:163,60,0:20:0:99 1/1:124,30,0:10:0:72 1/1:198,69,0:23:0:99 1/1:203,108,0:36:0:99 1 55926 . T C 999 MinMQ DP=56;VDB=0.0269;AF1=1;AC1=8;DP4=0,0,23,32;MQ=14;FQ=-11.9;AN=8;AC=8 GT:PL:DP:SP:GQ 1/1:114,30,0:10:0:48 1/1:8,6,0:2:0:24 1/1:130,63,0:21:0:81 1/1:78,66,0:22:0:84 1 57376 . C T 16 MinMQ DP=143;VDB=0.0237;AF1=0.1883;AC1=2;DP4=70,55,2,13;MQ=28;FQ=16;PV4=0.002,0.034,0.001,0.027;AN=8;AC=2 GT:PL:DP:SP:GQ 0/1:4,0,201:26:8:3 0/1:18,0,188:19:10:15 0/0:0,26,246:38:15:29 0/0:0,154,255:57:0:99 1 57856 . T A 999 MinMQ DP=191;VDB=0.0263;AF1=0.5;G3=5.154e-23,1,1.244e-12;HWE=0.0185;AC1=4;DP4=58,51,29,51;MQ=21;FQ=999;PV4=0.027,0.028,1,1;AN=8;AC=4 GT:PL:DP:SP:GQ 0/1:204,0,154:54:13:99 0/1:121,0,52:29:9:55 0/1:142,0,175:58:2:99 0/1:104,0,198:48:0:99 1 57952 . A C 118 MinMQ DP=30;VDB=0.0356;AF1=0.8939;AC1=7;DP4=1,1,8,19;MQ=10;FQ=7.51;PV4=0.53,0.23,0.0064,0.46;AN=8;AC=7 GT:PL:DP:SP:GQ 1/1:36,21,0:7:0:27 1/1:17,6,0:2:0:12 1/1:40,33,0:11:0:39 0/1:29,0,12:9:4:7 1 58176 . G A 94.7 MinMQ DP=93;VDB=0.0330;AF1=0.3746;AC1=3;DP4=51,13,15,9;MQ=17;FQ=94.7;PV4=0.11,0.0027,1,1;AN=8;AC=3 GT:PL:DP:SP:GQ 0/1:30,0,23:22:0:26 0/1:18,0,15:12:7:17 0/1:55,0,102:29:2:56 0/0:0,42,114:25:9:41 1 58211 . A G 999 MinMQ DP=46;VDB=0.0332;AF1=1;AC1=8;DP4=0,0,30,15;MQ=22;FQ=-11.8;AN=8;AC=8 GT:PL:DP:SP:GQ 1/1:113,30,0:10:0:47 1/1:7,6,0:2:0:23 1/1:148,60,0:20:0:77 1/1:143,39,0:13:0:56 1 58771 . T C 999 MinMQ DP=263;VDB=0.0270;AF1=0.375;AC1=3;DP4=99,85,29,44;MQ=20;FQ=999;PV4=0.053,0.46,1,1;AN=8;AC=3 GT:PL:DP:SP:GQ 0/1:95,0,124:60:2:96 0/0:0,123,209:41:0:99 0/1:179,0,208:101:6:99 0/1:94,0,169:55:6:95 1 58866 . C G 119 MinMQ DP=233;VDB=0.0293;AF1=0.2581;AC1=2;DP4=77,98,12,40;MQ=18;FQ=119;PV4=0.0092,0.058,1,0.19;AN=8;AC=2 GT:PL:DP:SP:GQ 0/1:58,0,112:49:1:56 0/0:0,102,152:34:0:99 0/1:69,0,180:70:11:67 0/0:0,10,148:74:16:12 1 60332 . T C 97.6 MinMQ DP=239;VDB=0.0192;AF1=0.3089;AC1=2;DP4=77,104,22,32;MQ=17;FQ=97.6;PV4=0.88,1,1,1;AN=8;AC=2 GT:PL:DP:SP:GQ 0/0:0,0,99:61:9:3 0/0:0,111,185:37:0:99 0/1:70,0,145:68:7:70 0/1:33,0,123:69:0:33 1 61219 . T C 42.6 MinMQ DP=180;VDB=0.0243;AF1=0.1351;AC1=1;DP4=41,105,18,15;MQ=24;FQ=42.6;PV4=0.0069,0.27,0.32,1;AN=8;AC=1 GT:PL:DP:SP:GQ 0/0:0,6,128:36:5:11 0/0:0,57,168:31:0:62 0/1:48,0,227:53:21:43 0/0:0,16,255:59:6:21 1 61442 . A G 999 PASS DP=96;VDB=0.0348;AF1=1;AC1=8;DP4=0,0,41,47;MQ=30;FQ=-27;AN=8;AC=8 GT:PL:DP:SP:GQ 1/1:197,42,0:14:0:75 1/1:108,21,0:7:0:54 1/1:255,99,0:33:0:99 1/1:255,102,0:34:0:99 1 61499 . G A 87.1 PASS DP=140;VDB=0.0120;AF1=0.3006;AC1=2;DP4=54,55,18,12;MQ=35;FQ=87.1;PV4=0.41,0.3,2.4e-12,1;AN=8;AC=2 GT:PL:DP:SP:GQ 0/1:61,0,243:24:2:60 0/0:0,1,231:14:7:4 0/1:32,0,255:43:3:31 0/0:0,48,255:58:6:49 1 61579 . G A 107 MinMQ DP=161;VDB=0.0304;AF1=0.25;AC1=2;DP4=88,29,32,10;MQ=20;FQ=107;PV4=1,0.12,0.015,0.43;AN=8;AC=2 GT:PL:DP:SP:GQ 0/0:0,65,171:34:3:67 0/0:0,32,152:18:3:34 0/1:40,0,174:56:0:38 0/1:75,0,207:51:1:73 1 61987 . A G 999 PASS DP=206;VDB=0.0287;AF1=0.5;G3=1.244e-38,1,7.859e-46;HWE=0.0185;AC1=4;DP4=46,65,42,48;MQ=39;FQ=999;PV4=0.48,0.072,0.00033,1;AN=8;AC=4 GT:PL:DP:SP:GQ 0/1:255,0,255:58:0:99 0/1:182,0,218:22:2:99 0/1:255,0,255:62:3:99 0/1:220,0,255:59:6:99 1 61989 . G C 999 PASS DP=208;VDB=0.0311;AF1=0.5;G3=3.141e-40,1,8.15e-49;HWE=0.0185;AC1=4;DP4=47,65,42,49;MQ=39;FQ=999;PV4=0.57,0.058,8.7e-05,1;AN=8;AC=4 GT:PL:DP:SP:GQ 0/1:255,0,255:59:1:99 0/1:190,0,233:22:2:99 0/1:255,0,255:62:3:99 0/1:216,0,255:60:6:99 1 62203 . T C 999 PASS DP=258;VDB=0.0354;AF1=0.5;G3=3.125e-31,1,5e-52;HWE=0.0185;AC1=4;DP4=77,73,47,52;MQ=40;FQ=999;PV4=0.61,1,2.6e-25,1;AN=8;AC=4 GT:PL:DP:SP:GQ 0/1:255,0,255:66:5:99 0/1:145,0,255:38:1:99 0/1:252,0,255:84:1:99 0/1:210,0,255:61:0:99 1 62239 . TACACACACACACACACA TACACACACACACACA 999 PASS INDEL;DP=223;VDB=0.0280;AF1=0.4961;G3=3.069e-08,1,4.923e-103;HWE=0.0192;AC1=4;DP4=83,54,34,25;MQ=41;FQ=999;PV4=0.75,0.056,2.1e-17,1;AN=8;AC=4 GT:PL:DP:SP:GQ 0/1:248,0,255:45:1:99 0/1:12,0,255:23:9:15 0/1:183,0,255:68:2:99 0/1:158,0,255:60:6:99 1 62271 . A G 134 PASS DP=187;VDB=0.0101;AF1=0.498;G3=2.233e-09,1,4.959e-103;HWE=0.0189;AC1=4;DP4=92,56,14,20;MQ=41;FQ=134;PV4=0.033,0.013,1.9e-22,0.0028;AN=8;AC=4 GT:PL:DP:SP:GQ 0/1:65,0,255:35:1:68 0/1:19,0,255:28:2:22 0/1:17,0,255:60:11:20 0/1:39,0,255:59:14:42 1 62777 . A T 999 MinMQ DP=251;VDB=0.0308;AF1=0.499;G3=3.104e-08,1,1.551e-35;HWE=0.0187;AC1=4;DP4=80,108,35,26;MQ=21;FQ=999;PV4=0.055,1,1,0.39;AN=8;AC=4 GT:PL:DP:SP:GQ 0/1:115,0,137:69:1:99 0/1:124,0,169:34:6:99 0/1:87,0,202:76:5:90 0/1:18,0,109:70:3:21 1 63735 . CCTACTA CCTA 999 MinMQ INDEL;DP=141;VDB=0.0354;AF1=0.5;G3=9.836e-28,1,9.22e-15;HWE=0.0185;AC1=4;DP4=36,24,32,41;MQ=20;FQ=216;PV4=0.082,1.2e-09,1,0.023;AN=8;AC=4 GT:PL:DP:SP:GQ 0/1:83,0,86:30:6:84 0/1:130,0,56:21:0:59 0/1:184,0,40:43:5:43 0/1:181,0,55:39:3:58 1 64613 . T A 999 MinMQ DP=328;VDB=0.0091;AF1=0.5;G3=7.862e-12,1,3.13e-37;HWE=0.0185;AC1=4;DP4=134,130,23,36;MQ=27;FQ=999;PV4=0.11,1,1,0.36;AN=8;AC=4 GT:PL:DP:SP:GQ 0/1:79,0,175:95:0:82 0/1:48,0,208:47:2:51 0/1:193,0,248:95:13:99 0/1:107,0,211:86:0:99 1 66162 . A T 999 PASS DP=215;VDB=0.0231;AF1=0.4998;G3=1.238e-10,1,1.58e-77;HWE=0.0186;AC1=4;DP4=62,67,26,36;MQ=39;FQ=999;PV4=0.44,1,3.3e-21,1;AN=8;AC=4 GT:PL:DP:SP:GQ 0/1:170,0,255:45:3:99 0/1:77,0,255:30:0:80 0/1:183,0,255:69:3:99 0/1:26,0,255:47:0:29 1 66442 . TATATAATATA TATATAATATAATATA 132 PASS INDEL;DP=233;VDB=0.0328;AF1=0.3333;AC1=3;DP4=64,69,21,10;MQ=42;FQ=135;PV4=0.071,1,3.5e-27,0.11;AN=8;AC=3 GT:PL:DP:SP:GQ 0/1:62,0,255:30:2:62 0/0:0,50,255:37:0:50 0/1:91,0,255:65:8:91 0/1:3,0,255:32:2:5 1 66507 . T A 999 PASS DP=202;VDB=0.0385;AF1=0.626;AC1=5;DP4=25,14,63,82;MQ=42;FQ=999;PV4=0.03,0.023,1,0.0014;AN=8;AC=5 GT:PL:DP:SP:GQ 0/1:255,0,205:42:7:99 0/1:255,0,20:37:12:21 0/1:255,0,155:57:4:99 1/1:255,72,0:48:0:71 1 66521 . TATATAATATA TATATAATATAATATA 999 PASS INDEL;DP=200;VDB=0.0384;AF1=0.3747;AC1=3;DP4=61,75,25,12;MQ=43;FQ=999;PV4=0.016,1,3.8e-20,0.38;AN=8;AC=3 GT:PL:DP:SP:GQ 0/1:233,0,255:40:7:99 0/1:25,0,255:32:16:26 0/1:178,0,255:56:3:99 0/0:0,75,255:45:3:74 1 69511 . A G 999 MinMQ DP=79;VDB=0.0355;AF1=1;AC1=8;DP4=1,0,44,31;MQ=18;FQ=-30.9;PV4=1,1,1,1;AN=8;AC=8 GT:PL:DP:SP:GQ 1/1:133,42,0:14:0:79 1/1:95,25,0:12:0:62 1/1:170,57,0:19:0:94 1/1:192,93,0:31:0:99 1 70300 . C T 14.2 MinMQ DP=147;VDB=0.0063;AF1=0.1206;AC1=1;DP4=63,68,7,5;MQ=19;FQ=14.2;PV4=0.56,1,0.057,0.22;AN=8;AC=1 GT:PL:DP:SP:GQ 0/1:20,0,181:35:0:15 0/0:0,39,144:25:7:45 0/0:0,122,201:46:0:99 0/0:0,111,207:37:0:99 1 73822 . A G 161 MinMQ DP=175;VDB=0.0290;AF1=0.2494;AC1=2;DP4=67,87,9,10;MQ=25;FQ=161;PV4=0.81,0.5,1,0.45;AN=8;AC=2 GT:PL:DP:SP:GQ 0/1:25,0,203:41:1:23 0/1:144,0,170:29:6:99 0/0:0,178,255:59:0:99 0/0:0,132,255:44:0:99 1 73841 . C T 999 PASS DP=182;VDB=0.0366;AF1=0.3748;AC1=3;DP4=50,64,12,26;MQ=30;FQ=999;PV4=0.25,1.6e-10,0.084,1;AN=8;AC=3 GT:PL:DP:SP:GQ 0/1:95,0,255:33:3:96 0/1:174,0,204:27:9:99 0/1:28,0,255:53:17:29 0/0:0,64,255:39:6:63 1 74092 . G A 26.8 MinMQ DP=158;VDB=0.0267;AF1=0.2721;G3=0.7501,7.846e-07,0.2499;HWE=0.0437;AC1=2;DP4=91,48,4,10;MQ=11;FQ=26.8;PV4=0.0093,0.39,1,1;AN=8;AC=2 GT:PL:DP:SP:GQ 0/0:0,5,79:32:10:7 1/1:40,26,0:33:7:19 0/0:0,105,85:35:0:93 0/0:0,160,38:53:0:46 1 79033 . A G 217 MinMQ DP=19;VDB=0.0139;AF1=1;AC1=8;DP4=0,0,12,7;MQ=18;FQ=-12.7;AN=8;AC=8 GT:PL:DP:SP:GQ 1/1:77,18,0:6:0:36 1/1:56,12,0:4:0:30 1/1:28,18,0:6:0:36 1/1:56,9,0:3:0:27 1 79050 . G T 258 MinMQ DP=29;VDB=0.0203;AF1=1;AC1=8;DP4=0,0,15,11;MQ=16;FQ=-18.3;AN=8;AC=8 GT:PL:DP:SP:GQ 1/1:87,21,0:7:0:45 1/1:52,15,0:5:0:39 1/1:45,24,0:8:0:48 1/1:74,18,0:6:0:42 1 79418 . G C 28.5 PASS DP=99;VDB=0.0139;AF1=0.2016;AC1=2;DP4=31,59,1,5;MQ=39;FQ=28.5;PV4=0.66,0.015,0.045,0.00068;AN=8;AC=2 GT:PL:DP:SP:GQ 0/1:5,0,236:21:3:4 0/1:30,0,229:18:0:27 0/0:0,78,255:26:0:81 0/0:0,93,255:31:0:96 1 79772 . C G 999 PASS DP=138;VDB=0.0342;AF1=0.25;AC1=2;DP4=68,47,11,9;MQ=30;FQ=999;PV4=0.81,1,0.41,1;AN=8;AC=2 GT:PL:DP:SP:GQ 0/1:132,0,127:29:6:99 0/1:84,0,219:27:2:82 0/0:0,117,255:39:0:99 0/0:0,120,255:40:0:99 1 82115 . A G 51.1 MinMQ DP=137;VDB=0.0291;AF1=0.1264;AC1=1;DP4=71,55,3,7;MQ=27;FQ=51.1;PV4=0.19,0.085,1,1;AN=8;AC=1 GT:PL:DP:SP:GQ 0/1:57,0,204:36:6:52 0/0:0,14,206:20:0:19 0/0:0,123,255:41:0:99 0/0:0,117,255:39:0:99 1 82133 . CAAAAAAAAAAAAAAAAAAAAA CAAAAAAAAAAAAAAAAAAA,CAAAAAAAAAAAAAA 81.9 PASS INDEL;DP=107;VDB=0.0354;AF1=1;AC1=8;DP4=0,0,5,17;MQ=37;FQ=-22.7;AN=8;AC=7,1 GT:PL:DP:SP:GQ 1/2:83,73,58,31,0,18:9:0:29 1/1:10,3,0,10,3,10:1:0:17 1/1:32,15,0,32,15,32:7:0:29 1/1:32,15,0,32,15,32:5:0:29 1 82303 . T C 21 PASS DP=111;VDB=0.0241;AF1=0.1243;AC1=1;DP4=47,50,3,8;MQ=38;FQ=21;PV4=0.22,1,1.5e-14,1;AN=8;AC=1 GT:PL:DP:SP:GQ 0/1:27,0,255:20:5:22 0/0:0,24,255:21:0:29 0/0:0,96,255:32:0:99 0/0:0,75,255:35:0:80 1 82456 . A G 49.6 MinMQ DP=151;VDB=0.0367;AF1=0.2495;AC1=2;DP4=77,55,15,0;MQ=20;FQ=49.6;PV4=0.0011,0.29,1,1;AN=8;AC=2 GT:PL:DP:SP:GQ 0/1:31,0,124:31:8:29 0/1:27,0,107:23:9:25 0/0:0,151,251:50:0:99 0/0:0,129,255:43:0:99 1 82676 . T G 999 PASS DP=152;VDB=0.0213;AF1=0.25;AC1=2;DP4=70,59,9,11;MQ=34;FQ=999;PV4=0.48,0.37,0.0004,1;AN=8;AC=2 GT:PL:DP:SP:GQ 0/1:124,0,255:34:0:99 0/1:89,0,255:31:6:87 0/0:0,138,255:46:0:99 0/0:0,114,255:38:0:99 1 83084 . T A 999 PASS DP=84;VDB=0.0128;AF1=1;AC1=8;DP4=0,0,38,37;MQ=37;FQ=-33;AN=8;AC=8 GT:PL:DP:SP:GQ 1/1:255,48,0:16:0:87 1/1:203,27,0:9:0:66 1/1:255,72,0:24:0:99 1/1:255,78,0:26:0:99 1 83514 . C T 88.2 MinMQ DP=139;VDB=0.0336;AF1=0.4441;AC1=4;DP4=54,53,22,8;MQ=14;FQ=87.9;PV4=0.037,0.05,1,0.35;AN=8;AC=4 GT:PL:DP:SP:GQ 1/1:30,5,0:38:2:4 0/0:0,30,24:20:6:24 0/1:17,0,23:36:4:18 0/1:51,0,62:43:8:53 1 83786 . TAAAAAAAA TAAAAAAAAAAA 134 PASS INDEL;DP=144;VDB=0.0396;AF1=0.2505;AC1=2;DP4=43,54,4,9;MQ=40;FQ=137;PV4=0.39,1,2.7e-06,1;AN=8;AC=2 GT:PL:DP:SP:GQ 0/1:47,0,67:25:0:45 0/1:113,0,16:11:0:24 0/0:0,84,98:29:0:86 0/0:0,135,116:45:0:99 1 83829 . GAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAA GAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAA 999 PASS INDEL;DP=131;VDB=0.0388;AF1=0.5;AC1=4;DP4=20,14,15,17;MQ=39;FQ=999;PV4=0.46,1,7e-05,1;AN=8;AC=4 GT:PL:DP:SP:GQ 1/1:255,39,0:13:0:36 0/1:36,0,124:6:0:39 0/1:255,0,203:27:2:99 0/0:0,60,255:20:0:57 1 83895 . GAGAAAGAAAGAAAGAAAGA GAGAAAGAAAGAAAGA 999 PASS INDEL;DP=151;VDB=0.0325;AF1=0.75;AC1=6;DP4=18,19,38,34;MQ=44;FQ=999;PV4=0.69,0.00045,0.12,1;AN=8;AC=6 GT:PL:DP:SP:GQ 1/1:255,60,0:20:0:62 1/1:255,48,0:16:0:50 0/1:255,0,255:37:1:99 0/1:255,0,255:36:3:99 1 84010 . G A 37 PASS DP=190;VDB=0.0033;AF1=0.125;AC1=1;DP4=85,71,6,3;MQ=38;FQ=37;PV4=0.73,0.2,1,0.14;AN=8;AC=1 GT:PL:DP:SP:GQ 0/0:0,126,255:42:0:99 0/0:0,81,255:27:0:86 0/1:43,0,255:38:2:38 0/0:0,64,255:58:2:69 1 84014 . G A 38 PASS DP=192;VDB=0.0055;AF1=0.125;AC1=1;DP4=89,67,3,4;MQ=39;FQ=38;PV4=0.47,0.21,1,0.021;AN=8;AC=1 GT:PL:DP:SP:GQ 0/1:44,0,255:42:0:39 0/0:0,84,255:28:0:89 0/0:0,72,255:36:0:77 0/0:0,172,255:57:0:99 1 84018 . G A 79.6 PASS DP=188;VDB=0.0107;AF1=0.2497;AC1=2;DP4=77,64,8,3;MQ=41;FQ=79.6;PV4=0.35,0.17,1,0.0032;AN=8;AC=2 GT:PL:DP:SP:GQ 0/0:0,120,255:40:0:99 0/1:28,0,255:24:0:26 0/0:0,108,255:36:0:99 0/1:60,0,255:52:6:58 1 84244 . A C 999 PASS DP=213;VDB=0.0276;AF1=0.25;AC1=2;DP4=83,93,14,22;MQ=41;FQ=999;PV4=0.46,0.29,0.019,1;AN=8;AC=2 GT:PL:DP:SP:GQ 0/1:255,0,255:47:6:99 0/1:208,0,255:49:1:99 0/0:0,178,255:59:0:99 0/0:0,172,255:57:0:99 1 85597 . A C 999 PASS DP=139;VDB=0.0342;AF1=0.25;AC1=2;DP4=47,60,16,14;MQ=30;FQ=999;PV4=0.41,0.057,1,1;AN=8;AC=2 GT:PL:DP:SP:GQ 0/1:198,0,135:26:0:99 0/1:184,0,221:35:5:99 0/0:0,114,255:38:0:99 0/0:0,114,255:38:0:99 1 86018 . C G 999 PASS DP=181;VDB=0.0399;AF1=0.25;AC1=2;DP4=70,69,13,26;MQ=42;FQ=999;PV4=0.07,1,7e-14,0.12;AN=8;AC=2 GT:PL:DP:SP:GQ 0/1:200,0,255:36:11:99 0/1:240,0,255:46:2:99 0/0:0,129,255:43:0:99 0/0:0,160,255:53:0:99 1 86303 . G T 999 PASS DP=182;VDB=0.0329;AF1=0.25;AC1=2;DP4=76,66,17,22;MQ=40;FQ=999;PV4=0.28,1,3.7e-11,0.31;AN=8;AC=2 GT:PL:DP:SP:GQ 0/1:255,0,255:44:3:99 0/1:207,0,255:31:1:99 0/0:0,138,255:46:0:99 0/0:0,181,255:60:0:99 1 86331 . A G 999 PASS DP=187;VDB=0.0331;AF1=0.25;AC1=2;DP4=69,74,18,23;MQ=40;FQ=999;PV4=0.72,1,2.4e-05,1;AN=8;AC=2 GT:PL:DP:SP:GQ 0/1:255,0,255:51:1:99 0/1:216,0,255:34:0:99 0/0:0,120,255:40:0:99 0/0:0,178,255:59:0:99 1 86656 . G T 36 MinMQ DP=148;VDB=0.0132;AF1=0.125;AC1=1;DP4=76,63,0,9;MQ=28;FQ=36;PV4=0.0012,1,0.028,1;AN=8;AC=1 GT:PL:DP:SP:GQ 0/1:42,0,220:30:8:37 0/0:0,39,255:24:6:44 0/0:0,126,255:42:0:99 0/0:0,157,255:52:0:99 1 89677 . A G 195 MinMQ DP=136;VDB=0.0371;AF1=0.25;AC1=2;DP4=46,51,14,17;MQ=23;FQ=195;PV4=0.84,0.28,1,1;AN=8;AC=2 GT:PL:DP:SP:GQ 0/0:0,72,186:24:0:74 0/0:0,63,181:21:0:65 0/1:130,0,145:39:1:99 0/1:73,0,155:44:1:71 1 91072 . A G 200 MinMQ DP=88;VDB=0.0383;AF1=0.25;AC1=2;DP4=44,22,11,10;MQ=25;FQ=200;PV4=0.3,1,1,0.41;AN=8;AC=2 GT:PL:DP:SP:GQ 0/0:0,42,166:14:0:44 0/0:0,33,123:11:0:35 0/1:114,0,203:38:10:99 0/1:94,0,104:24:2:92 1 91075 . T C 187 MinMQ DP=85;VDB=0.0399;AF1=0.25;AC1=2;DP4=41,21,11,9;MQ=26;FQ=187;PV4=0.43,1,1,1;AN=8;AC=2 GT:PL:DP:SP:GQ 0/0:0,42,148:14:0:44 0/0:0,33,136:11:0:35 0/1:100,0,186:36:8:98 0/1:95,0,112:21:5:93 1 91336 . A T 999 MinMQ DP=69;VDB=0.0304;AF1=0.7419;AC1=6;DP4=11,19,1,37;MQ=20;FQ=216;PV4=0.0003,1,1,1;AN=8;AC=6 GT:PL:DP:SP:GQ 1/1:51,10,0:11:3:12 1/1:104,39,0:13:0:41 0/1:54,0,110:17:6:62 0/1:61,0,114:27:13:69 1 98929 . A G 28 MinMQ DP=172;VDB=0.0198;AF1=0.1249;AC1=1;DP4=63,78,12,9;MQ=21;FQ=28;PV4=0.35,0.23,0.15,1;AN=8;AC=1 GT:PL:DP:SP:GQ 0/0:0,90,234:30:0:95 0/1:34,0,191:43:3:29 0/0:0,114,245:38:0:99 0/0:0,28,150:51:6:33 1 98999 . TTTTATTTATTTATTTATTTATTTATTTATTTATTTATTTATTT TTTTATTTATTTATTTATTTATTTATTTATTTATTTATTTATTTATTT 999 PASS INDEL;DP=236;VDB=0.0395;AF1=0.5;G3=1.982e-19,1,1.257e-17;HWE=0.0185;AC1=4;DP4=33,36,32,46;MQ=35;FQ=999;PV4=0.51,1,0.0067,0.38;AN=8;AC=4 GT:PL:DP:SP:GQ 0/1:112,0,192:30:0:99 0/1:255,0,77:31:4:80 0/1:86,0,191:32:2:89 0/1:255,0,100:54:12:99 1 101686 . A G 89 PASS DP=304;VDB=0.0327;AF1=0.125;AC1=1;DP4=99,171,10,15;MQ=30;FQ=89;PV4=0.83,0.3,0.035,1;AN=8;AC=1 GT:PL:DP:SP:GQ 0/1:95,0,255:58:0:90 0/0:0,72,255:24:0:77 0/0:0,101,255:102:0:99 0/0:0,255,255:111:0:99