##fileformat=VCFv4.1 ##samtoolsVersion=0.1.19+ ##reference=file://EF_L5_3_whole_genome.txt ##contig= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##INFO= ##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= #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT EF_L5_aligned_only.sorted.bam E11-033_origin_first_part 2 . T G 49.3 . DP=5;VDB=6.148708e-03;AF1=1;AC1=2;DP4=0,0,5,0;MQ=24;FQ=-42 GT:PL:GQ 1/1:82,15,0:27 E11-033_origin_first_part 5 . C T 37 . DP=6;VDB=6.148708e-03;RPB=8.217058e-01;AF1=0.5016;AC1=1;DP4=1,0,5,0;MQ=28;FQ=-6.18;PV4=1,1,0,1 GT:PL:GQ 0/1:67,0,22:25 E11-033_origin_first_part 5 . C CAAATTTTATC 41.7 . INDEL;IS=5,0.833333;DP=6;VDB=6.148708e-03;AF1=1;AC1=2;DP4=0,0,5,0;MQ=24;FQ=-49.5 GT:PL:GQ 1/1:82,15,0:27 E11-033_origin_first_part 21267 . G T 4.77 . DP=96;VDB=1.206574e-02;RPB=1.109423e+00;AF1=0.4999;AC1=1;DP4=20,66,5,5;MQ=42;FQ=6.99;PV4=0.12,1,1,1 GT:PL:GQ 0/1:33,0,255:33 E11-033_origin_first_part 27624 . A T 55 . DP=61;VDB=6.387850e-03;RPB=-2.980479e+00;AF1=0.5;AC1=1;DP4=27,26,4,4;MQ=42;FQ=58;PV4=1,1,1,0.007 GT:PL:GQ 0/1:85,0,255:88 E11-033_origin_first_part 29481 . G T 53 . DP=107;VDB=3.003898e-03;RPB=-1.981529e+00;AF1=0.5;AC1=1;DP4=62,31,8,6;MQ=42;FQ=56;PV4=0.55,1,1,1 GT:PL:GQ 0/1:83,0,255:86 E11-033_origin_first_part 33126 . A T 3.01 . DP=78;VDB=9.575251e-02;RPB=4.257101e-01;AF1=0.4997;AC1=1;DP4=39,30,5,3;MQ=42;FQ=4.77;PV4=1,0.032,1,1 GT:PL:GQ 0/1:30,0,255:28 E11-033_origin_first_part 62548 . G T 200 . DP=91;VDB=9.137411e-03;RPB=-1.954592e+00;AF1=0.5;AC1=1;DP4=38,32,12,9;MQ=42;FQ=203;PV4=1,1,1,1 GT:PL:GQ 0/1:230,0,255:99 E11-033_origin_first_part 89684 . A T 8.64 . DP=40;VDB=6.148712e-03;RPB=-1.554044e+00;AF1=0.5;AC1=1;DP4=29,6,5,0;MQ=42;FQ=11.3;PV4=1,1,1,1 GT:PL:GQ 0/1:38,0,255:40 E11-033_origin_first_part 118237 . T C 3.54 . DP=92;VDB=3.043192e-01;RPB=-2.734644e+00;AF1=0.4998;AC1=1;DP4=21,24,33,13;MQ=30;FQ=5.47;PV4=0.019,0.08,1.7e-49,1 GT:PL:GQ 0/1:31,0,255:30 E11-033_origin_first_part 119443 . N A 222 . DP=72;VDB=4.399843e-01;AF1=1;AC1=2;DP4=0,0,35,37;MQ=42;FQ=-244 GT:PL:GQ 1/1:255,217,0:99 E11-033_origin_first_part 120910 . T G 40 . DP=79;VDB=1.980664e-01;RPB=-2.298054e+00;AF1=0.5;AC1=1;DP4=41,16,14,7;MQ=33;FQ=43;PV4=0.78,0.05,0.001,1 GT:PL:GQ 0/1:70,0,255:73 E11-033_origin_first_part 120911 . T C 40 . DP=79;VDB=2.000306e-01;RPB=-2.252994e+00;AF1=0.5;AC1=1;DP4=41,16,14,7;MQ=33;FQ=43;PV4=0.78,0.05,0.001,1 GT:PL:GQ 0/1:70,0,255:73 E11-033_origin_first_part 121013 . T G 225 . DP=147;VDB=3.658914e-01;RPB=3.575289e+00;AF1=0.5;AC1=1;DP4=30,32,31,54;MQ=33;FQ=225;PV4=0.18,0.014,4.7e-11,0.0052 GT:PL:GQ 0/1:255,0,255:99 E11-033_origin_first_part 121031 . T C 126 . DP=157;VDB=1.342246e-01;RPB=3.415009e+00;AF1=0.5;AC1=1;DP4=54,32,15,54;MQ=34;FQ=129;PV4=3.3e-07,1,2.5e-37,1 GT:PL:GQ 0/1:156,0,255:99 E11-033_origin_first_part 121032 . A C 119 . DP=156;VDB=1.377271e-01;RPB=3.978326e+00;AF1=0.5;AC1=1;DP4=56,35,13,49;MQ=34;FQ=122;PV4=6.1e-07,1,5.7e-21,1 GT:PL:GQ 0/1:149,0,255:99 E11-033_origin_first_part 121053 . T G 3.54 . DP=124;VDB=3.093475e-01;RPB=2.710909e+00;AF1=0.4998;AC1=1;DP4=40,31,8,44;MQ=33;FQ=5.47;PV4=4.9e-06,0.02,1.1e-61,0.0046 GT:PL:GQ 0/1:31,0,255:30 E11-033_origin_first_part 121470 . G T 19.1 . DP=212;VDB=4.690160e-01;RPB=9.966274e-01;AF1=0.5;AC1=1;DP4=42,35,102,12;MQ=25;FQ=22;PV4=5.4e-08,0.021,3.7e-31,0.011 GT:PL:GQ 0/1:49,0,255:52 E11-033_origin_first_part 121493 . C G 43 . DP=253;VDB=6.431350e-03;RPB=4.453752e-01;AF1=0.5;AC1=1;DP4=47,37,118,19;MQ=27;FQ=46;PV4=1.1e-06,1,2.8e-53,1 GT:PL:GQ 0/1:73,0,255:76 E11-033_origin_first_part 121503 . T C 28 . DP=288;VDB=1.154815e-01;RPB=-2.489724e+00;AF1=0.5;AC1=1;DP4=69,40,143,33;MQ=25;FQ=31;PV4=0.0012,0.017,2.4e-47,1 GT:PL:GQ 0/1:58,0,255:61 E11-033_origin_first_part 121515 . G C 47 . DP=295;VDB=3.567173e-03;RPB=-1.146914e+00;AF1=0.5;AC1=1;DP4=62,39,128,42;MQ=25;FQ=50;PV4=0.02,1,4.4e-42,1 GT:PL:GQ 0/1:77,0,255:80 E11-033_origin_first_part 121559 . T G 5.46 . DP=318;VDB=1.310394e-01;RPB=4.607176e-01;AF1=0.4999;AC1=1;DP4=57,20,113,108;MQ=23;FQ=7.8;PV4=0.00049,0.087,1.5e-65,0.0092 GT:PL:GQ 0/1:34,0,224:34 E11-033_origin_first_part 121606 . T A 222 . DP=289;VDB=5.234077e-01;AF1=1;AC1=2;DP4=0,0,66,213;MQ=22;FQ=-282 GT:PL:GQ 1/1:255,255,0:99 E11-033_origin_first_part 122345 . A G 222 . DP=77;VDB=2.400343e-02;RPB=-1.501244e+00;AF1=1;AC1=2;DP4=0,1,37,37;MQ=42;FQ=-213;PV4=1,1,1,1 GT:PL:GQ 1/1:255,186,0:99 E11-033_origin_first_part 122534 . A G 222 . DP=64;VDB=5.949320e-03;AF1=1;AC1=2;DP4=0,0,38,24;MQ=42;FQ=-214 GT:PL:GQ 1/1:255,187,0:99 E11-033_origin_first_part 122914 . A C 222 . DP=72;VDB=7.102851e-02;AF1=1;AC1=2;DP4=0,0,41,29;MQ=42;FQ=-238 GT:PL:GQ 1/1:255,211,0:99 E11-033_origin_first_part 138099 . A T 20 . DP=43;VDB=7.361805e-03;RPB=-2.365874e+00;AF1=0.5;AC1=1;DP4=20,17,6,0;MQ=42;FQ=23;PV4=0.066,1,1,0.002 GT:PL:GQ 0/1:50,0,255:53 E11-033_origin_first_part 152035 . T A 37 . DP=84;VDB=3.320089e-02;RPB=2.962734e+00;AF1=0.5;AC1=1;DP4=36,38,5,5;MQ=42;FQ=40;PV4=1,1,1,1 GT:PL:GQ 0/1:67,0,255:70 E11-033_origin_first_part 171080 . G T 57 . DP=77;VDB=8.507452e-02;RPB=-1.265297e+00;AF1=0.5;AC1=1;DP4=34,33,5,5;MQ=42;FQ=60;PV4=1,1,1,1 GT:PL:GQ 0/1:87,0,255:90 E11-033_origin_first_part 201588 . ACCCCCCC ACCCCCCCC 14.6 . INDEL;IS=15,0.340909;DP=44;VDB=3.117377e-01;AF1=0.5;AC1=1;DP4=13,11,7,9;MQ=42;FQ=17.5;PV4=0.75,1,1,0.35 GT:PL:GQ 0/1:52,0,77:55 E11-033_origin_first_part 201946 . T A 4.77 . DP=88;VDB=1.384907e-01;RPB=-1.807803e+00;AF1=0.4999;AC1=1;DP4=40,38,6,4;MQ=42;FQ=6.99;PV4=0.74,1,1,1 GT:PL:GQ 0/1:33,0,255:33 E11-033_origin_first_part 206534 . A T 32 . DP=69;VDB=4.726383e-02;RPB=-1.283874e+00;AF1=0.5;AC1=1;DP4=30,31,4,4;MQ=42;FQ=35;PV4=1,1,0,0.48 GT:PL:GQ 0/1:62,0,255:65 E11-033_origin_first_part 264547 . G C 10.4 . DP=71;VDB=2.619251e-04;RPB=4.206755e+00;AF1=0.5;AC1=1;DP4=41,20,10,0;MQ=42;FQ=13.2;PV4=0.053,1,1,0.00049 GT:PL:GQ 0/1:40,0,255:42 E11-033_origin_first_part 289026 . T C 67 . DP=90;VDB=1.526797e-01;RPB=5.738824e-02;AF1=0.5;AC1=1;DP4=31,46,8,5;MQ=42;FQ=70;PV4=0.23,0.00028,1,0.00018 GT:PL:GQ 0/1:97,0,255:99 E11-033_origin_first_part 301957 . G T 24 . DP=71;VDB=1.160067e-02;RPB=-4.091586e-01;AF1=0.5;AC1=1;DP4=28,35,3,5;MQ=42;FQ=27;PV4=1,1,1,1 GT:PL:GQ 0/1:54,0,255:57 E11-033_origin_first_part 340739 . A T 70 . DP=43;VDB=3.059944e-04;RPB=2.731647e+00;AF1=0.5;AC1=1;DP4=20,14,9,0;MQ=42;FQ=73;PV4=0.02,1,1,1 GT:PL:GQ 0/1:100,0,255:99 E11-033_origin_first_part 346273 . A T 20 . DP=43;VDB=2.581157e-02;RPB=2.979248e-01;AF1=0.5;AC1=1;DP4=20,17,6,0;MQ=42;FQ=23;PV4=0.066,1,1,1 GT:PL:GQ 0/1:50,0,255:53 E11-033_origin_first_part 353933 . A T 10.4 . DP=65;VDB=2.032476e-03;RPB=-1.558005e-01;AF1=0.5;AC1=1;DP4=26,26,6,7;MQ=39;FQ=13.2;PV4=1,1,0,1 GT:PL:GQ 0/1:40,0,255:42 E11-033_origin_first_part 355206 . TATTTG T 11.8 . INDEL;IS=20,0.210526;DP=95;VDB=1.147966e-02;AF1=0.5;AC1=1;DP4=37,38,10,10;MQ=39;FQ=14.6;PV4=1,8.8e-08,0,0.011 GT:PL:GQ 0/1:49,0,255:51 E11-033_origin_first_part 366124 . C A 15.1 . DP=45;VDB=2.957925e-03;RPB=-1.719535e+00;AF1=0.5;AC1=1;DP4=5,34,0,6;MQ=42;FQ=18.1;PV4=1,1,1,0.35 GT:PL:GQ 0/1:45,0,255:48 E11-033_origin_first_part 389479 . T A 8.64 . DP=77;VDB=1.229217e-01;RPB=2.529219e+00;AF1=0.5;AC1=1;DP4=25,44,4,4;MQ=42;FQ=11.3;PV4=0.47,0.0014,1,0.4 GT:PL:GQ 0/1:38,0,255:40 E11-033_origin_first_part 399862 . G A 225 . DP=65;VDB=2.460670e-01;RPB=2.642906e+00;AF1=0.5;AC1=1;DP4=15,13,27,10;MQ=42;FQ=225;PV4=0.12,0.46,1,1 GT:PL:GQ 0/1:255,0,255:99 E11-033_origin_first_part 421600 . A T 13.2 . DP=38;VDB=5.617677e-03;RPB=-3.152385e+00;AF1=0.5;AC1=1;DP4=20,13,5,0;MQ=42;FQ=16.1;PV4=0.14,1,1,2.9e-05 GT:PL:GQ 0/1:43,0,255:46 E11-033_origin_first_part 486281 . A ACTAAATT 26.5 . INDEL;IS=7,0.155556;DP=45;VDB=2.987787e-01;AF1=0.5;AC1=1;DP4=22,16,7,0;MQ=42;FQ=29.5;PV4=0.04,3.3e-16,0,7.4e-11 GT:PL:GQ 0/1:64,0,255:67 E11-033_origin_first_part 503288 . T A 19.1 . DP=45;VDB=7.583604e-02;RPB=1.109400e-01;AF1=0.5;AC1=1;DP4=20,19,3,2;MQ=42;FQ=22;PV4=1,1,1,1 GT:PL:GQ 0/1:49,0,255:52 E11-033_origin_first_part 509028 . T A 41 . DP=80;VDB=7.303111e-02;RPB=2.945941e+00;AF1=0.5;AC1=1;DP4=25,45,3,7;MQ=42;FQ=44;PV4=1,1,1,0.24 GT:PL:GQ 0/1:71,0,255:74 E11-033_origin_first_part 570339 . T TTGTTCCAA 59.5 . INDEL;IS=9,0.079646;DP=113;VDB=2.137302e-01;AF1=0.5;AC1=1;DP4=26,60,13,3;MQ=40;FQ=62.5;PV4=0.00019,1.2e-21,0.43,4.2e-16 GT:PL:GQ 0/1:97,0,255:99 E11-033_origin_first_part 575266 . G C 95 . DP=55;VDB=3.194617e-02;RPB=-3.298864e-01;AF1=0.5;AC1=1;DP4=18,28,5,4;MQ=42;FQ=98;PV4=0.47,1,1,1 GT:PL:GQ 0/1:125,0,255:99 E11-033_origin_first_part 602960 . A G 225 . DP=104;VDB=3.199472e-02;RPB=-1.782834e+00;AF1=0.5;AC1=1;DP4=30,32,24,13;MQ=42;FQ=225;PV4=0.14,0.033,0.033,1 GT:PL:GQ 0/1:255,0,255:99 E11-033_origin_first_part 612721 . T A 23 . DP=61;VDB=3.059944e-04;RPB=3.080949e+00;AF1=0.5;AC1=1;DP4=27,25,0,9;MQ=42;FQ=26;PV4=0.0033,1,1,1 GT:PL:GQ 0/1:53,0,255:56 E11-033_origin_first_part 631186 . A T 14.2 . DP=75;VDB=3.196012e-03;RPB=-5.406448e-01;AF1=0.5;AC1=1;DP4=45,22,4,4;MQ=42;FQ=17.1;PV4=0.44,1,6.9e-06,1 GT:PL:GQ 0/1:44,0,255:47 E11-033_origin_first_part 663083 . C A 84 . DP=50;VDB=1.155989e-01;RPB=3.823875e+00;AF1=0.5;AC1=1;DP4=16,26,3,5;MQ=42;FQ=87;PV4=1,1,1,0.24 GT:PL:GQ 0/1:114,0,255:99 E11-033_origin_first_part 674104 . G T 9.52 . DP=54;VDB=1.497727e-03;RPB=-4.249084e+00;AF1=0.5;AC1=1;DP4=27,20,7,0;MQ=42;FQ=12.3;PV4=0.038,1,1,0.0023 GT:PL:GQ 0/1:39,0,255:41 E11-033_origin_first_part 690848 . TAAAAA TAAA 4.42 . INDEL;IS=11,0.139241;DP=79;VDB=5.169117e-03;AF1=0.5;AC1=1;DP4=40,25,11,0;MQ=42;FQ=6.56;PV4=0.013,2.3e-57,1,1 GT:PL:GQ 0/1:40,0,255:40 E11-033_origin_first_part 697978 . TGG TG 33.5 . INDEL;IS=24,0.157895;DP=152;VDB=5.245726e-01;AF1=0.5;AC1=1;DP4=55,68,12,12;MQ=42;FQ=36.5;PV4=0.66,2.6e-16,1,1 GT:PL:GQ 0/1:71,0,255:74 E11-033_origin_first_part 699473 . C A 20 . DP=120;VDB=2.322082e-02;RPB=1.148570e+00;AF1=0.5;AC1=1;DP4=60,46,7,7;MQ=42;FQ=23;PV4=0.78,1,1,1 GT:PL:GQ 0/1:50,0,255:53 E11-033_origin_first_part 703653 . N C 222 . DP=100;VDB=2.780773e-01;AF1=1;AC1=2;DP4=0,0,48,52;MQ=41;FQ=-282 GT:PL:GQ 1/1:255,255,0:99 E11-033_origin_first_part 714369 . G T 86 . DP=82;VDB=2.656684e-02;RPB=-7.543619e-01;AF1=0.5;AC1=1;DP4=39,31,6,6;MQ=42;FQ=89;PV4=0.76,1,1,1 GT:PL:GQ 0/1:116,0,255:99 E11-033_origin_first_part 718355 . A G 177 . DP=67;VDB=6.516600e-03;RPB=2.665621e-01;AF1=0.5;AC1=1;DP4=27,23,13,4;MQ=42;FQ=180;PV4=0.15,1,1,1 GT:PL:GQ 0/1:207,0,255:99 E11-033_origin_first_part 720771 . ATCT AT 6.55 . INDEL;IS=8,0.129032;DP=62;VDB=2.225625e-02;AF1=0.5;AC1=1;DP4=30,24,0,8;MQ=42;FQ=9.05;PV4=0.0048,2.5e-18,1,9.7e-17 GT:PL:GQ 0/1:43,0,255:44 E11-033_origin_first_part 724399 . A T 22 . DP=77;VDB=2.355943e-03;RPB=-3.939980e+00;AF1=0.5;AC1=1;DP4=35,33,5,4;MQ=42;FQ=25;PV4=1,0.0026,1,1.1e-05 GT:PL:GQ 0/1:52,0,255:55 E11-033_origin_first_part 765480 . G T 64 . DP=90;VDB=5.123512e-02;RPB=-3.578651e+00;AF1=0.5;AC1=1;DP4=37,41,6,6;MQ=42;FQ=67;PV4=1,1,1,1 GT:PL:GQ 0/1:94,0,255:97 E11-033_origin_first_part 802189 . C A 185 . 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T A 47 . DP=81;VDB=8.857192e-04;RPB=2.836833e-01;AF1=0.5;AC1=1;DP4=40,30,4,6;MQ=42;FQ=50;PV4=0.33,1,1,0.022 GT:PL:GQ 0/1:77,0,255:80 E11-033_origin_first_part 921993 . A T 91 . DP=98;VDB=3.685496e-02;RPB=1.766206e+00;AF1=0.5;AC1=1;DP4=40,43,8,7;MQ=42;FQ=94;PV4=0.78,0.0089,1,1 GT:PL:GQ 0/1:121,0,255:99 E11-033_origin_first_part 949024 . T C 25 . DP=75;VDB=1.361377e-01;RPB=-2.753074e+00;AF1=0.5;AC1=1;DP4=35,28,12,0;MQ=42;FQ=28;PV4=0.0026,1,1,1 GT:PL:GQ 0/1:55,0,255:58 E11-033_origin_first_part 966750 . C A 42 . DP=59;VDB=1.221691e-04;RPB=-1.161675e+00;AF1=0.5;AC1=1;DP4=20,29,10,0;MQ=42;FQ=45;PV4=0.0008,1,1,1 GT:PL:GQ 0/1:72,0,255:75 E11-033_origin_first_part 969673 . G T 8.64 . DP=47;VDB=2.957925e-03;RPB=-3.426975e+00;AF1=0.5;AC1=1;DP4=22,19,0,6;MQ=42;FQ=11.3;PV4=0.023,6.3e-08,1,0.00017 GT:PL:GQ 0/1:38,0,255:40 E11-033_origin_first_part 982218 . T A 13.2 . 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