Mercurial > repos > iuc > rgrnastar
view test-data/filtered3.vcf @ 30:4014de1b6daf draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/rgrnastar commit 2b3fa63863a366beef057c7f75ccbcaf0c280151
| author | iuc |
|---|---|
| date | Tue, 27 Aug 2024 14:11:16 +0000 |
| parents | |
| children |
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##fileformat=VCFv4.2 ##FILTER=<ID=PASS,Description="All filters passed"> ##bcftoolsVersion=1.15.1+htslib-1.15.1 ##bcftoolsCommand=mpileup -f filtered3.Homo_sapiens.GRCh38.dna.chromosome.21.fa filtered3.bam ##reference=file://filtered3.Homo_sapiens.GRCh38.dna.chromosome.21.fa ##contig=<ID=21,length=697740> ##ALT=<ID=*,Description="Represents allele(s) other than observed."> ##INFO=<ID=INDEL,Number=0,Type=Flag,Description="Indicates that the variant is an INDEL."> ##INFO=<ID=IDV,Number=1,Type=Integer,Description="Maximum number of raw reads supporting an indel"> ##INFO=<ID=IMF,Number=1,Type=Float,Description="Maximum fraction of raw reads supporting an indel"> ##INFO=<ID=DP,Number=1,Type=Integer,Description="Raw read depth"> ##INFO=<ID=VDB,Number=1,Type=Float,Description="Variant Distance Bias for filtering splice-site artefacts in RNA-seq data (bigger is better)",Version="3"> ##INFO=<ID=RPBZ,Number=1,Type=Float,Description="Mann-Whitney U-z test of Read Position Bias (closer to 0 is better)"> ##INFO=<ID=MQBZ,Number=1,Type=Float,Description="Mann-Whitney U-z test of Mapping Quality Bias (closer to 0 is better)"> ##INFO=<ID=BQBZ,Number=1,Type=Float,Description="Mann-Whitney U-z test of Base Quality Bias (closer to 0 is better)"> ##INFO=<ID=MQSBZ,Number=1,Type=Float,Description="Mann-Whitney U-z test of Mapping Quality vs Strand Bias (closer to 0 is better)"> ##INFO=<ID=SCBZ,Number=1,Type=Float,Description="Mann-Whitney U-z test of Soft-Clip Length Bias (closer to 0 is better)"> ##INFO=<ID=FS,Number=1,Type=Float,Description="Phred-scaled p-value using Fisher's exact test to detect strand bias"> ##INFO=<ID=SGB,Number=1,Type=Float,Description="Segregation based metric."> ##INFO=<ID=MQ0F,Number=1,Type=Float,Description="Fraction of MQ0 reads (smaller is better)"> ##FORMAT=<ID=PL,Number=G,Type=Integer,Description="List of Phred-scaled genotype likelihoods"> ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype"> ##INFO=<ID=AC,Number=A,Type=Integer,Description="Allele count in genotypes for each ALT allele, in the same order as listed"> ##INFO=<ID=AN,Number=1,Type=Integer,Description="Total number of alleles in called genotypes"> ##INFO=<ID=DP4,Number=4,Type=Integer,Description="Number of high-quality ref-forward , ref-reverse, alt-forward and alt-reverse bases"> ##INFO=<ID=MQ,Number=1,Type=Integer,Description="Average mapping quality"> ##bcftools_callVersion=1.15.1+htslib-1.15.1 ##bcftools_callCommand=call -mv -Ob -o filtered3.bcf; Date=Tue Aug 27 14:09:53 2024 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT filtered3.bam 21 13871 . G A 8.19139 . DP=16;VDB=0.163924;SGB=-0.651104;RPBZ=-1.26304;MQBZ=1.7272;BQBZ=1;SCBZ=-0.447396;FS=0;MQ0F=0.0625;AC=1;AN=2;DP4=8,0,8,0;MQ=9 GT:PL 0/1:38,0,6 21 13918 . A G 8.05611 . DP=9;VDB=0.12166;SGB=-0.616816;RPBZ=1.03713;MQBZ=-0.154303;BQBZ=0;SCBZ=0.707107;FS=0;MQ0F=0.111111;AC=1;AN=2;DP4=3,0,6,0;MQ=14 GT:PL 0/1:40,0,15 21 13924 . G A 27.0767 . DP=11;VDB=0.0108096;SGB=-0.651104;RPBZ=-0.261911;MQBZ=0.968246;BQBZ=-0.745356;SCBZ=-0.931695;FS=0;MQ0F=0.0909091;AC=2;AN=2;DP4=2,0,8,0;MQ=14 GT:PL 1/1:54,3,0 21 13928 . G C 34.42 . DP=11;VDB=0.0257451;SGB=-0.670168;FS=0;MQ0F=0.0909091;AC=2;AN=2;DP4=0,0,10,0;MQ=14 GT:PL 1/1:64,24,0 21 13962 . A G 3.21856 . DP=13;VDB=0.00595258;SGB=-0.616816;RPBZ=2.14581;MQBZ=0.245201;BQBZ=-0.113961;SCBZ=-1.73888;FS=0;MQ0F=0.0769231;AC=1;AN=2;DP4=7,0,6,0;MQ=12 GT:PL 0/1:33,0,34 21 15349 . G C 3.74242 . DP=33;VDB=3.28209e-07;SGB=-0.689466;RPBZ=-1.0584;MQBZ=1.31911;MQSBZ=-1.01601;BQBZ=-1.40181;SCBZ=0.601646;FS=0;MQ0F=0.0606061;AC=1;AN=2;DP4=1,15,1,15;MQ=13 GT:PL 0/1:34,0,49 21 15425 . T C 15.3182 . DP=21;VDB=0.739317;SGB=-0.686358;RPBZ=-1.79168;MQBZ=0.125524;BQBZ=1.41022;SCBZ=0.514874;FS=0;MQ0F=0;AC=1;AN=2;DP4=0,7,0,14;MQ=12 GT:PL 0/1:47,0,9 21 15431 . G A 6.81655 . DP=18;VDB=0.777008;SGB=-0.683931;RPBZ=-0.93741;MQBZ=-1.01859;BQBZ=1.61245;SCBZ=-1.53815;FS=0;MQ0F=0;AC=1;AN=2;DP4=0,5,0,13;MQ=10 GT:PL 0/1:38,0,11 21 19605 . A G 7.20516 . DP=9;VDB=0.534935;SGB=-0.590765;RPBZ=0.489898;MQBZ=0.169031;MQSBZ=-0.534522;BQBZ=0.33541;SCBZ=-0.873128;FS=0;MQ0F=0;AC=1;AN=2;DP4=1,3,0,5;MQ=16 GT:PL 0/1:39,0,26 21 19637 . A G 12.9958 . DP=5;VDB=0.360777;SGB=-0.556411;RPBZ=-0.707107;MQBZ=-0.5;MQSBZ=-0.5;BQBZ=-0.5;SCBZ=0.5;FS=0;MQ0F=0;AC=1;AN=2;DP4=0,1,1,3;MQ=16 GT:PL 0/1:43,0,5 21 19654 . C T 4.85359 . DP=4;VDB=0.18;SGB=-0.453602;RPBZ=-1.54919;MQBZ=1.63299;MQSBZ=-0.942809;BQBZ=0;SCBZ=1;FS=0;MQ0F=0.25;AC=2;AN=2;DP4=0,2,1,1;MQ=10 GT:PL 1/1:30,2,0 21 19742 . T C 7.30814 . DP=2;VDB=0.36;SGB=-0.453602;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,0,2;MQ=20 GT:PL 1/1:36,6,0 21 19744 . A G 7.30814 . DP=2;VDB=0.32;SGB=-0.453602;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,0,2;MQ=20 GT:PL 1/1:36,6,0 21 19811 . T C 8.50643 . DP=10;VDB=0.0411825;SGB=-0.616816;RPBZ=-0.427699;MQBZ=1.71761;BQBZ=0;SCBZ=-0.731925;FS=0;MQ0F=0.2;AC=1;AN=2;DP4=4,0,6,0;MQ=10 GT:PL 0/1:38,0,5 21 19866 . A C 37.4152 . DP=6;VDB=0.168702;SGB=-0.616816;FS=0;MQ0F=0.166667;AC=2;AN=2;DP4=0,0,6,0;MQ=16 GT:PL 1/1:67,18,0 21 19881 . T C 19.4636 . DP=4;VDB=0.784982;SGB=-0.556411;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,4,0;MQ=15 GT:PL 1/1:49,12,0 21 20703 . A G 6.0118 . DP=15;VDB=0.000802463;SGB=-0.680642;RPBZ=1.37489;MQBZ=-0.787761;BQBZ=2;SCBZ=0;FS=0;MQ0F=0.133333;AC=1;AN=2;DP4=3,0,12,0;MQ=11 GT:PL 0/1:33,0,2 21 20716 . A G 21.9575 . DP=21;VDB=0.0812721;SGB=-0.69168;RPBZ=1.56004;MQBZ=-0.254328;BQBZ=-0.470162;SCBZ=-0.806322;FS=0;MQ0F=0.0952381;AC=2;AN=2;DP4=2,0,19,0;MQ=8 GT:PL 1/1:49,30,0 21 27426 . G C 14.5766 . DP=6;VDB=0.0411825;SGB=-0.616816;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,0,6;MQ=14 GT:PL 1/1:46,17,2 21 27432 . G T 18.4764 . DP=6;VDB=0.0389458;SGB=-0.616816;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,0,6;MQ=14 GT:PL 1/1:48,18,0 21 27882 . A G 4.4843 . DP=17;VDB=0.696154;SGB=-0.680642;RPBZ=-1.21295;MQBZ=-0.0564227;MQSBZ=0.983359;BQBZ=-0.645497;SCBZ=-2.26608;FS=0;MQ0F=0.0588235;AC=1;AN=2;DP4=4,1,12,0;MQ=10 GT:PL 0/1:34,0,8 21 27933 . A G 21.3683 . DP=25;VDB=0.347065;SGB=-0.686358;RPBZ=0.848872;MQBZ=0.0622633;MQSBZ=0.7886;BQBZ=0.428896;SCBZ=-1.60703;FS=0;MQ0F=0.04;AC=1;AN=2;DP4=11,0,13,1;MQ=12 GT:PL 0/1:54,0,33 21 27958 . T C 12.0816 . DP=10;VDB=0.316575;SGB=-0.651104;RPBZ=0.783349;MQBZ=-0.75;BQBZ=-0.5;SCBZ=0.5;FS=0;MQ0F=0;AC=1;AN=2;DP4=2,0,8,0;MQ=16 GT:PL 0/1:44,0,10 21 27990 . T C 17.3194 . DP=4;VDB=0.309755;SGB=-0.511536;RPBZ=1.34164;MQBZ=1.73205;BQBZ=-0.57735;SCBZ=0.942809;FS=0;MQ0F=0;AC=2;AN=2;DP4=1,0,3,0;MQ=15 GT:PL 1/1:44,5,0 21 28137 . G C 19.4636 . DP=4;VDB=0.131345;SGB=-0.556411;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,4,0;MQ=15 GT:PL 1/1:49,12,0 21 29792 . C T 7.27325 . DP=7;VDB=0.0221621;SGB=-0.556411;RPBZ=0.180021;MQBZ=0.440959;MQSBZ=0;BQBZ=0;SCBZ=2.2014;FS=0;MQ0F=0;AC=1;AN=2;DP4=3,0,1,3;MQ=14 GT:PL 0/1:39,0,20 21 29810 . G A 77.4149 . DP=24;VDB=1.25119e-06;SGB=-0.692717;MQSBZ=0.524975;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,20,3;MQ=12 GT:PL 1/1:107,69,0 21 29842 . C T 21.1507 . DP=47;VDB=0.0659263;SGB=-0.691153;RPBZ=0.0328523;MQBZ=0.41088;MQSBZ=0.598526;BQBZ=0.787839;SCBZ=2.34163;FS=0;MQ0F=0.0212766;AC=1;AN=2;DP4=26,3,15,3;MQ=13 GT:PL 0/1:54,0,56 21 29908 . T C 42.9541 . DP=16;VDB=0.00415584;SGB=-0.683931;RPBZ=0.373337;MQBZ=-0.829774;MQSBZ=0.203566;BQBZ=-0.407039;SCBZ=0.517769;FS=0;MQ0F=0.0625;AC=2;AN=2;DP4=1,0,11,2;MQ=12 GT:PL 1/1:70,19,0 21 29919 . A G 19.2592 . DP=6;VDB=0.0414745;SGB=-0.590765;RPBZ=1.48522;MQBZ=0.933257;MQSBZ=-0.311086;BQBZ=-0.948683;SCBZ=0.447214;FS=0;MQ0F=0.166667;AC=2;AN=2;DP4=1,0,4,1;MQ=10 GT:PL 1/1:46,10,0 21 30209 . G A 7.30814 . DP=2;VDB=0.1;SGB=-0.453602;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,2,0;MQ=20 GT:PL 1/1:36,6,0 21 30213 . G A 7.30814 . DP=2;VDB=0.1;SGB=-0.453602;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,2,0;MQ=20 GT:PL 1/1:36,6,0 21 35166 . G A 8.08613 . DP=32;VDB=0.000100416;SGB=-0.692067;RPBZ=2.35842;MQBZ=0.0865916;BQBZ=0.324617;SCBZ=1.38514;FS=0;MQ0F=0.0625;AC=1;AN=2;DP4=0,12,0,20;MQ=11 GT:PL 0/1:40,0,33 21 35229 . G C 24.4377 . DP=19;VDB=0.220127;SGB=-0.69168;MQSBZ=0.682959;FS=0;MQ0F=0.105263;AC=2;AN=2;DP4=0,0,1,18;MQ=8 GT:PL 1/1:54,48,0 21 35243 . A C 38.9535 . DP=19;VDB=0.18357;SGB=-0.690438;RPBZ=1.33076;MQBZ=0.500703;MQSBZ=0.884764;BQBZ=-0.342997;SCBZ=0.85812;FS=0;MQ0F=0.105263;AC=2;AN=2;DP4=0,2,1,16;MQ=10 GT:PL 1/1:66,27,0 21 35301 . C T 3.22451 . DP=4;VDB=0.0681597;SGB=-0.511536;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,0,3;MQ=14 GT:PL 1/1:30,9,0 21 36052 . C A 21.4492 . DP=13;VDB=0.0262535;SGB=-0.680642;MQSBZ=-1.68732;FS=0;MQ0F=0.0769231;AC=2;AN=2;DP4=0,0,11,1;MQ=9 GT:PL 1/1:51,33,0 21 36053 . A G 5.97965 . DP=13;VDB=0.0258627;SGB=-0.676189;RPBZ=-1.01567;MQBZ=-1.07375;MQSBZ=-1.68732;BQBZ=-0.445362;SCBZ=-1.21854;FS=0;MQ0F=0.0769231;AC=2;AN=2;DP4=1,0,10,1;MQ=9 GT:PL 1/1:32,13,0 21 37577 . A G 6.30333 . DP=5;VDB=0.0452455;SGB=-0.556411;RPBZ=1.11803;MQBZ=0.372678;MQSBZ=-0.372678;BQBZ=-0.5;SCBZ=1.11803;FS=0;MQ0F=0.2;AC=2;AN=2;DP4=0,1,4,0;MQ=9 GT:PL 1/1:32,8,0 21 37653 . A G 44.4192 . DP=13;VDB=0.00955183;SGB=-0.683931;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,13,0;MQ=13 GT:PL 1/1:74,36,0 21 37658 . G C 36.4192 . DP=15;VDB=0.0373922;SGB=-0.688148;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,15,0;MQ=11 GT:PL 1/1:66,42,0 21 37661 . A G 5.7493 . DP=16;VDB=0.126837;SGB=-0.636426;RPBZ=0.741504;MQBZ=0.722806;BQBZ=0.311046;SCBZ=-0.452414;FS=0;MQ0F=0;AC=1;AN=2;DP4=9,0,7,0;MQ=12 GT:PL 0/1:37,0,29 21 37706 . C G 6.82671 . DP=12;VDB=0.0572236;SGB=-0.680642;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,12,0;MQ=11 GT:PL 1/1:50,39,15 21 37778 . A G 8.13869 . DP=3;VDB=0.0560361;SGB=-0.511536;FS=0;MQ0F=0.333333;AC=2;AN=2;DP4=0,0,3,0;MQ=13 GT:PL 1/1:37,9,0 21 38899 . G A 5.61693 . DP=3;VDB=0.26;SGB=-0.453602;RPBZ=-1.22474;MQBZ=1.41421;BQBZ=-0.707107;SCBZ=0.707107;FS=0;MQ0F=0.333333;AC=2;AN=2;DP4=0,1,0,2;MQ=13 GT:PL 1/1:31,3,0 21 38910 . A G 8.13869 . DP=3;VDB=0.185719;SGB=-0.511536;FS=0;MQ0F=0.333333;AC=2;AN=2;DP4=0,0,0,3;MQ=13 GT:PL 1/1:37,9,0 21 38941 . T C 35.0072 . DP=10;VDB=0.49524;SGB=-0.651104;RPBZ=1.1786;MQBZ=0.968246;BQBZ=1.30437;SCBZ=-0.963794;FS=0;MQ0F=0.1;AC=2;AN=2;DP4=0,2,0,8;MQ=14 GT:PL 1/1:62,11,0 21 45996 . A G 10.5539 . DP=7;VDB=0.0452455;SGB=-0.556411;RPBZ=-0.178377;MQBZ=1.1547;BQBZ=1.1547;SCBZ=-0.540062;FS=0;MQ0F=0;AC=1;AN=2;DP4=3,0,4,0;MQ=17 GT:PL 0/1:43,0,20 21 46012 . G A 17.1077 . DP=9;VDB=0.00467508;SGB=-0.636426;RPBZ=-0.29277;MQBZ=-0.808122;BQBZ=1.87083;SCBZ=-0.46291;FS=0;MQ0F=0;AC=1;AN=2;DP4=2,0,7,0;MQ=15 GT:PL 0/1:46,0,3 21 46016 . A G 21.2626 . DP=10;VDB=0.0987508;SGB=-0.651104;RPBZ=-0.783349;MQBZ=1.125;BQBZ=-0.5;SCBZ=-0.140242;FS=0;MQ0F=0;AC=2;AN=2;DP4=2,0,8,0;MQ=16 GT:PL 1/1:48,1,0 21 46027 . A G 15.309 . DP=20;VDB=0.0607471;SGB=-0.676189;RPBZ=-0.152119;MQBZ=1.12615;BQBZ=-0.549946;SCBZ=-2.65745;FS=0;MQ0F=0.05;AC=1;AN=2;DP4=9,0,11,0;MQ=12 GT:PL 0/1:48,0,26 21 46130 . A G 10.7632 . DP=13;VDB=0.0760875;SGB=-0.651104;RPBZ=0.659639;MQBZ=-0.401112;MQSBZ=0.741063;BQBZ=-0.790569;SCBZ=1.16775;FS=0;MQ0F=0.0769231;AC=1;AN=2;DP4=5,0,5,3;MQ=11 GT:PL 0/1:43,0,24 21 46817 . A G 5.74887 . DP=17;VDB=0.342281;SGB=-0.662043;RPBZ=0.289385;MQBZ=-0.487798;BQBZ=0;SCBZ=0.129433;FS=0;MQ0F=0.176471;AC=1;AN=2;DP4=0,8,0,9;MQ=12 GT:PL 0/1:37,0,37 21 46824 . A G 5.74887 . DP=17;VDB=0.00667786;SGB=-0.662043;RPBZ=0.723909;MQBZ=-0.704597;BQBZ=0;SCBZ=0.905028;FS=0;MQ0F=0.176471;AC=1;AN=2;DP4=0,8,0,9;MQ=12 GT:PL 0/1:37,0,37 21 46827 . C T 5.03467 . DP=16;VDB=0.00487534;SGB=-0.636426;RPBZ=-0.26541;MQBZ=0.612938;BQBZ=0;SCBZ=-1.04295;FS=0;MQ0F=0.1875;AC=1;AN=2;DP4=0,9,0,7;MQ=13 GT:PL 0/1:36,0,38 21 46868 . G A 19.4636 . DP=5;VDB=0.857144;SGB=-0.511536;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,0,3;MQ=20 GT:PL 1/1:49,9,0 21 50245 . T A 27.4222 . DP=8;VDB=0.163924;SGB=-0.651104;FS=0;MQ0F=0.25;AC=2;AN=2;DP4=0,0,8,0;MQ=12 GT:PL 1/1:57,24,0 21 50266 . A G 27.2551 . DP=6;VDB=0.110342;SGB=-0.590765;RPBZ=0.29277;MQBZ=1.41421;BQBZ=-0.447214;SCBZ=0;FS=0;MQ0F=0.333333;AC=2;AN=2;DP4=1,0,5,0;MQ=13 GT:PL 1/1:54,10,0 21 50269 . G C 4.15607 . DP=6;VDB=0.0433485;SGB=-0.511536;RPBZ=1.96396;MQBZ=1.58114;BQBZ=1;SCBZ=0;FS=0;MQ0F=0.333333;AC=1;AN=2;DP4=3,0,3,0;MQ=13 GT:PL 0/1:34,0,10 21 50270 . C G 9.02432 . DP=7;VDB=0.084975;SGB=-0.636426;FS=0;MQ0F=0.285714;AC=2;AN=2;DP4=0,0,7,0;MQ=11 GT:PL 1/1:46,20,8 21 50661 . G A 7.30814 . DP=2;VDB=0.1;SGB=-0.453602;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,2,0;MQ=20 GT:PL 1/1:36,6,0 21 50704 . A C 8.13869 . DP=3;VDB=0.364077;SGB=-0.511536;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,3,0;MQ=14 GT:PL 1/1:37,9,0 21 51204 . C G 15.5259 . DP=36;VDB=0.000362184;SGB=-0.69168;RPBZ=-0.625851;MQBZ=0.0864411;MQSBZ=1.20664;BQBZ=0;SCBZ=0;FS=0;MQ0F=0.0277778;AC=1;AN=2;DP4=1,14,0,19;MQ=14 GT:PL 0/1:48,0,47 21 51287 . T C 11.9325 . DP=32;VDB=0.0211251;SGB=-0.692831;RPBZ=0.217737;MQBZ=-1.188;MQSBZ=-0.25502;BQBZ=-1.37823;SCBZ=-2.27742;FS=0;MQ0F=0;AC=1;AN=2;DP4=1,7,1,23;MQ=11 GT:PL 0/1:43,0,8 21 51868 . A T 35.0172 . DP=22;VDB=0.00829484;SGB=-0.692067;RPBZ=0.685829;MQBZ=-0.196214;MQSBZ=-1.35401;BQBZ=2.06216;SCBZ=-1.9261;FS=0;MQ0F=0;AC=2;AN=2;DP4=2,0,19,1;MQ=12 GT:PL 1/1:62,28,0 21 51917 . C T 10.873 . DP=22;VDB=0.0282545;SGB=-0.689466;RPBZ=-1.10613;MQBZ=0.957427;BQBZ=-1.11155;SCBZ=1.50667;FS=0;MQ0F=0;AC=2;AN=2;DP4=6,0,16,0;MQ=10 GT:PL 1/1:38,0,1 21 52178 . T C 6.00737 . DP=13;VDB=0.0909239;SGB=-0.662043;RPBZ=-1.15887;MQBZ=-0.165087;BQBZ=2.20794;SCBZ=0.882823;FS=0;MQ0F=0.0769231;AC=1;AN=2;DP4=4,0,9,0;MQ=10 GT:PL 0/1:33,0,2 21 52221 . G A 11.7419 . DP=5;VDB=0.409395;SGB=-0.590765;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,5,0;MQ=16 GT:PL 1/1:50,18,9 21 52329 . G A 6.32811 . DP=4;VDB=0.529687;SGB=-0.511536;RPBZ=-1.34164;MQBZ=1.41421;BQBZ=0;SCBZ=-1.73205;FS=0;MQ0F=0.25;AC=2;AN=2;DP4=1,0,3,0;MQ=10 GT:PL 1/1:32,5,0 21 60392 . T C 3.64636 . DP=9;VDB=0.314313;SGB=-0.556411;RPBZ=-0.734847;MQBZ=-1.11803;MQSBZ=-0.353553;BQBZ=0;SCBZ=-1.34164;FS=0;MQ0F=0;AC=1;AN=2;DP4=0,5,1,3;MQ=18 GT:PL 0/1:34,0,48 21 60396 . G A 6.50182 . DP=9;VDB=0.372756;SGB=-0.556411;RPBZ=0;MQBZ=0.894427;MQSBZ=-0.353553;BQBZ=-1.11803;SCBZ=0.33541;FS=0;MQ0F=0;AC=1;AN=2;DP4=1,4,0,4;MQ=18 GT:PL 0/1:38,0,48 21 60419 . A G 3.72363 . DP=9;VDB=0.0645318;SGB=-0.556411;RPBZ=1.85262;MQBZ=0;MQSBZ=-0.53033;BQBZ=0;SCBZ=-1.34164;FS=0;MQ0F=0;AC=1;AN=2;DP4=0,5,1,3;MQ=16 GT:PL 0/1:34,0,40 21 60770 . A C 47.3472 . DP=18;VDB=0.662143;SGB=-0.690438;RPBZ=1.44635;MQBZ=1.73462;MQSBZ=1.15641;BQBZ=-0.352941;SCBZ=-1.73506;FS=0;MQ0F=0.0555556;AC=2;AN=2;DP4=0,1,1,16;MQ=14 GT:PL 1/1:74,33,0 21 60813 . T C 8.10157 . DP=15;VDB=0.0663569;SGB=-0.651104;RPBZ=0.290097;MQBZ=0.395285;BQBZ=-0.935414;SCBZ=-1.56492;FS=0;MQ0F=0;AC=1;AN=2;DP4=0,7,0,8;MQ=12 GT:PL 0/1:40,0,31 21 60850 . T C 8.13869 . DP=3;VDB=0.756524;SGB=-0.511536;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,0,3;MQ=13 GT:PL 1/1:37,9,0 21 62454 . A T 25.9268 . DP=11;VDB=0.115319;SGB=-0.670168;RPBZ=-0.948683;MQBZ=-0.737028;BQBZ=-0.316228;SCBZ=0.471405;FS=0;MQ0F=0.181818;AC=2;AN=2;DP4=1,0,10,0;MQ=12 GT:PL 1/1:53,10,0 21 62491 . T C 11.4795 . DP=16;VDB=0.266813;SGB=-0.676189;RPBZ=1.81528;MQBZ=0.524802;BQBZ=0.492366;SCBZ=0.183211;FS=0;MQ0F=0;AC=1;AN=2;DP4=5,0,11,0;MQ=13 GT:PL 0/1:44,0,19 21 62492 . G A 13.4162 . DP=15;VDB=0.289496;SGB=-0.651104;RPBZ=1.79699;MQBZ=1.59476;BQBZ=-0.935414;SCBZ=0.122597;FS=0;MQ0F=0;AC=1;AN=2;DP4=7,0,8,0;MQ=13 GT:PL 0/1:46,0,23 21 62535 . T C 12.5601 . DP=11;VDB=0.173752;SGB=-0.636426;RPBZ=-1.13648;MQBZ=-1.12122;BQBZ=0;SCBZ=-0.38503;FS=0;MQ0F=0;AC=1;AN=2;DP4=4,0,7,0;MQ=16 GT:PL 0/1:45,0,33 21 62935 . A G 6.45586 . DP=36;VDB=0.00893984;SGB=-0.692831;RPBZ=-0.553846;MQBZ=-0.407841;MQSBZ=-1.67857;BQBZ=0.5073;SCBZ=1.00855;FS=0;MQ0F=0.0833333;AC=1;AN=2;DP4=12,0,23,1;MQ=9 GT:PL 0/1:38,0,15 21 62981 . T G 8.13869 . DP=3;VDB=0.0349627;SGB=-0.511536;FS=0;MQ0F=0.333333;AC=2;AN=2;DP4=0,0,3,0;MQ=13 GT:PL 1/1:37,9,0 21 62984 . A G 6.32811 . DP=4;VDB=0.0349627;SGB=-0.511536;RPBZ=1.34164;MQBZ=0.471405;BQBZ=0;SCBZ=-1.73205;FS=0;MQ0F=0.25;AC=2;AN=2;DP4=1,0,3,0;MQ=10 GT:PL 1/1:32,5,0 21 63080 . T G 26.4242 . DP=5;VDB=0.197286;SGB=-0.590765;MQSBZ=0.790569;FS=0;MQ0F=0.2;AC=2;AN=2;DP4=0,0,4,1;MQ=12 GT:PL 1/1:56,15,0 21 70129 . A G 7.30814 . DP=2;VDB=0.28;SGB=-0.453602;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,0,2;MQ=20 GT:PL 1/1:36,6,0 21 70231 . C T 7.30814 . DP=3;VDB=0.06;SGB=-0.453602;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,0,2;MQ=20 GT:PL 1/1:36,6,0 21 70232 . G A 5.61693 . DP=3;VDB=0.06;SGB=-0.453602;RPBZ=1.22474;MQBZ=1.41421;BQBZ=1.41421;SCBZ=0;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,1,0,2;MQ=13 GT:PL 1/1:31,3,0 21 74439 . A G 19.4636 . DP=3;VDB=0.336489;SGB=-0.511536;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,3,0;MQ=20 GT:PL 1/1:49,9,0 21 74453 . T A 8.13869 . DP=3;VDB=0.345596;SGB=-0.511536;FS=0;MQ0F=0.333333;AC=2;AN=2;DP4=0,0,3,0;MQ=13 GT:PL 1/1:37,9,0 21 75748 . G A 31.8678 . DP=11;VDB=0.382624;SGB=-0.670168;RPBZ=0.948683;MQBZ=-0.74162;MQSBZ=1.85405;BQBZ=-0.469042;SCBZ=0.469042;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,1,1,9;MQ=13 GT:PL 1/1:59,13,0 21 75756 . A G 31.2817 . DP=9;VDB=0.77747;SGB=-0.651104;RPBZ=0;MQBZ=1.41421;BQBZ=-0.353553;SCBZ=-2.12132;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,1,0,8;MQ=14 GT:PL 1/1:58,15,0 21 75806 . A G 3.73811 . DP=13;VDB=0.0760875;SGB=-0.651104;RPBZ=-0.659639;MQBZ=-0.802225;BQBZ=1.26491;SCBZ=0.0775791;FS=0;MQ0F=0.0769231;AC=1;AN=2;DP4=0,5,0,8;MQ=11 GT:PL 0/1:34,0,22 21 75821 . T C 16.3508 . DP=11;VDB=0.00114085;SGB=-0.670168;RPBZ=-0.953025;MQBZ=0.335888;BQBZ=-0.469042;SCBZ=1.00509;FS=0;MQ0F=0.0909091;AC=2;AN=2;DP4=0,1,0,10;MQ=10 GT:PL 1/1:43,20,0 21 81337 . C T 5.00423 . DP=11;VDB=0.0224626;SGB=-0.590765;RPBZ=-1.27802;MQBZ=0;BQBZ=0;SCBZ=-1.74801;FS=0;MQ0F=0;AC=1;AN=2;DP4=6,0,5,0;MQ=16 GT:PL 0/1:36,0,45 21 81342 . C G 19.0687 . DP=11;VDB=0.00262538;SGB=-0.670168;RPBZ=0.633898;MQBZ=-0.469042;BQBZ=-0.316228;SCBZ=-1.63299;FS=0;MQ0F=0;AC=2;AN=2;DP4=1,0,10,0;MQ=16 GT:PL 1/1:58,17,12 21 81349 . C T 3.77891 . DP=12;VDB=0.0525422;SGB=-0.590765;RPBZ=-0.893198;MQBZ=1.37017;BQBZ=0.845154;SCBZ=-1.60357;FS=0;MQ0F=0.0833333;AC=1;AN=2;DP4=7,0,5,0;MQ=12 GT:PL 0/1:34,0,26 21 81441 . A C 28.4205 . DP=6;VDB=0.072067;SGB=-0.616816;FS=0;MQ0F=0.166667;AC=2;AN=2;DP4=0,0,6,0;MQ=13 GT:PL 1/1:58,18,0 21 81447 . G A 19.4636 . DP=3;VDB=0.0506481;SGB=-0.511536;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,3,0;MQ=20 GT:PL 1/1:49,9,0 21 88097 . G T 43.0532 . DP=15;VDB=0.441271;SGB=-0.683931;RPBZ=-0.511815;MQBZ=0.0969111;MQSBZ=0.792406;BQBZ=1.21626;SCBZ=1.46152;FS=0;MQ0F=0.0666667;AC=2;AN=2;DP4=2,0,12,1;MQ=12 GT:PL 1/1:70,19,0 21 88111 . A G 23.2308 . DP=7;VDB=0.530999;SGB=-0.616816;RPBZ=0;MQBZ=-0.62361;MQSBZ=0.62361;BQBZ=-0.408248;SCBZ=-0.264575;FS=0;MQ0F=0;AC=2;AN=2;DP4=1,0,5,1;MQ=14 GT:PL 1/1:50,1,0 21 88160 . C G 6.76147 . DP=11;VDB=0.0298868;SGB=-0.670168;RPBZ=0.316949;MQBZ=0.520088;MQSBZ=0.866814;BQBZ=-0.316228;SCBZ=0.469042;FS=0;MQ0F=0.181818;AC=2;AN=2;DP4=1,0,9,1;MQ=11 GT:PL 1/1:48,24,16 21 88202 . A G 7.26048 . DP=4;VDB=0.732596;SGB=-0.511536;RPBZ=-1.34164;MQBZ=0;BQBZ=0;SCBZ=0.57735;FS=0;MQ0F=0;AC=1;AN=2;DP4=1,0,3,0;MQ=20 GT:PL 0/1:38,0,8 21 91562 . A G 6.32811 . DP=4;VDB=0.309755;SGB=-0.511536;RPBZ=-1.34164;MQBZ=1;BQBZ=0;SCBZ=0;FS=0;MQ0F=0;AC=2;AN=2;DP4=1,0,3,0;MQ=11 GT:PL 1/1:32,5,0 21 97579 . T C 7.30814 . DP=2;VDB=0.84;SGB=-0.453602;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,0,2;MQ=20 GT:PL 1/1:36,6,0 21 98696 . C T 3.22451 . DP=5;VDB=0.588406;SGB=-0.590765;FS=0;MQ0F=0.2;AC=2;AN=2;DP4=0,0,5,0;MQ=8 GT:PL 1/1:30,15,0 21 115868 . A G 26.4242 . DP=8;VDB=0.151;SGB=-0.651104;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,8,0;MQ=11 GT:PL 1/1:56,24,0 21 117459 . C T 24.4299 . DP=5;VDB=0.226768;SGB=-0.590765;MQSBZ=1.58114;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,1,4;MQ=12 GT:PL 1/1:54,15,0 21 117482 . A C 5.48067 . DP=13;VDB=0.835187;SGB=-0.680642;RPBZ=-0.267999;MQBZ=-0.887625;MQSBZ=1.62731;BQBZ=-0.288675;SCBZ=0.288675;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,1,1,11;MQ=11 GT:PL 1/1:40,12,9 21 117530 . T A 26.3052 . DP=14;VDB=0.0614523;SGB=-0.683931;RPBZ=0.869199;MQBZ=1.18176;BQBZ=1.72091;SCBZ=-1.87083;FS=0;MQ0F=0.0714286;AC=2;AN=2;DP4=0,1,0,13;MQ=9 GT:PL 1/1:53,31,0 21 117551 . G C 7.30814 . DP=7;VDB=0.0175011;SGB=-0.636426;FS=0;MQ0F=0.142857;AC=2;AN=2;DP4=0,0,0,7;MQ=6 GT:PL 1/1:36,21,0 21 126011 . C T 5.61693 . DP=3;VDB=0.66;SGB=-0.453602;RPBZ=1.22474;MQBZ=1.41421;BQBZ=0;SCBZ=0;FS=0;MQ0F=0;AC=2;AN=2;DP4=1,0,2,0;MQ=14 GT:PL 1/1:31,3,0 21 136979 . G A 8.13869 . DP=3;VDB=0.0941127;SGB=-0.511536;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,3,0;MQ=14 GT:PL 1/1:37,9,0 21 136988 . A G 8.13869 . DP=3;VDB=0.0941127;SGB=-0.511536;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,3,0;MQ=14 GT:PL 1/1:37,9,0 21 137088 . T C 5.61693 . DP=3;VDB=0.02;SGB=-0.453602;RPBZ=-1.22474;MQBZ=1.41421;BQBZ=0;SCBZ=0;FS=0;MQ0F=0;AC=2;AN=2;DP4=1,0,2,0;MQ=14 GT:PL 1/1:31,3,0 21 137113 . G A 7.30814 . DP=2;VDB=0.02;SGB=-0.453602;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,2,0;MQ=20 GT:PL 1/1:36,6,0 21 138443 . T G 12.6566 . DP=6;VDB=0.000959055;SGB=-0.616816;MQSBZ=1.20605;FS=0;MQ0F=0.166667;AC=2;AN=2;DP4=0,0,5,1;MQ=7 GT:PL 1/1:42,18,0 21 139664 . A G 12.3697 . DP=11;VDB=0.025915;SGB=-0.616816;RPBZ=-0.0914953;MQBZ=1.27265;MQSBZ=-0.734763;BQBZ=0;SCBZ=-1.62481;FS=0;MQ0F=0.0909091;AC=1;AN=2;DP4=1,4,0,6;MQ=13 GT:PL 0/1:45,0,18 21 143593 . C T 9.88514 . DP=3;VDB=0.392388;SGB=-0.511536;MQSBZ=-1.41421;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,2,1;MQ=13 GT:PL 1/1:39,9,0 21 152544 . T C 10.3436 . DP=9;VDB=0.0196075;SGB=-0.590765;RPBZ=-0.996546;MQBZ=1.36931;BQBZ=0.33541;SCBZ=0.894427;FS=0;MQ0F=0;AC=2;AN=2;DP4=4,0,5,0;MQ=11 GT:PL 1/1:37,3,0 21 152547 . A G 8.54666 . DP=8;VDB=0.00477428;SGB=-0.636426;RPBZ=0.223607;MQBZ=-0.774597;BQBZ=-0.377964;SCBZ=0.377964;FS=0;MQ0F=0;AC=2;AN=2;DP4=1,0,7,0;MQ=12 GT:PL 1/1:35,4,0 21 221789 . T C 19.4636 . DP=5;VDB=0.300397;SGB=-0.590765;FS=0;MQ0F=0.2;AC=2;AN=2;DP4=0,0,5,0;MQ=12 GT:PL 1/1:49,15,0 21 221824 . A G 17.2912 . DP=5;VDB=0.446842;SGB=-0.556411;RPBZ=0;MQBZ=0.790569;BQBZ=0;SCBZ=0;FS=0;MQ0F=0.2;AC=2;AN=2;DP4=1,0,4,0;MQ=12 GT:PL 1/1:44,8,0 21 236291 . A G 3.21958 . DP=7;VDB=0.535497;SGB=-0.556411;RPBZ=0.707107;MQBZ=-0.866025;BQBZ=0;SCBZ=-0.585142;FS=0;MQ0F=0;AC=1;AN=2;DP4=0,3,0,4;MQ=17 GT:PL 0/1:33,0,31 21 236294 . C T 4.32521 . DP=6;VDB=0.176409;SGB=-0.556411;RPBZ=1.38873;MQBZ=-0.707107;BQBZ=0;SCBZ=0.491869;FS=0;MQ0F=0;AC=1;AN=2;DP4=0,2,0,4;MQ=16 GT:PL 0/1:35,0,19 21 236295 . A G 4.32521 . DP=6;VDB=0.522837;SGB=-0.556411;RPBZ=0;MQBZ=-0.707107;BQBZ=0;SCBZ=-1.47561;FS=0;MQ0F=0;AC=1;AN=2;DP4=0,2,0,4;MQ=16 GT:PL 0/1:35,0,19 21 236320 . G A 3.20067 . DP=8;VDB=0.220638;SGB=-0.556411;RPBZ=1.76777;MQBZ=0;BQBZ=-0.866025;SCBZ=0.866025;FS=0;MQ0F=0;AC=1;AN=2;DP4=0,3,0,4;MQ=14 GT:PL 0/1:33,0,20 21 236327 . A G 6.77159 . DP=6;VDB=0.673544;SGB=-0.590765;RPBZ=-0.29277;MQBZ=-0.69282;BQBZ=-0.447214;SCBZ=0.69282;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,1,0,5;MQ=14 GT:PL 1/1:34,0,2 21 236359 . A T 8.99921 . DP=4;VDB=0.160409;SGB=-0.556411;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,0,4;MQ=11 GT:PL 1/1:38,12,0 21 248947 . T C 4.85359 . DP=4;VDB=0.38;SGB=-0.453602;RPBZ=-0.774597;MQBZ=1.73205;MQSBZ=-1;BQBZ=0;SCBZ=1;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,2,1,1;MQ=11 GT:PL 1/1:30,2,0 21 248966 . G A 12.6566 . DP=4;VDB=0.112085;SGB=-0.556411;MQSBZ=-1;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,1,3;MQ=11 GT:PL 1/1:42,12,0 21 251560 . C T 11.7172 . DP=3;VDB=0.137328;SGB=-0.511536;MQSBZ=0.707107;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,2,1;MQ=14 GT:PL 1/1:41,9,0 21 289446 . T C 49.4146 . DP=22;VDB=1.4824e-07;SGB=-0.692562;FS=0;MQ0F=0.0454545;AC=2;AN=2;DP4=0,0,22,0;MQ=12 GT:PL 1/1:79,66,0 21 289481 . T C 3.73429 . DP=48;VDB=0.22406;SGB=-0.692976;RPBZ=0.341551;MQBZ=-1.11595;BQBZ=-1.2128;SCBZ=-1.70538;FS=0;MQ0F=0.0208333;AC=1;AN=2;DP4=22,0,26,0;MQ=11 GT:PL 0/1:34,0,44 21 289488 . T C 6.50824 . DP=50;VDB=0.518994;SGB=-0.693021;RPBZ=0.545171;MQBZ=-1.485;BQBZ=2.489;SCBZ=-1.74235;FS=0;MQ0F=0.04;AC=1;AN=2;DP4=23,0,27,0;MQ=11 GT:PL 0/1:38,0,40 21 289520 . A C 21.7432 . DP=41;VDB=4.57336e-05;SGB=-0.69312;RPBZ=-0.393988;MQBZ=0.311388;BQBZ=2.69313;SCBZ=1.10119;FS=0;MQ0F=0.0243902;AC=2;AN=2;DP4=9,0,32,0;MQ=10 GT:PL 1/1:49,21,0 21 289647 . G A 3.22451 . DP=3;VDB=0.873285;SGB=-0.511536;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,3,0;MQ=14 GT:PL 1/1:30,9,0 21 339923 . C T 7.30814 . DP=2;VDB=0.56;SGB=-0.453602;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,2,0;MQ=20 GT:PL 1/1:36,6,0 21 355659 . C T 6.32811 . DP=4;VDB=0.868052;SGB=-0.511536;RPBZ=-1.34164;MQBZ=1;BQBZ=0;SCBZ=0;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,1,0,3;MQ=11 GT:PL 1/1:32,5,0 21 553515 . C G 7.30814 . DP=2;VDB=0.68;SGB=-0.453602;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,2,0;MQ=20 GT:PL 1/1:36,6,0 21 602273 . A C 6.32811 . DP=4;VDB=0.131948;SGB=-0.511536;RPBZ=-1.34164;MQBZ=1;BQBZ=-0.57735;SCBZ=-1.73205;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,1,0,3;MQ=11 GT:PL 1/1:32,5,0 21 682407 . G T 7.30814 . DP=2;VDB=0.56;SGB=-0.453602;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,0,2;MQ=20 GT:PL 1/1:36,6,0 21 682421 . T G 7.30814 . DP=2;VDB=0.56;SGB=-0.453602;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,0,2;MQ=20 GT:PL 1/1:36,6,0 21 682423 . C G 7.30814 . DP=2;VDB=0.56;SGB=-0.453602;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,0,2;MQ=20 GT:PL 1/1:36,6,0 21 682426 . G A 7.30814 . DP=2;VDB=0.56;SGB=-0.453602;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,0,2;MQ=20 GT:PL 1/1:36,6,0 21 682568 . A G 8.13869 . DP=5;VDB=0.133161;SGB=-0.590765;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,0,5;MQ=9 GT:PL 1/1:37,15,0 21 694476 . C G 18.4764 . DP=6;VDB=0.0341101;SGB=-0.616816;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,6,0;MQ=11 GT:PL 1/1:48,18,0 21 694482 . T C 19.4636 . DP=4;VDB=0.131345;SGB=-0.556411;FS=0;MQ0F=0;AC=2;AN=2;DP4=0,0,4,0;MQ=15 GT:PL 1/1:49,12,0