97 lines (96 with data), 7.4 kB

##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=1.8.0
##contig=<ID=20,length=63025520>
#CHROM	POS	ID	REF	ALT	QUAL	FILTER	INFO	FORMAT	child
20	10000117	.	C	T	13.1	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:12:18:6,12:0.666667:12,0,20
20	10000211	.	C	T	14.5	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:13:21:7,14:0.666667:14,0,19
20	10000439	.	T	G	31.4	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:9:26:1,24:0.923077:30,8,0
20	10000598	.	T	A	28	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:9:25:1,24:0.96:27,8,0
20	10000694	.	G	A	7.4	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:7:29:19,10:0.344828:6,0,18
20	10000758	.	T	A	24	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:5:23:0,23:1:22,2,0
20	10001019	.	T	G	3.2	RefCall	.	GT:GQ:DP:AD:VAF:PL	./.:3:16:10,6:0.375:0,0,9
20	10001298	.	T	A	23.8	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:11:23:0,23:1:23,10,0
20	10001436	.	A	AAGGCT	22.2	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:9:25:0,23:0.92:21,8,0
20	10001474	.	C	T	24.5	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:4:22:0,22:1:22,2,0
20	10001617	.	C	A	8.3	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:7:18:11,7:0.388889:7,0,12
20	10001628	.	G	A	20.1	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:4:20:0,20:1:17,1,0
20	10001661	.	T	C	23.7	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:3:16:0,16:1:20,0,0
20	10001670	.	T	G	20.7	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:5:18:0,18:1:18,2,0
20	10002058	.	T	G	23.7	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:12:18:0,18:1:23,12,0
20	10002099	.	C	T	24.7	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:24:17:6,11:0.647059:24,0,33
20	10002138	.	C	G	19	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:3:15:0,15:1:16,0,0
20	10002142	.	G	C	17.2	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:3:15:0,13:0.866667:14,1,0
20	10002458	.	G	GTT,GTTT	30.9	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:2:16:0,6,9:0.375,0.5625:26,0,18,0,2,25
20	10002470	.	C	T	22.5	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:5:14:0,14:1:20,0,2
20	10002625	.	G	T	25.2	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:5:22:0,22:1:23,3,0
20	10003021	.	C	T	33.1	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:3:17:0,17:1:30,0,0
20	10003358	.	A	C	9.5	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:9:16:12,4:0.25:8,0,19
20	10003651	.	T	C	26.9	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:3:16:0,16:1:24,0,0
20	10003692	.	A	G	31.5	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:5:13:0,13:1:29,2,0
20	10003832	.	G	A	31.8	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:11:27:0,27:1:31,10,0
20	10004094	.	A	C	23.5	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:8:13:0,13:1:22,0,6
20	10004114	.	C	G	0	RefCall	.	GT:GQ:DP:AD:VAF:PL	0/0:36:15:13,2:0.133333:0,36,41
20	10004128	.	AG	A	0	RefCall	.	GT:GQ:DP:AD:VAF:PL	0/0:28:18:15,2:0.111111:0,29,33
20	10004147	.	A	G	27.7	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:9:15:0,15:1:27,0,8
20	10004187	.	A	C	0	RefCall	.	GT:GQ:DP:AD:VAF:PL	0/0:27:16:14,2:0.125:0,26,42
20	10004192	.	AG	A	0	RefCall	.	GT:GQ:DP:AD:VAF:PL	0/0:26:16:14,2:0.125:0,25,38
20	10004193	.	G	T	29.4	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:28:14:5,8:0.571429:29,0,34
20	10004202	.	A	C	0	RefCall	.	GT:GQ:DP:AD:VAF:PL	0/0:33:16:14,2:0.125:0,33,44
20	10004203	.	C	A	0	RefCall	.	GT:GQ:DP:AD:VAF:PL	0/0:42:13:11,2:0.153846:0,43,46
20	10004221	.	C	CA	0	RefCall	.	GT:GQ:DP:AD:VAF:PL	0/0:32:16:14,2:0.125:0,32,41
20	10004222	.	C	CA	1.5	RefCall	.	GT:GQ:DP:AD:VAF:PL	./.:5:17:11,1:0.0588235:0,3,16
20	10004223	.	A	AG	18.2	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:17:17:9,7:0.411765:18,0,22
20	10004351	.	C	G	21.8	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:5:20:0,20:1:19,2,0
20	10004389	.	T	G	26	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:3:22:0,22:1:23,0,0
20	10004610	.	A	C	27.1	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:6:18:0,18:1:25,4,0
20	10004725	.	A	G	9.9	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:9:21:7,14:0.666667:9,0,18
20	10004769	.	TAAAACTATGC	T	34.7	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:33:22:8,14:0.636364:34,0,37
20	10004874	.	A	C	32.5	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:16:32:0,32:1:32,15,0
20	10004887	.	A	G	38.4	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:37:30:16,14:0.466667:38,0,42
20	10005010	.	C	T	30.7	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:18:25:0,25:1:30,17,0
20	10005427	.	C	T	26.8	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:14:20:0,20:1:26,13,0
20	10005499	.	A	G	35	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:19:25:0,25:1:34,18,0
20	10005587	.	A	G	14.4	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:14:34:20,14:0.411765:14,0,21
20	10005723	.	A	G	38.2	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:16:32:0,32:1:38,16,0
20	10006291	.	G	A	10	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:10:29:17,12:0.413793:9,0,22
20	10006404	.	A	C	30.4	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:6:24:1,23:0.958333:29,4,0
20	10006682	.	T	A	32.9	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:12:23:0,23:1:32,11,0
20	10006819	.	AAAAC	A	33.7	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:15:25:0,25:1:33,14,0
20	10007150	.	G	C	38.5	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:37:32:13,19:0.59375:38,0,43
20	10007175	.	C	T	13.4	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:13:33:17,16:0.484848:13,0,24
20	10007352	.	C	T	32.4	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:16:26:0,26:1:32,15,0
20	10007531	.	A	G	30.5	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:7:21:0,21:1:29,6,0
20	10007980	.	A	C	22.5	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:8:21:1,20:0.952381:21,0,7
20	10008029	.	T	TA	31.2	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:6:28:1,23:0.821429:30,5,0
20	10008146	.	TA	T	37.9	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:21:29:1,27:0.931035:37,20,0
20	10008221	.	T	C	31.4	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:6:24:1,23:0.958333:30,4,0
20	10008458	.	T	G	27.4	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:12:26:0,26:1:27,11,0
20	10008742	.	G	T	32.4	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:30:21:6,15:0.714286:32,0,34
20	10008758	.	C	CA	25.4	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:7:20:1,19:0.95:24,6,0
20	10008921	.	C	CA	7.4	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:7:23:15,4:0.173913:6,0,21
20	10008948	.	TA	T	20.5	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:4:30:0,30:1:18,0,1
20	10008952	.	CACACACACACA	C,CCACACACACA	31.4	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:2:28:0,16,12:0.571429,0.428571:27,0,18,0,5,31
20	10009227	.	A	G	42.5	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:40:31:14,17:0.548387:42,0,42
20	10009246	.	A	G	40	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:26:35:0,35:1:40,25,0
20	10009400	.	T	A	30.6	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:11:33:0,32:0.969697:30,10,0
20	10009512	.	C	G	26.6	PASS	.	GT:GQ:DP:AD:VAF:PL	1/1:6:26:0,26:1:25,4,0
20	10009719	.	A	G	26.1	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:5:19:0,18:0.947368:24,0,3
20	10009795	.	A	G	18.4	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:6:22:0,21:0.954545:17,0,5
20	10009844	.	G	A	21.4	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:15:21:1,20:0.952381:21,0,16
20	10009871	.	A	G	16	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:14:22:5,17:0.772727:15,0,18
20	10009875	.	A	G	8.9	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:8:19:3,16:0.842105:8,0,16
20	10009879	.	A	G	8.8	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:5:20:0,20:1:7,0,5
20	10009883	.	A	G	8.7	PASS	.	GT:GQ:DP:AD:VAF:PL	0/1:3:19:0,19:1:5,0,0