Mercurial > repos > devteam > vcftools_annotate

view test-data/test_out1.vcf @ 1:db407a47527b draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author devteam
date Fri, 14 Feb 2014 14:21:38 -0500
parents bc178c43e4fe
children
line wrap: on
line source

##fileformat=VCFv4.1
##FILTER=<ID=MinAF,Description="MinAF [7]">
##source_20130813.1=vcf-annotate(r797) -f f.txt <input_file>
#CHROM	POS	ID	REF	ALT	QUAL	FILTER	INFO	FORMAT	Sample1
chr1	14470	.	G	A	.	PASS	ADP=25;WT=0;HET=1;HOM=0;NC=0	GT:GQ:SDP:DP:RD:AD:FREQ:PVAL:RBQ:ABQ:RDF:RDR:ADF:ADR	0/1:0:28:25:23:2:8%:9.8E-1:33:39:22:1:2:0
chr1	14513	.	G	A	.	PASS	ADP=32;WT=0;HET=1;HOM=0;NC=0	GT:GQ:SDP:DP:RD:AD:FREQ:PVAL:RBQ:ABQ:RDF:RDR:ADF:ADR	0/1:0:36:32:24:8:25%:9.8E-1:31:22:16:8:7:1
chr1	14626	.	G	C	.	PASS	ADP=44;WT=0;HET=1;HOM=0;NC=0	GT:GQ:SDP:DP:RD:AD:FREQ:PVAL:RBQ:ABQ:RDF:RDR:ADF:ADR	0/1:0:45:44:40:4:9.09%:9.8E-1:34:36:14:26:0:4
chr1	14677	.	G	A	.	PASS	ADP=70;WT=0;HET=1;HOM=0;NC=0	GT:GQ:SDP:DP:RD:AD:FREQ:PVAL:RBQ:ABQ:RDF:RDR:ADF:ADR	0/1:0:82:70:63:7:10%:9.8E-1:33:17:44:19:7:0
chr1	14813	.	T	G	.	MinAF	ADP=105;WT=0;HET=1;HOM=0;NC=0	GT:GQ:SDP:DP:RD:AD:FREQ:PVAL:RBQ:ABQ:RDF:RDR:ADF:ADR	0/1:0:121:105:103:2:1.9%:9.8E-1:32:22:42:61:1:1
chr1	14815	.	C	T	.	MinAF	ADP=117;WT=0;HET=1;HOM=0;NC=0	GT:GQ:SDP:DP:RD:AD:FREQ:PVAL:RBQ:ABQ:RDF:RDR:ADF:ADR	0/1:0:122:117:109:8:6.84%:9.8E-1:33:29:50:59:4:4
chr1	14907	.	A	G	.	PASS	ADP=104;WT=0;HET=1;HOM=0;NC=0	GT:GQ:SDP:DP:RD:AD:FREQ:PVAL:RBQ:ABQ:RDF:RDR:ADF:ADR	0/1:0:108:104:19:16:45.71%:9.8E-1:37:18:10:9:8:8
chr1	14930	.	A	G	.	PASS	ADP=103;WT=0;HET=1;HOM=0;NC=0	GT:GQ:SDP:DP:RD:AD:FREQ:PVAL:RBQ:ABQ:RDF:RDR:ADF:ADR	0/1:0:110:103:17:17:50%:9.8E-1:37:24:8:9:8:9
chr1	15015	.	G	C	.	PASS	ADP=52;WT=0;HET=1;HOM=0;NC=0	GT:GQ:SDP:DP:RD:AD:FREQ:PVAL:RBQ:ABQ:RDF:RDR:ADF:ADR	0/1:0:55:52:44:8:15.38%:9.8E-1:34:35:5:39:1:7
chr1	15211	.	T	G	.	PASS	ADP=21;WT=0;HET=0;HOM=1;NC=0	GT:GQ:SDP:DP:RD:AD:FREQ:PVAL:RBQ:ABQ:RDF:RDR:ADF:ADR	1/1:0:23:21:0:2:100%:9.8E-1:0:26:0:0:1:1
chr1	15527	.	G	A	.	PASS	ADP=53;WT=0;HET=1;HOM=0;NC=0	GT:GQ:SDP:DP:RD:AD:FREQ:PVAL:RBQ:ABQ:RDF:RDR:ADF:ADR	0/1:0:57:53:29:5:14.71%:9.8E-1:32:23:19:10:3:2
chr1	15688	.	C	T	.	PASS	ADP=34;WT=0;HET=1;HOM=0;NC=0	GT:GQ:SDP:DP:RD:AD:FREQ:PVAL:RBQ:ABQ:RDF:RDR:ADF:ADR	0/1:0:36:34:11:4:26.67%:9.8E-1:35:26:6:5:1:3
chr1	16257	.	G	C	.	PASS	ADP=23;WT=0;HET=1;HOM=0;NC=0	GT:GQ:SDP:DP:RD:AD:FREQ:PVAL:RBQ:ABQ:RDF:RDR:ADF:ADR	0/1:0:26:23:20:2:9.09%:9.8E-1:35:17:7:13:0:2
chr1	16288	.	C	G	.	PASS	ADP=15;WT=0;HET=1;HOM=0;NC=0	GT:GQ:SDP:DP:RD:AD:FREQ:PVAL:RBQ:ABQ:RDF:RDR:ADF:ADR	0/1:0:16:15:11:3:21.43%:9.8E-1:34:36:3:8:1:2
chr1	16298	.	C	T	.	PASS	ADP=12;WT=0;HET=1;HOM=0;NC=0	GT:GQ:SDP:DP:RD:AD:FREQ:PVAL:RBQ:ABQ:RDF:RDR:ADF:ADR	0/1:0:12:12:9:2:18.18%:9.8E-1:34:30:2:7:1:1
chr1	16378	.	T	C	.	PASS	ADP=24;WT=0;HET=1;HOM=0;NC=0	GT:GQ:SDP:DP:RD:AD:FREQ:PVAL:RBQ:ABQ:RDF:RDR:ADF:ADR	0/1:0:24:24:11:12:52.17%:9.8E-1:37:34:7:4:8:4
chr1	16495	.	G	C	.	PASS	ADP=21;WT=0;HET=1;HOM=0;NC=0	GT:GQ:SDP:DP:RD:AD:FREQ:PVAL:RBQ:ABQ:RDF:RDR:ADF:ADR	0/1:0:22:21:14:6:30%:9.8E-1:31:25:5:9:2:4
chr1	16534	.	C	T	.	PASS	ADP=11;WT=0;HET=1;HOM=0;NC=0	GT:GQ:SDP:DP:RD:AD:FREQ:PVAL:RBQ:ABQ:RDF:RDR:ADF:ADR	0/1:0:11:11:6:4:40%:9.8E-1:32:37:1:5:0:4
chr1	16571	.	G	A	.	PASS	ADP=8;WT=0;HET=1;HOM=0;NC=0	GT:GQ:SDP:DP:RD:AD:FREQ:PVAL:RBQ:ABQ:RDF:RDR:ADF:ADR	0/1:0:8:8:5:2:28.57%:9.8E-1:31:34:2:3:0:2
chr1	16737	.	G	T	.	PASS	ADP=27;WT=0;HET=1;HOM=0;NC=0	GT:GQ:SDP:DP:RD:AD:FREQ:PVAL:RBQ:ABQ:RDF:RDR:ADF:ADR	0/1:0:30:27:22:5:18.52%:9.8E-1:37:34:21:1:5:0
chr1	16742	.	G	C	.	PASS	ADP=30;WT=0;HET=1;HOM=0;NC=0	GT:GQ:SDP:DP:RD:AD:FREQ:PVAL:RBQ:ABQ:RDF:RDR:ADF:ADR	0/1:0:30:30:23:7:23.33%:9.8E-1:32:37:21:2:7:0
chr1	16900	.	T	C	.	MinAF	ADP=140;WT=0;HET=1;HOM=0;NC=0	GT:GQ:SDP:DP:RD:AD:FREQ:PVAL:RBQ:ABQ:RDF:RDR:ADF:ADR	0/1:0:150:140:135:5:3.57%:9.8E-1:35:25:119:16:5:0
chr1	16963	.	G	A	.	PASS	ADP=338;WT=0;HET=1;HOM=0;NC=0	GT:GQ:SDP:DP:RD:AD:FREQ:PVAL:RBQ:ABQ:RDF:RDR:ADF:ADR	0/1:0:354:338:297:41:12.13%:9.8E-1:32:34:218:79:26:15
chr1	16977	.	G	A	.	PASS	ADP=368;WT=0;HET=1;HOM=0;NC=0	GT:GQ:SDP:DP:RD:AD:FREQ:PVAL:RBQ:ABQ:RDF:RDR:ADF:ADR	0/1:0:384:368:270:98:26.63%:9.8E-1:34:25:186:84:63:35
chr1	16996	.	T	C	.	PASS	ADP=356;WT=0;HET=1;HOM=0;NC=0	GT:GQ:SDP:DP:RD:AD:FREQ:PVAL:RBQ:ABQ:RDF:RDR:ADF:ADR	0/1:0:371:356:269:87:24.44%:9.8E-1:35:34:147:122:58:29
chr1	17020	.	G	A	.	MinAF	ADP=355;WT=0;HET=1;HOM=0;NC=0	GT:GQ:SDP:DP:RD:AD:FREQ:PVAL:RBQ:ABQ:RDF:RDR:ADF:ADR	0/1:0:380:355:347:8:2.25%:9.8E-1:33:29:164:183:4:4