Mercurial > repos > iuc > ivar_trim

view test-data/zika/Z52_a_pass.vcf @ 7:364f4ffec275 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ivar/ commit 80ad6146e8852fb04fbdbe7b14ab120eee605e3a"
author iuc
date Fri, 11 Jun 2021 15:43:11 +0000
parents
children e3bb03cf207a
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##fileformat=VCFv4.2
##source=iVar
##INFO=<ID=DP,Number=1,Type=Integer,Description="Total Depth">
##INFO=<ID=REF_DP,Number=1,Type=Integer,Description="Depth of reference base">
##INFO=<ID=REF_RV,Number=1,Type=Integer,Description="Depth of reference base on reverse reads">
##INFO=<ID=REF_QUAL,Number=1,Type=Integer,Description="Mean quality of reference base">
##INFO=<ID=ALT_DP,Number=1,Type=Integer,Description="Depth of alternate base">
##INFO=<ID=ALT_RV,Number=1,Type=Integer,Description="Deapth of alternate base on reverse reads">
##INFO=<ID=ALT_QUAL,Number=1,Type=Integer,Description="Mean quality of alternate base">
##INFO=<ID=AF,Number=1,Type=Float,Description="Frequency of alternate base">
##INFO=<ID=INDEL,Number=0,Type=Flag,Description="Indicates that the variant is an INDEL.">
##FILTER=<ID=PASS,Description="Result of p-value <= 0.05">
##FILTER=<ID=FAIL,Description="Result of p-value > 0.05">
#CHROM	POS	ID	REF	ALT	QUAL	FILTER	INFO
PRV	1682	.	C	T	.	PASS	DP=1133;REF_DP=1097;REF_RV=984;REF_QUAL=37;ALT_DP=34;ALT_RV=33;ALT_QUAL=37;AF=0.0300088
PRV	1965	.	T	G	.	PASS	DP=365;REF_DP=302;REF_RV=113;REF_QUAL=37;ALT_DP=63;ALT_RV=25;ALT_QUAL=37;AF=0.172603
PRV	2781	.	T	G	.	PASS	DP=408;REF_DP=354;REF_RV=70;REF_QUAL=37;ALT_DP=48;ALT_RV=8;ALT_QUAL=36;AF=0.117647
PRV	2922	.	C	T	.	PASS	DP=275;REF_DP=264;REF_RV=0;REF_QUAL=36;ALT_DP=11;ALT_RV=0;ALT_QUAL=36;AF=0.04
PRV	3148	.	Y	T	.	PASS	DP=1707;REF_DP=0;REF_RV=0;REF_QUAL=0;ALT_DP=1324;ALT_RV=264;ALT_QUAL=36;AF=0.77563
PRV	3148	.	Y	C	.	PASS	DP=1707;REF_DP=0;REF_RV=0;REF_QUAL=0;ALT_DP=381;ALT_RV=75;ALT_QUAL=36;AF=0.223199
PRV	3295	.	A	G	.	PASS	DP=1040;REF_DP=1002;REF_RV=1002;REF_QUAL=35;ALT_DP=38;ALT_RV=38;ALT_QUAL=33;AF=0.0365385
PRV	5680	.	C	T	.	PASS	DP=35;REF_DP=27;REF_RV=5;REF_QUAL=44;ALT_DP=8;ALT_RV=2;ALT_QUAL=46;AF=0.228571
PRV	7916	.	C	T	.	PASS	DP=432;REF_DP=351;REF_RV=289;REF_QUAL=36;ALT_DP=81;ALT_RV=78;ALT_QUAL=37;AF=0.1875
PRV	9713	.	C	T	.	PASS	DP=387;REF_DP=374;REF_RV=0;REF_QUAL=37;ALT_DP=13;ALT_RV=0;ALT_QUAL=35;AF=0.0335917