annotate test-data/b.vcf @ 1:2b62154e39c8 draft default tip

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit 600a9e3c1d884e5cf106e4477c7b8223ef105cdb"

##fileformat=VCFv4.1
##contig=<ID=1,length=400>
##contig=<ID=2,length=400>
##INFO=<ID=CHR2,Number=1,Type=String,Description="Chromosome for END coordinate in case of a translocation">
##INFO=<ID=END,Number=1,Type=Integer,Description="End position of the structural variant">
##INFO=<ID=RE,Number=1,Type=Integer,Description="read support">
##INFO=<ID=PRECISE,Number=0,Type=Flag,Description="Precise structural variation">
##INFO=<ID=SVLEN,Number=1,Type=Integer,Description="Length of the SV">
##INFO=<ID=SVTYPE,Number=1,Type=String,Description="Type of structural variant">
##INFO=<ID=STRANDS,Number=A,Type=String,Description="Strand orientation of the adjacency in BEDPE format (DEL:+-, DUP:-+, INV:++/--)">
##INFO=<ID=IS_SPECIFIC,Number=1,Type=String,Description="Whether or not a variant has enough read support and length to be specific">
##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
1	100	1	CACGTACGTACGTACGTACGTACGTACTGACGT	C	.	PASS	PRECISE;CHR2=1;END=132;SVTYPE=DEL;SUPTYPE=AL;SVLEN=-32;STRANDS=+-;RE=12;IS_SPECIFIC=1	GT	1/1
1	205	2	C	CACGTACGTACGTACGTACGTACGTACTGACGTACGTACGT	.	PASS	PRECISE;CHR2=1;END=205;SVTYPE=INS;SUPTYPE=AL;SVLEN=40;STRANDS=+-;RE=10;IS_SPECIFIC=1	GT	1/1
1	300	3	N	]2:1000000]N	.	PASS	PRECISE;CHR2=2;END=3000000;SVTYPE=BND;SUPTYPE=AL;SVLEN=1;STRANDS=-+;RE=15;IS_SPECIFIC=1	GT	1/1