Mercurial > repos > iuc > colibread_takeabreak

comparison test-data/discosnp/vcf_file.vcf @ 5:8286fbe97349 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit 0ed02865f048ad7471ea79509c0e23162bc29166"
author iuc
date Mon, 17 Aug 2020 10:40:40 -0400
parents a018b8f663ea
children
comparison
equal deleted inserted replaced
4:634f717de809 5:8286fbe97349
1 ##fileformat=VCFv4.1 1 ##fileformat=VCFv4.1
2 ##filedate=2017102 2 ##filedate=2020814XX
3 ##source=VCF_creator 3 ##source=VCF_creator
4 ##SAMPLE=file://discoRes_k_25_c_auto_D_0_P_1_b_0_coherent.fa 4 ##SAMPLE=file://discoRes_k_25_c_auto_D_0_P_1_b_0_coherent.fa
5 ##REF=<ID=REF,Number=1,Type=String,Description="Allele of the path Disco aligned with the least mismatches"> 5 ##REF=<ID=REF,Number=1,Type=String,Description="Allele of the path Disco aligned with the least mismatches">
6 ##FILTER=<ID=MULTIPLE,Description="Mapping type : PASS or MULTIPLE or ."> 6 ##FILTER=<ID=MULTIPLE,Description="Mapping type : PASS or MULTIPLE or .">
7 ##INFO=<ID=Ty,Number=1,Type=String,Description="SNP, INS, DEL or ."> 7 ##INFO=<ID=Ty,Number=1,Type=String,Description="SNP, INS, DEL or .">
10 ##INFO=<ID=UR,Number=1,Type=Integer,Description="length of the unitig right"> 10 ##INFO=<ID=UR,Number=1,Type=Integer,Description="length of the unitig right">
11 ##INFO=<ID=CL,Number=1,Type=Integer,Description="length of the contig left"> 11 ##INFO=<ID=CL,Number=1,Type=Integer,Description="length of the contig left">
12 ##INFO=<ID=CR,Number=1,Type=Integer,Description="length of the contig right"> 12 ##INFO=<ID=CR,Number=1,Type=Integer,Description="length of the contig right">
13 ##INFO=<ID=Genome,Number=1,Type=String,Description="Allele of the reference;for indel reference is . "> 13 ##INFO=<ID=Genome,Number=1,Type=String,Description="Allele of the reference;for indel reference is . ">
14 ##INFO=<ID=Sd,Number=1,Type=Integer,Description="Reverse (-1) or Forward (1) Alignement"> 14 ##INFO=<ID=Sd,Number=1,Type=Integer,Description="Reverse (-1) or Forward (1) Alignement">
15 ##INFO=<ID=XA,Number=0/1,Type=String,Description="Other mapping positions (chromosome_position). Position is negative in case of Reverse alignment. The position designs the starting position of the alignment, not the position of the variant itself."> 15 ##INFO=<ID=XA,Number=.,Type=String,Description="Other mapping positions (chromosome_position). Position is negative in case of Reverse alignment. The position designs the starting position of the alignment, not the position of the variant itself.">
16 ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype"> 16 ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
17 ##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Cumulated depth accross samples (sum)"> 17 ##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Cumulated depth accross samples (sum)">
18 ##FORMAT=<ID=PL,Number=G,Type=Integer,Description="Phred-scaled Genotype Likelihoods"> 18 ##FORMAT=<ID=PL,Number=G,Type=Integer,Description="Phred-scaled Genotype Likelihoods">
19 ##FORMAT=<ID=AD,Number=2,Type=Integer,Description="Depth of each allele by sample"> 19 ##FORMAT=<ID=AD,Number=2,Type=Integer,Description="Depth of each allele by sample">
20 ##FORMAT=<ID=HQ,Number=2,Type=Integer,Description="Haplotype Quality"> 20 ##FORMAT=<ID=HQ,Number=2,Type=Integer,Description="Haplotype Quality">
21 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT G1 G2 21 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT G1 G2
22 SNP_higher_path_3 24 3 A T . . Ty=SNP;Rk=1;UL=.;UR=.;CL=.;CR=.;Genome=.;Sd=. GT:DP:PL:AD:HQ 0/0:74:8,227,1484:74,0:0,0 1/1:86:1724,263,8:0,86:0,0 22 SNP_higher_path_3 116 3 A T . . Ty=SNP;Rk=1;UL=92;UR=55;CL=.;CR=.;Genome=.;Sd=. GT:DP:PL:AD:HQ 0/0:74:8,227,1484:74,0:0,0 1/1:86:1724,263,8:0,86:0,0
23 SNP_higher_path_2 24 2 C G . . Ty=SNP;Rk=1;UL=.;UR=.;CL=.;CR=.;Genome=.;Sd=. GT:DP:PL:AD:HQ 1/1:124:2484,378,10:0,124:0,0 0/0:134:10,408,2684:134,0:0,0 23 SNP_higher_path_2 291 2 C G . . Ty=SNP;Rk=1;UL=267;UR=92;CL=.;CR=.;Genome=.;Sd=. GT:DP:PL:AD:HQ 1/1:124:2484,378,10:0,124:0,0 0/0:134:10,408,2684:134,0:0,0
24 SNP_higher_path_1 24 1 A T . . Ty=SNP;Rk=1;UL=.;UR=.;CL=.;CR=.;Genome=.;Sd=. GT:DP:PL:AD:HQ 1/1:110:2204,335,9:0,110:0,0 0/0:114:9,347,2284:114,0:0,0 24 SNP_higher_path_1 499 1 A T . . Ty=SNP;Rk=1;UL=475;UR=267;CL=.;CR=.;Genome=.;Sd=. GT:DP:PL:AD:HQ 1/1:110:2204,335,9:0,110:0,0 0/0:114:9,347,2284:114,0:0,0