##fileformat=VCFv4.1
##FILTER=<ID=PASS,Description="All filters passed">
##fileDate=2015-08-04
##source=IlluminaPlatinumGenomes, version: hg38_2.0.1
##reference=hg38
##contig=<ID=chr1,length=248956422>
##contig=<ID=chr2,length=242193529>
##contig=<ID=chr3,length=198295559>
##contig=<ID=chr4,length=190214555>
##contig=<ID=5,length=181538259>
##contig=<ID=6,length=170805979>
##contig=<ID=chr7,length=159345973>
##contig=<ID=chr8,length=145138636>
##contig=<ID=chr9,length=138394717>
##contig=<ID=chr10,length=133797422>
##contig=<ID=chr11,length=135086622>
##contig=<ID=chr12,length=133275309>
##contig=<ID=13,length=114364328>
##contig=<ID=chr14,length=107043718>
##contig=<ID=chr15,length=101991189>
##contig=<ID=chr16,length=90338345>
##contig=<ID=17,length=83257441>
##contig=<ID=chr18,length=80373285>
##contig=<ID=19,length=58617616>
##contig=<ID=chr20,length=64444167>
##contig=<ID=chr21,length=46709983>
##contig=<ID=chr22,length=50818468>
##contig=<ID=chrX,length=156040895>
##Method=<ID=isaac2,Description="Aligner=isaac_aligner-02.15.02.28;VariantCaller=isaac_variant_caller-2.1.4.2">
##Method=<ID=bwa_freebayes,Description="Aligner=bwa-mem-0.7.12;VariantCaller=freebayes-0.9.21-15-g8a06a0b">
##Method=<ID=bwa_platypus,Description="Aligner=bwa-mem-0.7.12;VariantCaller=platypus-0.8.1">
##Method=<ID=bwa_gatk3,Description="Aligner=bwa-mem-0.7.12;VariantCaller=gatk-3.2.2">
##FILTER=<ID=Silver,Description="Medium-confidence call. It can be included in order to achieve even higher completeness of the truth set.">
##FILTER=<ID=OverlapConflict,Description="Discordant high-confidence calls from different pipelines.">
##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
##INFO=<ID=metal,Number=1,Type=String,Description="Confidence tranche. Platinum is better than silver.">
##INFO=<ID=isaac2,Number=2,Type=String,Description="Variant calling method.">
##INFO=<ID=bwa_freebayes,Number=2,Type=String,Description="Variant calling method.">
##INFO=<ID=bwa_platypus,Number=2,Type=String,Description="Variant calling method.">
##INFO=<ID=bwa_gatk3,Number=2,Type=String,Description="Variant calling method.">
##INFO=<ID=dist2closest,Number=1,Type=Integer,Description="Distance to closest variant.">
##bcftools_viewVersion=1.3+htslib-1.3
##bcftools_viewCommand=view -r 13:32314861-32399849 ftp://ftp-trace.ncbi.nlm.nih.gov/giab/ftp/data/NA12878/analysis/Illumina_PlatinumGenomes_NA12877_NA12878_09162015/hg38/2.0.1/NA12878/NA12878.vcf.gz
#CHROM	POS	ID	REF	ALT	QUAL	FILTER	INFO	FORMAT	NA12878
13	32315831	.	G	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=58	GT	1|1
13	32315889	.	C	T	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=58	GT	1|1
13	32316090	.	G	T	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=201	GT	1|0
13	32316435	.	G	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=345	GT	1|0
13	32317661	.	T	C	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=419	GT	1|0
13	32318080	.	C	T	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=419	GT	1|1
13	32318598	.	T	C	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=25	GT	1|1
13	32318623	.	A	C	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=25	GT	1|0
13	32319654	.	A	G	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=1031	GT	1|1
13	32321240	.	G	C	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=1586	GT	1|1
13	32323201	.	G	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=1961	GT	0|1
13	32325430	.	G	C	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=311	GT	1|0
13	32325741	.	C	T	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=311	GT	1|1
13	32326796	.	T	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=1055	GT	1|0
13	32328245	.	GT	G	0	PASS	metal=platinum;isaac2=.;bwa_freebayes=.;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=.;dist2closest=11	GT	1|0
13	32328257	.	T	C	0	OverlapConflict	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=.;bwa_gatk3=HD:0,LOOHD:0;dist2closest=0	GT	1|0
13	32328257	.	T	TC	0	OverlapConflict	metal=platinum;isaac2=.;bwa_freebayes=.;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=.;dist2closest=0	GT	1|0
13	32329548	.	C	T	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=1291	GT	0|1
13	32331128	.	G	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=1580	GT	1|1
13	32333969	.	A	G	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=241	GT	1|1
13	32334210	.	C	T	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=241	GT	1|0
13	32334492	.	A	G	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=282	GT	1|0
13	32336191	.	T	C	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=1560	GT	0|1
13	32337751	.	A	G	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=1167	GT	1|0
13	32338918	.	A	G	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=1167	GT	1|1
13	32340868	.	G	C	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=405	GT	1|1
13	32341273	.	CAATT	C	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=110	GT	1|0
13	32341387	.	C	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=110	GT	1|0
13	32343048	.	GA	G	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=660	GT	0|1
13	32343709	.	GA	G	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=456	GT	0|1
13	32344166	.	GAA	G,GAAA	0	PASS	metal=platinum;isaac2=HD:2,LOOHD:1;bwa_freebayes=HD:3,LOOHD:2;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=13	GT	2|1
13	32344181	.	A	AG	0	PASS	metal=platinum;isaac2=.;bwa_freebayes=.;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=.;dist2closest=1	GT	0|1
13	32344182	.	AAG	A	0	OverlapConflict	metal=platinum;isaac2=.;bwa_freebayes=.;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=.;dist2closest=0	GT	0|1
13	32344184	.	GA	G	0	OverlapConflict	metal=platinum;isaac2=.;bwa_freebayes=.;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=.;dist2closest=0	GT	0|1
13	32344804	.	A	G	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=26	GT	0|1
13	32344830	.	G	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=26	GT	0|1
13	32345389	.	A	T	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=111	GT	0|1
13	32345500	.	T	G	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=111	GT	1|0
13	32345879	.	G	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=62	GT	1|1
13	32345941	.	T	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=62	GT	1|0
13	32346707	.	T	C	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=766	GT	1|1
13	32347807	.	A	G	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=387	GT	1|0
13	32348194	.	A	C	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=387	GT	1|0
13	32349216	.	CAAAAAAAAAAA	C	0	PASS	metal=platinum;isaac2=HD:1,LOOHD:1;bwa_freebayes=HD:7,LOOHD:6;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:2,LOOHD:2;dist2closest=11	GT	1|0
13	32349238	.	AAG	A	0	OverlapConflict	metal=platinum;isaac2=.;bwa_freebayes=.;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=.;dist2closest=0	GT	1|0
13	32349240	.	GAT	G	0	OverlapConflict	metal=platinum;isaac2=.;bwa_freebayes=.;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=.;dist2closest=0	GT	1|0
13	32349322	.	C	CA	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=80	GT	0|1
13	32349553	.	C	T	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=231	GT	0|1
13	32350055	.	A	G	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=455	GT	1|0
13	32350510	.	G	C	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=455	GT	1|0
13	32351120	.	C	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=610	GT	0|1
13	32353467	.	C	CAGAG	0	OverlapConflict	metal=platinum;isaac2=.;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=0	GT	1|0
13	32353467	.	C	CA	0	OverlapConflict	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=.;bwa_platypus=.;bwa_gatk3=.;dist2closest=0	GT	1|0
13	32353470	.	A	C	0	PASS	metal=platinum;isaac2=.;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=.;bwa_gatk3=HD:0,LOOHD:0;dist2closest=1	GT	1|0
13	32353471	.	AAGC	A	0	PASS	metal=platinum;isaac2=.;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=1	GT	1|0
13	32353757	.	C	T	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=218	GT	0|1
13	32353975	.	G	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=90	GT	0|1
13	32354065	.	A	G	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=90	GT	0|1
13	32354180	.	T	C	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=87	GT	1|1
13	32354267	.	T	C	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=4	GT	0|1
13	32354271	.	G	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=.;bwa_gatk3=HD:0,LOOHD:0;dist2closest=4	GT	1|1
13	32355095	.	A	G	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=155	GT	1|0
13	32355250	.	T	C	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=155	GT	1|1
13	32356799	.	G	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=1549	GT	1|1
13	32358476	.	C	CA	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:3,LOOHD:2;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:1,LOOHD:1;dist2closest=1313	GT	0|1
13	32359789	.	A	G	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=11	GT	1|0
13	32359800	.	A	G	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=11	GT	1|1
13	32360774	.	G	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=495	GT	1|0
13	32361269	.	T	C	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=495	GT	0|1
13	32362509	.	T	C	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=1240	GT	1|1
13	32364744	.	A	G	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=405	GT	1|0
13	32365149	.	T	G	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=28	GT	0|1
13	32365177	.	C	T	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=28	GT	1|1
13	32366208	.	C	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=543	GT	1|1
13	32366751	.	C	T	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=543	GT	0|1
13	32367579	.	A	AGATGGCTTG	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=828	GT	1|1
13	32368798	.	GT	G	0	PASS	metal=platinum;isaac2=.;bwa_freebayes=.;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=.;dist2closest=9	GT	0|1
13	32368808	.	T	G	0	PASS	metal=platinum;isaac2=HD:5,LOOHD:5;bwa_freebayes=HD:1,LOOHD:1;bwa_platypus=.;bwa_gatk3=HD:0,LOOHD:0;dist2closest=2	GT	0|1
13	32368810	.	G	T	0	OverlapConflict	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=.;bwa_gatk3=HD:0,LOOHD:0;dist2closest=0	GT	0|1
13	32368810	.	G	GT	0	OverlapConflict	metal=platinum;isaac2=.;bwa_freebayes=.;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=.;dist2closest=0	GT	0|1
13	32368819	.	G	GT	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=9	GT	1|0
13	32369699	.	G	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=220	GT	0|1
13	32369919	.	G	T	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=42	GT	1|0
13	32369961	.	G	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=42	GT	0|1
13	32371400	.	A	T	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=180	GT	0|1
13	32371580	.	A	G	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=180	GT	1|0
13	32371874	.	A	G	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=294	GT	1|1
13	32372278	.	C	T	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=390	GT	1|1
13	32372668	.	G	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=328	GT	1|0
13	32372996	.	C	CT	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:3,LOOHD:3;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=328	GT	1|0
13	32375245	.	T	C	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=875	GT	1|1
13	32376120	.	A	G	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=401	GT	1|1
13	32376521	.	C	CA	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:2,LOOHD:2;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=401	GT	1|0
13	32376974	.	A	C	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=4	GT	1|0
13	32376978	.	C	T	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=4	GT	1|0
13	32377317	.	C	T	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=142	GT	1|0
13	32377459	.	A	C	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=131	GT	0|1
13	32377590	.	CA	C	0	PASS	metal=platinum;isaac2=HD:4,LOOHD:2;bwa_freebayes=HD:1,LOOHD:1;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=131	GT	1|1
13	32378348	.	A	G	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=697	GT	1|0
13	32379045	.	A	G	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=206	GT	0|1
13	32379251	.	T	C	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=206	GT	1|1
13	32380424	.	G	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=110	GT	1|1
13	32380534	.	C	CT	0	PASS	metal=platinum;isaac2=.;bwa_freebayes=HD:4,LOOHD:2;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=70	GT	1|1
13	32380604	.	T	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=70	GT	1|1
13	32381260	.	C	T	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=656	GT	1|1
13	32381972	.	G	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=174	GT	0|1
13	32382146	.	G	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=174	GT	0|1
13	32383102	.	C	CTGTAATCCAGCACTTTGGGAGGCCAAGGTGGG	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=.;bwa_platypus=.;bwa_gatk3=HD:0,LOOHD:0;dist2closest=580	GT	1|0
13	32383682	.	G	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=153	GT	1|0
13	32383835	.	G	C	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=153	GT	1|0
13	32384329	.	T	G	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=183	GT	1|0
13	32384512	.	G	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=183	GT	1|0
13	32385062	.	C	T	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=41	GT	1|1
13	32385103	.	C	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=41	GT	1|0
13	32385702	.	A	C	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=524	GT	1|1
13	32386226	.	T	G	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=341	GT	1|1
13	32386567	.	AAAAACCATTTGTATGAAGCAGAAAAAAAATG	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:1,LOOHD:1;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=341	GT	1|0
13	32387052	.	G	GC	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=454	GT	1|1
13	32387908	.	A	C	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=43	GT	1|1
13	32387951	.	C	T	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=43	GT	1|1
13	32388121	.	CT	CTT,C	0	PASS	metal=platinum;isaac2=HD:4,LOOHD:3;bwa_freebayes=HD:4,LOOHD:4;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:4,LOOHD:4;dist2closest=59	GT	2|1
13	32388181	.	T	C	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=59	GT	1|1
13	32388542	.	T	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=124	GT	0|1
13	32388666	.	C	CT	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:6,LOOHD:6;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:2,LOOHD:2;dist2closest=124	GT	0|1
13	32389570	.	C	T	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=904	GT	1|1
13	32391514	.	T	C	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=1815	GT	1|1
13	32393329	.	A	G	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=1125	GT	1|1
13	32394454	.	G	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=16	GT	1|1
13	32394470	.	A	G	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=16	GT	1|1
13	32395894	.	T	C	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=705	GT	0|1
13	32396599	.	G	C	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=689	GT	1|1
13	32397288	.	T	C	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=281	GT	1|1
13	32397569	.	AT	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=281	GT	1|1
13	32399139	.	A	G	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=163	GT	0|1
13	32399302	.	A	G	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=163	GT	1|0
13	32399599	.	AT	A	0	PASS	metal=platinum;isaac2=HD:0,LOOHD:0;bwa_freebayes=HD:0,LOOHD:0;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:0,LOOHD:0;dist2closest=186	GT	1|0
13	32399786	.	C	CT	0	PASS	metal=platinum;isaac2=.;bwa_freebayes=.;bwa_platypus=HD:0,LOOHD:0;bwa_gatk3=HD:2,LOOHD:2;dist2closest=99	GT	0|1
