gistfile1.txt

##fileformat=VCFv4.2
##FILTER=<ID=PASS,Description="All filters passed">
##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
##FORMAT=<ID=AD,Number=R,Type=Integer,Description="Allelic depths for the ref and alt alleles in the order listed">
##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Read Depth">
##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality">
##FORMAT=<ID=PL,Number=G,Type=Integer,Description="Normalized, Phred-scaled likelihoods for genotypes as defined in the VCF specification">
##reference=ftp://ftp.1000genomes.ebi.ac.uk/vol1/ftp/technical/reference/phase2_reference_assembly_sequence/hs37d5.fa.gz
##contig=<ID=1,length=249250621,md5=1b22b98cdeb4a9304cb5d48026a85128>
##contig=<ID=2,length=243199373,md5=a0d9851da00400dec1098a9255ac712e>
##contig=<ID=3,length=198022430,md5=fdfd811849cc2fadebc929bb925902e5>
##contig=<ID=4,length=191154276,md5=23dccd106897542ad87d2765d28a19a1>
##contig=<ID=5,length=180915260,md5=0740173db9ffd264d728f32784845cd7>
##contig=<ID=6,length=171115067,md5=1d3a93a248d92a729ee764823acbbc6b>
##contig=<ID=7,length=159138663,md5=618366e953d6aaad97dbe4777c29375e>
##contig=<ID=8,length=146364022,md5=96f514a9929e410c6651697bded59aec>
##contig=<ID=9,length=141213431,md5=3e273117f15e0a400f01055d9f393768>
##contig=<ID=10,length=135534747,md5=988c28e000e84c26d552359af1ea2e1d>
##contig=<ID=11,length=135006516,md5=98c59049a2df285c76ffb1c6db8f8b96>
##contig=<ID=12,length=133851895,md5=51851ac0e1a115847ad36449b0015864>
##contig=<ID=13,length=115169878,md5=283f8d7892baa81b510a015719ca7b0b>
##contig=<ID=14,length=107349540,md5=98f3cae32b2a2e9524bc19813927542e>
##contig=<ID=15,length=102531392,md5=e5645a794a8238215b2cd77acb95a078>
##contig=<ID=16,length=90354753,md5=fc9b1a7b42b97a864f56b348b06095e6>
##contig=<ID=17,length=81195210,md5=351f64d4f4f9ddd45b35336ad97aa6de>
##contig=<ID=18,length=78077248,md5=b15d4b2d29dde9d3e4f93d1d0f2cbc9c>
##contig=<ID=19,length=59128983,md5=1aacd71f30db8e561810913e0b72636d>
##contig=<ID=20,length=63025520,md5=0dec9660ec1efaaf33281c0d5ea2560f>
##contig=<ID=21,length=48129895,md5=2979a6085bfe28e3ad6f552f361ed74d>
##contig=<ID=22,length=51304566,md5=a718acaa6135fdca8357d5bfe94211dd>
##contig=<ID=X,length=155270560,md5=7e0e2e580297b7764e31dbc80c2540dd>
##contig=<ID=Y,length=59373566,md5=1fa3474750af0948bdf97d5a0ee52e51>
##contig=<ID=MT,length=16569,md5=c68f52674c9fb33aef52dcf399755519>
##bcftools_viewVersion=1.9+htslib-1.9
##bcftools_viewCommand=view -Oz -o /paella/CRAMPipeline/projects/mgrb_phase2_vcf/reheader/MGRB.phase2.SNPtier12.match.vqsr.minrep.WGStier12.unrelated.nocancer.over70.MT.vcf.gz -; Date=Fri Aug  2 13:38:35 2019
##INFO=<ID=AC,Number=A,Type=Integer,Description="Allele count in genotypes">
##INFO=<ID=AN,Number=1,Type=Integer,Description="Total number of alleles in called genotypes">
##bcftools_viewCommand=view -s AAAAA -t MT:105 reheader/MGRB.phase2.SNPtier12.match.vqsr.minrep.WGStier12.unrelated.nocancer.over70.MT.vcf.gz; Date=Fri Aug  2 14:17:00 2019
#CHROM	POS	ID	REF	ALT	QUAL	FILTER	INFO	FORMAT	SAMPLE_NAME
MT	105	.	CGGAGCA	C,*	.	.	AC=0,0;AN=2	GT:AD:DP:GQ:PL	0/0:1736,0,0:1736:99:0,120,1800,120,1800,1800