##fileformat=VCFv4.2
##FORMAT=<ID=AD,Number=R,Type=Integer,Description="Allelic depths (counting only informative reads out of the total reads) for the ref and alt alleles in the order listed">
##FORMAT=<ID=AF,Number=A,Type=Float,Description="Allele fractions for alt alleles in the order listed">
##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Approximate read depth (reads with MQ=255 or with bad mates are filtered)">
##FORMAT=<ID=F1R2,Number=R,Type=Integer,Description="Count of reads in F1R2 pair orientation supporting each allele">
##FORMAT=<ID=F2R1,Number=R,Type=Integer,Description="Count of reads in F2R1 pair orientation supporting each allele">
##FORMAT=<ID=GP,Number=G,Type=Float,Description="Phred-scaled posterior probabilities for genotypes as defined in the VCF specification">
##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality">
##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
##FORMAT=<ID=MB,Number=4,Type=Integer,Description="Per-sample component statistics to detect mate bias">
##FORMAT=<ID=PL,Number=G,Type=Integer,Description="Normalized, Phred-scaled likelihoods for genotypes as defined in the VCF specification">
##FORMAT=<ID=PRI,Number=G,Type=Float,Description="Phred-scaled prior probabilities for genotypes">
##FORMAT=<ID=PS,Number=1,Type=Integer,Description="Physical phasing ID information, where each unique ID within a given sample (but not across samples) connects records within a phasing group">
##FORMAT=<ID=SB,Number=4,Type=Integer,Description="Per-sample component statistics which comprise the Fisher's Exact Test to detect strand bias">
##FORMAT=<ID=SQ,Number=A,Type=Float,Description="Somatic quality">
##DRAGENCommandLine=<ID=HashTableBuild,Version="SW: 01.003.044.3.10.4, HashTableVersion: 8",CommandLineOptions="dragen --build-hash-table true --ht-reference /staging/human/reference/hs37d5/hs37d5.fa --output-dir /staging/human/reference/hs37d5/hs37d5.fa.k_21.f_16.m_149 --ht-num-threads 32 --ht-seed-len 21 --enable-cnv true">
##DRAGENCommandLine=<ID=dragen,Version="SW: 07.021.624.3.10.4, HW: 07.021.624",Date="Mon Mar 21 19:12:18 CET 2022",CommandLineOptions="--ref-dir /staging/human/reference/hs37d5/hs37d5.fa.k_21.f_16.m_149 --fastq-file1 /mnt/smb01-hum/NGSRawData/220318_A01077_0174_AH7JGVDMXY/Data/Intensities/BaseCalls/NA-12878WGS-Genom-size_S1_R1_001.fastq.gz --fastq-file2 /mnt/smb01-hum/NGSRawData/220318_A01077_0174_AH7JGVDMXY/Data/Intensities/BaseCalls/NA-12878WGS-Genom-size_S1_R2_001.fastq.gz --output-directory /staging/output/220318_A01077_0174_AH7JGVDMXY/NA-12878WGSWGS/ --output-file-prefix NA-12878WGSWGS_dragen --RGID WGS --RGSM NA-12878WGSWGS --num-threads 46 --enable-map-align true --enable-map-align-output true --enable-duplicate-marking true --enable-variant-caller true --qc-cross-cont-vcf /opt/edico/config/sample_cross_contamination_resource_GRCh37.vcf.gz --enable-cnv true --cnv-enable-self-normalization true --enable-sv true --qc-coverage-region-1 /staging/human/bed/CDS-v19-ROIs_v2.bed --qc-coverage-reports-1 cov_report full_res --qc-coverage-region-2 /staging/human/bed/Regions_Exomev8.bed --qc-coverage-reports-2 cov_report full_res --qc-coverage-region-3 /staging/human/bed/Padded_Exomev8.bed --qc-coverage-reports-3 cov_report full_res">
##INFO=<ID=AC,Number=A,Type=Integer,Description="Allele count in genotypes, for each ALT allele, in the same order as listed">
##INFO=<ID=AF,Number=A,Type=Float,Description="Allele Frequency, for each ALT allele, in the same order as listed">
##INFO=<ID=AN,Number=1,Type=Integer,Description="Total number of alleles in called genotypes">
##INFO=<ID=DB,Number=0,Type=Flag,Description="dbSNP Membership">
##INFO=<ID=FS,Number=1,Type=Float,Description="Phred-scaled p-value using Fisher's exact test to detect strand bias">
##INFO=<ID=QD,Number=1,Type=Float,Description="Variant Confidence/Quality by Depth">
##INFO=<ID=SOR,Number=1,Type=Float,Description="Symmetric Odds Ratio of 2x2 contingency table to detect strand bias">
##INFO=<ID=DP,Number=1,Type=Integer,Description="Approximate read depth (informative and non-informative); some reads may have been filtered based on mapq etc.">
##INFO=<ID=END,Number=1,Type=Integer,Description="Stop position of the interval">
##INFO=<ID=FractionInformativeReads,Number=1,Type=Float,Description="The fraction of informative reads out of the total reads">
##INFO=<ID=MQ,Number=1,Type=Float,Description="RMS Mapping Quality">
##INFO=<ID=MQRankSum,Number=1,Type=Float,Description="Z-score From Wilcoxon rank sum test of Alt vs. Ref read mapping qualities">
##INFO=<ID=ReadPosRankSum,Number=1,Type=Float,Description="Z-score from Wilcoxon rank sum test of Alt vs. Ref read position bias">
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#CHROM	POS	ID	REF	ALT	QUAL	FILTER	INFO	FORMAT	NA12878
17	41256074	.	CA	C	44.34	.	AC=1;AF=0.500;AN=2;DP=18;FS=0.000;MQ=243.16;MQRankSum=3.266;QD=2.46;ReadPosRankSum=2.663;SOR=1.112;FractionInformativeReads=0.944	GT:AD:AF:DP:F1R2:F2R1:GQ:PL:GP:PRI:SB:MB:PS	0|1:11,6:0.353:17:8,3:3,3:43:55,0,47:4.4342e+01,2.0325e-04,5.0000e+01:0.00,11.00,14.01:5,6,2,4:4,7,5,1:41256074
MT	750	.	A	G	.	.	DP=7835;MQ=167.68;FractionInformativeReads=0.998	GT:SQ:AD:AF:F1R2:F2R1:DP:SB:MB	1/1:98.13:1,7818:1.000:1,3815:0,4003:7819:1,0,4126,3692:1,0,3979,3839