##fileformat=VCFv4.1
##fileDate=20170309
##source=freeBayes v1.0.2-29-g41c1313
##reference=JB409847/reference/JB409847.fasta
##contig=<ID=JB409847,length=19795>
##phasing=none
##commandline="freebayes --ploidy 1 -f JB409847/reference/JB409847.fasta -v JB409847/freebayes/JB409847.raw.vcf JB409847/bam_quality_filter/JB409847.filter.sorted.bam"
##INFO=<ID=NS,Number=1,Type=Integer,Description="Number of samples with data">
##INFO=<ID=DP,Number=1,Type=Integer,Description="Total read depth at the locus">
##INFO=<ID=DPB,Number=1,Type=Float,Description="Total read depth per bp at the locus; bases in reads overlapping / bases in haplotype">
##INFO=<ID=AC,Number=A,Type=Integer,Description="Total number of alternate alleles in called genotypes">
##INFO=<ID=AN,Number=1,Type=Integer,Description="Total number of alleles in called genotypes">
##INFO=<ID=AF,Number=A,Type=Float,Description="Estimated allele frequency in the range (0,1]">
##INFO=<ID=RO,Number=1,Type=Integer,Description="Reference allele observation count, with partial observations recorded fractionally">
##INFO=<ID=AO,Number=A,Type=Integer,Description="Alternate allele observations, with partial observations recorded fractionally">
##INFO=<ID=PRO,Number=1,Type=Float,Description="Reference allele observation count, with partial observations recorded fractionally">
##INFO=<ID=PAO,Number=A,Type=Float,Description="Alternate allele observations, with partial observations recorded fractionally">
##INFO=<ID=QR,Number=1,Type=Integer,Description="Reference allele quality sum in phred">
##INFO=<ID=QA,Number=A,Type=Integer,Description="Alternate allele quality sum in phred">
##INFO=<ID=PQR,Number=1,Type=Float,Description="Reference allele quality sum in phred for partial observations">
##INFO=<ID=PQA,Number=A,Type=Float,Description="Alternate allele quality sum in phred for partial observations">
##INFO=<ID=SRF,Number=1,Type=Integer,Description="Number of reference observations on the forward strand">
##INFO=<ID=SRR,Number=1,Type=Integer,Description="Number of reference observations on the reverse strand">
##INFO=<ID=SAF,Number=A,Type=Integer,Description="Number of alternate observations on the forward strand">
##INFO=<ID=SAR,Number=A,Type=Integer,Description="Number of alternate observations on the reverse strand">
##INFO=<ID=SRP,Number=1,Type=Float,Description="Strand balance probability for the reference allele: Phred-scaled upper-bounds estimate of the probability of observing the deviation between SRF and SRR given E(SRF/SRR) ~ 0.5, derived using Hoeffding's inequality">
##INFO=<ID=SAP,Number=A,Type=Float,Description="Strand balance probability for the alternate allele: Phred-scaled upper-bounds estimate of the probability of observing the deviation between SAF and SAR given E(SAF/SAR) ~ 0.5, derived using Hoeffding's inequality">
##INFO=<ID=AB,Number=A,Type=Float,Description="Allele balance at heterozygous sites: a number between 0 and 1 representing the ratio of reads showing the reference allele to all reads, considering only reads from individuals called as heterozygous">
##INFO=<ID=ABP,Number=A,Type=Float,Description="Allele balance probability at heterozygous sites: Phred-scaled upper-bounds estimate of the probability of observing the deviation between ABR and ABA given E(ABR/ABA) ~ 0.5, derived using Hoeffding's inequality">
##INFO=<ID=RUN,Number=A,Type=Integer,Description="Run length: the number of consecutive repeats of the alternate allele in the reference genome">
##INFO=<ID=RPP,Number=A,Type=Float,Description="Read Placement Probability: Phred-scaled upper-bounds estimate of the probability of observing the deviation between RPL and RPR given E(RPL/RPR) ~ 0.5, derived using Hoeffding's inequality">
##INFO=<ID=RPPR,Number=1,Type=Float,Description="Read Placement Probability for reference observations: Phred-scaled upper-bounds estimate of the probability of observing the deviation between RPL and RPR given E(RPL/RPR) ~ 0.5, derived using Hoeffding's inequality">
##INFO=<ID=RPL,Number=A,Type=Float,Description="Reads Placed Left: number of reads supporting the alternate balanced to the left (5') of the alternate allele">
##INFO=<ID=RPR,Number=A,Type=Float,Description="Reads Placed Right: number of reads supporting the alternate balanced to the right (3') of the alternate allele">
##INFO=<ID=EPP,Number=A,Type=Float,Description="End Placement Probability: Phred-scaled upper-bounds estimate of the probability of observing the deviation between EL and ER given E(EL/ER) ~ 0.5, derived using Hoeffding's inequality">
##INFO=<ID=EPPR,Number=1,Type=Float,Description="End Placement Probability for reference observations: Phred-scaled upper-bounds estimate of the probability of observing the deviation between EL and ER given E(EL/ER) ~ 0.5, derived using Hoeffding's inequality">
##INFO=<ID=DPRA,Number=A,Type=Float,Description="Alternate allele depth ratio.  Ratio between depth in samples with each called alternate allele and those without.">
##INFO=<ID=ODDS,Number=1,Type=Float,Description="The log odds ratio of the best genotype combination to the second-best.">
##INFO=<ID=GTI,Number=1,Type=Integer,Description="Number of genotyping iterations required to reach convergence or bailout.">
##INFO=<ID=TYPE,Number=A,Type=String,Description="The type of allele, either snp, mnp, ins, del, or complex.">
##INFO=<ID=CIGAR,Number=A,Type=String,Description="The extended CIGAR representation of each alternate allele, with the exception that '=' is replaced by 'M' to ease VCF parsing.  Note that INDEL alleles do not have the first matched base (which is provided by default, per the spec) referred to by the CIGAR.">
##INFO=<ID=NUMALT,Number=1,Type=Integer,Description="Number of unique non-reference alleles in called genotypes at this position.">
##INFO=<ID=MEANALT,Number=A,Type=Float,Description="Mean number of unique non-reference allele observations per sample with the corresponding alternate alleles.">
##INFO=<ID=LEN,Number=A,Type=Integer,Description="allele length">
##INFO=<ID=MQM,Number=A,Type=Float,Description="Mean mapping quality of observed alternate alleles">
##INFO=<ID=MQMR,Number=1,Type=Float,Description="Mean mapping quality of observed reference alleles">
##INFO=<ID=PAIRED,Number=A,Type=Float,Description="Proportion of observed alternate alleles which are supported by properly paired read fragments">
##INFO=<ID=PAIREDR,Number=1,Type=Float,Description="Proportion of observed reference alleles which are supported by properly paired read fragments">
##INFO=<ID=MIN_DP,Number=1,Type=Integer,Description="Minimum depth in gVCF output block.">
##INFO=<ID=END,Number=1,Type=Integer,Description="Last position (inclusive) in gVCF output record.">
##INFO=<ID=technology.Illumina,Number=A,Type=Float,Description="Fraction of observations supporting the alternate observed in reads from Illumina">
##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
##FORMAT=<ID=GQ,Number=1,Type=Float,Description="Genotype Quality, the Phred-scaled marginal (or unconditional) probability of the called genotype">
##FORMAT=<ID=GL,Number=G,Type=Float,Description="Genotype Likelihood, log10-scaled likelihoods of the data given the called genotype for each possible genotype generated from the reference and alternate alleles given the sample ploidy">
##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Read Depth">
##FORMAT=<ID=DPR,Number=A,Type=Integer,Description="Number of observation for each allele">
##FORMAT=<ID=RO,Number=1,Type=Integer,Description="Reference allele observation count">
##FORMAT=<ID=QR,Number=1,Type=Integer,Description="Sum of quality of the reference observations">
##FORMAT=<ID=AO,Number=A,Type=Integer,Description="Alternate allele observation count">
##FORMAT=<ID=QA,Number=A,Type=Integer,Description="Sum of quality of the alternate observations">
##FORMAT=<ID=MIN_DP,Number=1,Type=Integer,Description="Minimum depth in gVCF output block.">
#CHROM	POS	ID	REF	ALT	QUAL	FILTER	INFO	FORMAT	JB409847
JB409847	2221	.	C	T	0	.	AB=0;ABP=0;AC=0;AF=0;AN=1;AO=13;CIGAR=1X;DP=36;DPB=36;DPRA=0;EPP=4.51363;EPPR=52.9542;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=39.5952;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=486;QR=880;RO=23;RPL=6;RPP=3.17734;RPPR=52.9542;RPR=7;RUN=1;SAF=4;SAP=7.18621;SAR=9;SRF=0;SRP=52.9542;SRR=23;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	0:36:36,13:23:880:13:486:0,-35.4253
JB409847	4312	.	A	G	61.9918	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=2;CIGAR=1X;DP=2;DPB=2;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=14.2741;PAIRED=0.5;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=78;QR=0;RO=0;RPL=0;RPP=7.35324;RPPR=0;RPR=2;RUN=1;SAF=1;SAP=3.0103;SAR=1;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:2:2,2:0:0:2:78:-7.4033,0
JB409847	4341	.	G	T	697.643	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=26;CIGAR=1X;DP=26;DPB=26;DPRA=0;EPP=43.4331;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=160.638;PAIRED=0.923077;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=949;QR=0;RO=0;RPL=2;RPP=43.4331;RPPR=0;RPR=24;RUN=1;SAF=24;SAP=43.4331;SAR=2;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:26:26,26:0:0:26:949:-85.709,0
JB409847	4358	.	C	T	734.096	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=26;CIGAR=1X;DP=26;DPB=26;DPRA=0;EPP=30.0702;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=169.032;PAIRED=0.923077;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=971;QR=0;RO=0;RPL=2;RPP=43.4331;RPPR=0;RPR=24;RUN=1;SAF=24;SAP=43.4331;SAR=2;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:26:26,26:0:0:26:971:-87.6916,0
JB409847	4571	.	T	C	668.995	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=22;CIGAR=1X;DP=22;DPB=22;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=154.042;PAIRED=0.954545;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=773;QR=0;RO=0;RPL=10;RPP=3.40511;RPPR=0;RPR=12;RUN=1;SAF=15;SAP=9.32731;SAR=7;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:22:22,22:0:0:22:773:-69.8765,0
JB409847	4845	.	G	A	376.195	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=15;CIGAR=1X;DP=17;DPB=17;DPRA=0;EPP=4.31318;EPPR=7.35324;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=86.622;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=510;QR=79;RO=2;RPL=7;RPP=3.15506;RPPR=7.35324;RPR=8;RUN=1;SAF=11;SAP=10.1038;SAR=4;SRF=0;SRP=7.35324;SRR=2;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:17:17,15:2:79:15:510:-38.7166,0
JB409847	5586	.	A	C	9.4401e-15	.	AB=0;ABP=0;AC=0;AF=0;AN=1;AO=3;CIGAR=1X;DP=11;DPB=11;DPRA=0;EPP=9.52472;EPPR=4.09604;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=41.7968;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=29;QR=224;RO=8;RPL=3;RPP=9.52472;RPPR=4.09604;RPR=0;RUN=1;SAF=3;SAP=9.52472;SAR=0;SRF=2;SRP=7.35324;SRR=6;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	0:11:11,3:8:224:3:29:0,-17.724
JB409847	5591	.	T	C	9.01844e-15	.	AB=0;ABP=0;AC=0;AF=0;AN=1;AO=2;CIGAR=1X;DP=10;DPB=10;DPRA=0;EPP=7.35324;EPPR=3.32051;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=38.0538;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=14;QR=202;RO=7;RPL=2;RPP=7.35324;RPPR=3.32051;RPR=0;RUN=1;SAF=2;SAP=7.35324;SAR=0;SRF=1;SRP=10.7656;SRR=6;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	0:10:10,2:7:202:2:14:0,-17.1088
JB409847	5822	.	C	T	120.979	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=5;CIGAR=1X;DP=5;DPB=5;DPRA=0;EPP=3.44459;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=27.8566;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=148;QR=0;RO=0;RPL=3;RPP=3.44459;RPPR=0;RPR=2;RUN=1;SAF=2;SAP=3.44459;SAR=3;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:5:5,5:0:0:5:148:-13.6134,0
JB409847	5851	.	C	T	39.9458	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=4;CIGAR=1X;DP=4;DPB=4;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=9.19776;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=57;QR=0;RO=0;RPL=2;RPP=3.0103;RPPR=0;RPR=2;RUN=1;SAF=2;SAP=3.0103;SAR=2;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:4:4,4:0:0:4:57:-5.27244,0
JB409847	5930	.	A	C	5.54159e-06	.	AB=0;ABP=0;AC=0;AF=0;AN=1;AO=2;CIGAR=1X;DP=6;DPB=6;DPRA=0;EPP=3.0103;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=13.5718;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=17;QR=82;RO=4;RPL=1;RPP=3.0103;RPPR=3.0103;RPR=1;RUN=1;SAF=0;SAP=7.35324;SAR=2;SRF=2;SRP=3.0103;SRR=2;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	0:6:6,2:4:82:2:17:0,-5.96794
JB409847	5942	.	A	C	0.00374498	.	AB=0;ABP=0;AC=0;AF=0;AN=1;AO=2;CIGAR=1X;DP=5;DPB=5;DPRA=0;EPP=3.0103;EPPR=3.73412;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=7.05546;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=14;QR=53;RO=3;RPL=1;RPP=3.0103;RPPR=9.52472;RPR=1;RUN=1;SAF=0;SAP=7.35324;SAR=2;SRF=1;SRP=3.73412;SRR=2;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	0:5:5,2:3:53:2:14:0,-3.61505
JB409847	5948	.	G	A	87.3608	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=5;CIGAR=1X;DP=5;DPB=5;DPRA=0;EPP=3.44459;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=20.1156;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=118;QR=0;RO=0;RPL=1;RPP=6.91895;RPPR=0;RPR=4;RUN=1;SAF=1;SAP=6.91895;SAR=4;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:5:5,5:0:0:5:118:-10.8536,0
JB409847	6066	.	A	C	7.1995e-16	.	AB=0;ABP=0;AC=0;AF=0;AN=1;AO=2;CIGAR=1X;DP=9;DPB=9;DPRA=0;EPP=7.35324;EPPR=3.32051;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=43.1794;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=10;QR=222;RO=7;RPL=0;RPP=7.35324;RPPR=3.32051;RPR=2;RUN=1;SAF=0;SAP=7.35324;SAR=2;SRF=6;SRP=10.7656;SRR=1;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	0:9:9,2:7:222:2:10:0,-19.3348
JB409847	6218	.	T	C	314.312	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=12;CIGAR=1X;DP=12;DPB=12;DPRA=0;EPP=3.73412;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=72.373;PAIRED=0.916667;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=372;QR=0;RO=0;RPL=4;RPP=5.9056;RPPR=0;RPR=8;RUN=1;SAF=7;SAP=3.73412;SAR=5;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:12:12,12:0:0:12:372:-33.7762,0
JB409847	6854	.	A	G	403.947	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=12;CIGAR=1X;DP=12;DPB=12;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=93.0121;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=468;QR=0;RO=0;RPL=7;RPP=3.73412;RPPR=0;RPR=5;RUN=1;SAF=5;SAP=3.73412;SAR=7;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:12:12,12:0:0:12:468:-42.4686,0
JB409847	7027	.	T	C	620.54	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=19;CIGAR=1X;DP=19;DPB=19;DPRA=0;EPP=4.03889;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=142.885;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=713;QR=0;RO=0;RPL=9;RPP=3.12459;RPPR=0;RPR=10;RUN=1;SAF=8;SAP=4.03889;SAR=11;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:19:19,19:0:0:19:713:-64.4903,0
JB409847	7154	.	G	A	361.181	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=11;CIGAR=1X;DP=11;DPB=11;DPRA=0;EPP=3.20771;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=83.165;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=419;QR=0;RO=0;RPL=6;RPP=3.20771;RPPR=0;RPR=5;RUN=1;SAF=6;SAP=3.20771;SAR=5;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:11:11,11:0:0:11:419:-38.0582,0
JB409847	7452	.	A	C	507.823	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=18;CIGAR=1X;DP=18;DPB=18;DPRA=0;EPP=7.35324;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=116.931;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=595;QR=0;RO=0;RPL=8;RPP=3.49285;RPPR=0;RPR=10;RUN=1;SAF=12;SAP=7.35324;SAR=6;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:18:18,18:0:0:18:595:-53.8595,0
JB409847	8153	.	C	T	556.989	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=17;CIGAR=1X;DP=17;DPB=17;DPRA=0;EPP=4.1599;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=128.251;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=645;QR=0;RO=0;RPL=7;RPP=4.1599;RPPR=0;RPR=10;RUN=1;SAF=11;SAP=6.20364;SAR=6;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:17:17,17:0:0:17:645:-58.3811,0
JB409847	8531	.	A	C	675.92	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=21;CIGAR=1X;DP=21;DPB=21;DPRA=0;EPP=3.1137;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=155.636;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=785;QR=0;RO=0;RPL=13;RPP=5.59539;RPPR=0;RPR=8;RUN=1;SAF=6;SAP=11.386;SAR=15;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:21:21,21:0:0:21:785:-70.9664,0
JB409847	9295	.	C	A	336.015	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=11;CIGAR=1X;DP=11;DPB=11;DPRA=0;EPP=4.78696;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=77.3704;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=396;QR=0;RO=0;RPL=4;RPP=4.78696;RPPR=0;RPR=7;RUN=1;SAF=4;SAP=4.78696;SAR=7;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:11:11,11:0:0:11:396:-35.98,0
JB409847	9654	.	G	A	208.712	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=7;CIGAR=1X;DP=7;DPB=7;DPRA=0;EPP=5.80219;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=48.0578;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=257;QR=0;RO=0;RPL=3;RPP=3.32051;RPPR=0;RPR=4;RUN=1;SAF=1;SAP=10.7656;SAR=6;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:7:7,7:0:0:7:257:-23.4815,0
JB409847	9663	.	C	T	284.116	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=9;CIGAR=1X;DP=9;DPB=9;DPRA=0;EPP=3.25157;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=65.4201;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=336;QR=0;RO=0;RPL=3;RPP=5.18177;RPPR=0;RPR=6;RUN=1;SAF=3;SAP=5.18177;SAR=6;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:9:9,9:0:0:9:336:-30.5905,0
JB409847	11135	.	C	T	458.278	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=14;CIGAR=1X;DP=14;DPB=14;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=105.522;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=534;QR=0;RO=0;RPL=10;RPP=8.59409;RPPR=0;RPR=4;RUN=1;SAF=7;SAP=3.0103;SAR=7;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:14:14,14:0:0:14:534:-48.3995,0
JB409847	11529	.	G	A	322.53	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=11;CIGAR=1X;DP=11;DPB=11;DPRA=0;EPP=4.78696;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=74.2653;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=378;QR=0;RO=0;RPL=5;RPP=3.20771;RPPR=0;RPR=6;RUN=1;SAF=6;SAP=3.20771;SAR=5;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:11:11,11:0:0:11:378:-34.3392,0
JB409847	13554	.	G	T	588.082	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=40;CIGAR=1X;DP=55;DPB=55;DPRA=0;EPP=81.4005;EPPR=6.62942;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=135.411;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=1560;QR=572;RO=15;RPL=1;RPP=81.4005;RPPR=6.62942;RPR=39;RUN=1;SAF=40;SAP=89.8692;SAR=0;SRF=9;SRP=4.31318;SRR=6;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:55:55,40:15:572:40:1560:-88.8359,0
JB409847	13560	.	T	C	564.642	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=39;CIGAR=1X;DP=53;DPB=53;DPRA=0;EPP=87.6977;EPPR=12.937;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=130.014;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=1522;QR=539;RO=14;RPL=0;RPP=87.6977;RPPR=5.49198;RPR=39;RUN=1;SAF=39;SAP=87.6977;SAR=0;SRF=8;SRP=3.63072;SRR=6;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:53:53,39:14:539:39:1522:-88.3816,0
JB409847	13581	.	GAGG	AAGA	498.884	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=39;CIGAR=1X2M1X;DP=53;DPB=53.25;DPRA=0;EPP=87.6977;EPPR=5.49198;GTI=0;LEN=4;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=114.872;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=31;PRO=1;QA=1482;QR=533;RO=14;RPL=39;RPP=87.6977;RPPR=3.63072;RPR=0;RUN=1;SAF=39;SAP=87.6977;SAR=0;SRF=9;SRP=5.49198;SRR=5;TYPE=complex;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:53:53,39:14:533:39:1482:-82.5462,0
JB409847	13818	.	T	C	110.385	.	AB=0;ABP=0;AC=0;AF=0;AN=1;AO=18;CIGAR=1X;DP=40;DPB=40;DPRA=0;EPP=3.49285;EPPR=50.7827;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=25.417;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=627;QR=692;RO=22;RPL=9;RPP=3.0103;RPPR=50.7827;RPR=9;RUN=1;SAF=5;SAP=10.7311;SAR=13;SRF=0;SRP=50.7827;SRR=22;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	0:40:40,18:22:692:18:627:0,-5.83464
JB409847	13840	.	C	A	2.8072e-06	.	AB=0;ABP=0;AC=0;AF=0;AN=1;AO=15;CIGAR=1X;DP=37;DPB=37;DPRA=0;EPP=4.31318;EPPR=50.7827;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=14.2519;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=532;QR=788;RO=22;RPL=6;RPP=4.31318;RPPR=50.7827;RPR=9;RUN=1;SAF=4;SAP=10.1038;SAR=11;SRF=0;SRP=50.7827;SRR=22;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	0:37:37,15:22:788:15:532:0,-23.0451
JB409847	13857	.	T	C	3.35706e-13	.	AB=0;ABP=0;AC=0;AF=0;AN=1;AO=19;CIGAR=1X;DP=43;DPB=43;DPRA=0;EPP=12.2676;EPPR=46.8017;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=30.1185;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=658;QR=933;RO=24;RPL=7;RPP=5.8675;RPPR=39.2015;RPR=12;RUN=1;SAF=4;SAP=16.8392;SAR=15;SRF=1;SRP=46.8017;SRR=23;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	0:43:43,19:24:933:19:658:0,-24.7506
JB409847	13932	.	T	A	755.899	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=24;CIGAR=1X;DP=24;DPB=24;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=174.052;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=879;QR=0;RO=0;RPL=14;RPP=4.45795;RPPR=0;RPR=10;RUN=1;SAF=6;SAP=16.0391;SAR=18;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:24:24,24:0:0:24:879:-79.4105,0
JB409847	13986	.	A	G	344.858	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=13;CIGAR=1X;DP=13;DPB=13;DPRA=0;EPP=7.18621;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=79.4066;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=424;QR=0;RO=0;RPL=10;RPP=11.1951;RPPR=0;RPR=3;RUN=1;SAF=3;SAP=11.1951;SAR=10;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:13:13,13:0:0:13:424:-38.459,0
JB409847	14067	.	G	A	258.34	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=8;CIGAR=1X;DP=8;DPB=8;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=59.485;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=304;QR=0;RO=0;RPL=5;RPP=4.09604;RPPR=0;RPR=3;RUN=1;SAF=3;SAP=4.09604;SAR=5;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:8:8,8:0:0:8:304:-27.7172,0
JB409847	14205	.	C	T	213.661	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=7;CIGAR=1X;DP=7;DPB=7;DPRA=0;EPP=3.32051;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=49.1974;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=260;QR=0;RO=0;RPL=4;RPP=3.32051;RPPR=0;RPR=3;RUN=1;SAF=6;SAP=10.7656;SAR=1;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:7:7,7:0:0:7:260:-23.7545,0
JB409847	14449	.	T	C	353.392	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=11;CIGAR=1X;DP=11;DPB=11;DPRA=0;EPP=3.20771;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=81.3715;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=412;QR=0;RO=0;RPL=7;RPP=4.78696;RPPR=0;RPR=4;RUN=1;SAF=6;SAP=3.20771;SAR=5;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:11:11,11:0:0:11:412:-37.4254,0
JB409847	14574	.	C	T	388.748	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=13;CIGAR=1X;DP=14;DPB=14;DPRA=0;EPP=4.51363;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=89.5124;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=489;QR=41;RO=1;RPL=5;RPP=4.51363;RPPR=5.18177;RPR=8;RUN=1;SAF=6;SAP=3.17734;SAR=7;SRF=1;SRP=5.18177;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:14:14,13:1:41:13:489:-40.2582,0
JB409847	14595	.	T	C	337.068	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=11;CIGAR=1X;DP=12;DPB=12;DPRA=0;EPP=7.94546;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=77.6128;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=432;QR=39;RO=1;RPL=5;RPP=3.20771;RPPR=5.18177;RPR=6;RUN=1;SAF=4;SAP=4.78696;SAR=7;SRF=1;SRP=5.18177;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:12:12,11:1:39:11:432:-35.3371,0
JB409847	14616	.	G	A	342.227	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=11;CIGAR=1X;DP=12;DPB=12;DPRA=0;EPP=4.78696;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=78.8007;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=430;QR=35;RO=1;RPL=6;RPP=3.20771;RPPR=5.18177;RPR=5;RUN=1;SAF=4;SAP=4.78696;SAR=7;SRF=1;SRP=5.18177;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:12:12,11:1:35:11:430:-35.5519,0
JB409847	14688	.	A	T	259.791	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=8;CIGAR=1X;DP=8;DPB=8;DPRA=0;EPP=4.09604;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=59.819;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=310;QR=0;RO=0;RPL=5;RPP=4.09604;RPPR=0;RPR=3;RUN=1;SAF=6;SAP=7.35324;SAR=2;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:8:8,8:0:0:8:310:-28.2603,0
JB409847	14916	.	C	T	372.734	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=12;CIGAR=1X;DP=12;DPB=12;DPRA=0;EPP=5.9056;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=85.8253;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=438;QR=0;RO=0;RPL=4;RPP=5.9056;RPPR=0;RPR=8;RUN=1;SAF=6;SAP=3.0103;SAR=6;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:12:12,12:0:0:12:438:-39.7556,0
JB409847	14931	.	C	T	402.167	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=13;CIGAR=1X;DP=13;DPB=13;DPRA=0;EPP=4.51363;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=92.6024;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=470;QR=0;RO=0;RPL=8;RPP=4.51363;RPPR=0;RPR=5;RUN=1;SAF=5;SAP=4.51363;SAR=8;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:13:13,13:0:0:13:470:-42.6281,0
JB409847	14979	.	A	G	225.797	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=7;CIGAR=1X;DP=7;DPB=7;DPRA=0;EPP=5.80219;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=51.9917;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=273;QR=0;RO=0;RPL=5;RPP=5.80219;RPPR=0;RPR=2;RUN=1;SAF=2;SAP=5.80219;SAR=5;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:7:7,7:0:0:7:273:-24.9347,0
JB409847	15024	.	A	G	209.323	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=7;CIGAR=1X;DP=7;DPB=7;DPRA=0;EPP=3.32051;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=48.1985;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=250;QR=0;RO=0;RPL=3;RPP=3.32051;RPPR=0;RPR=4;RUN=1;SAF=2;SAP=5.80219;SAR=5;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:7:7,7:0:0:7:250:-22.8436,0
JB409847	15039	.	A	G	245.389	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=8;CIGAR=1X;DP=8;DPB=8;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=56.5028;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=292;QR=0;RO=0;RPL=2;RPP=7.35324;RPPR=0;RPR=6;RUN=1;SAF=4;SAP=3.0103;SAR=4;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:8:8,8:0:0:8:292:-26.6262,0
JB409847	15069	.	C	T	410.081	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=13;CIGAR=1X;DP=13;DPB=13;DPRA=0;EPP=7.18621;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=94.4247;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=483;QR=0;RO=0;RPL=4;RPP=7.18621;RPPR=0;RPR=9;RUN=1;SAF=7;SAP=3.17734;SAR=6;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:13:13,13:0:0:13:483:-43.8052,0
JB409847	15089	.	T	G	545.128	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=17;CIGAR=1X;DP=17;DPB=17;DPRA=0;EPP=4.1599;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=125.52;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=632;QR=0;RO=0;RPL=6;RPP=6.20364;RPPR=0;RPR=11;RUN=1;SAF=10;SAP=4.1599;SAR=7;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:17:17,17:0:0:17:632:-57.195,0
JB409847	15168	.	G	T	399.101	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=13;CIGAR=1X;DP=13;DPB=13;DPRA=0;EPP=4.51363;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=91.8965;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=468;QR=0;RO=0;RPL=9;RPP=7.18621;RPPR=0;RPR=4;RUN=1;SAF=6;SAP=3.17734;SAR=7;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:13:13,13:0:0:13:468:-42.4519,0
JB409847	15177	.	G	T	250.176	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=8;CIGAR=1X;DP=8;DPB=8;DPRA=0;EPP=4.09604;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=57.6052;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=295;QR=0;RO=0;RPL=4;RPP=3.0103;RPPR=0;RPR=4;RUN=1;SAF=3;SAP=4.09604;SAR=5;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:8:8,8:0:0:8:295:-26.9009,0
JB409847	15219	.	C	T	124.67	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=4;CIGAR=1X;DP=4;DPB=4;DPRA=0;EPP=5.18177;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=28.7064;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=161;QR=0;RO=0;RPL=4;RPP=11.6962;RPPR=0;RPR=0;RUN=1;SAF=1;SAP=5.18177;SAR=3;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:4:4,4:0:0:4:161:-14.8753,0
JB409847	15256	.	A	G	209.864	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=7;CIGAR=1X;DP=7;DPB=7;DPRA=0;EPP=3.32051;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=48.3229;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=253;QR=0;RO=0;RPL=2;RPP=5.80219;RPPR=0;RPR=5;RUN=1;SAF=2;SAP=5.80219;SAR=5;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:7:7,7:0:0:7:253:-23.1195,0
JB409847	15293	.	C	A	307.295	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=10;CIGAR=1X;DP=10;DPB=10;DPRA=0;EPP=3.87889;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=70.7573;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=366;QR=0;RO=0;RPL=3;RPP=6.48466;RPPR=0;RPR=7;RUN=1;SAF=3;SAP=6.48466;SAR=7;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:10:10,10:0:0:10:366:-33.2798,0
JB409847	15303	.	C	T	429.204	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=14;CIGAR=1X;DP=14;DPB=14;DPRA=0;EPP=5.49198;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=98.8278;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=507;QR=0;RO=0;RPL=5;RPP=5.49198;RPPR=0;RPR=9;RUN=1;SAF=4;SAP=8.59409;SAR=10;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:14:14,14:0:0:14:507:-45.9603,0
JB409847	15375	.	CAA	TAG	585.396	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=19;CIGAR=1X1M1X;DP=19;DPB=19.3333;DPRA=0;EPP=8.61041;EPPR=0;GTI=0;LEN=3;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=134.792;PAIRED=1;PAIREDR=0;PAO=1;PQA=31;PQR=0;PRO=0;QA=650;QR=0;RO=0;RPL=7;RPP=5.8675;RPPR=0;RPR=12;RUN=1;SAF=10;SAP=3.12459;SAR=9;SRF=0;SRP=0;SRR=0;TYPE=complex;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:19:19,19:0:0:19:650:-61.597,0
JB409847	15420	.	G	A	5.34069e-12	.	AB=0;ABP=0;AC=0;AF=0;AN=1;AO=20;CIGAR=1X;DP=51;DPB=51;DPRA=0;EPP=3.44459;EPPR=70.3259;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=27.4492;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=716;QR=1126;RO=31;RPL=11;RPP=3.44459;RPPR=70.3259;RPR=9;RUN=1;SAF=14;SAP=9.95901;SAR=6;SRF=31;SRP=70.3259;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	0:51:51,20:31:1126:20:716:0,-36.8938
JB409847	15540	.	A	G	88.7627	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=3;CIGAR=1X;DP=3;DPB=3;DPRA=0;EPP=3.73412;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=20.4384;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=114;QR=0;RO=0;RPL=1;RPP=3.73412;RPPR=0;RPR=2;RUN=1;SAF=3;SAP=9.52472;SAR=0;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:3:3,3:0:0:3:114:-10.6313,0
JB409847	15549	.	T	A	89.6908	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=3;CIGAR=1X;DP=3;DPB=3;DPRA=0;EPP=3.73412;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=20.6521;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=115;QR=0;RO=0;RPL=1;RPP=3.73412;RPPR=0;RPR=2;RUN=1;SAF=3;SAP=9.52472;SAR=0;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:3:3,3:0:0:3:115:-10.7241,0
JB409847	15678	.	A	G	5.91324	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=22;CIGAR=1X;DP=38;DPB=38;DPRA=0;EPP=50.7827;EPPR=7.89611;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=1.06551;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=723;QR=580;RO=16;RPL=1;RPP=42.4916;RPPR=11.6962;RPR=21;RUN=1;SAF=1;SAP=42.4916;SAR=21;SRF=3;SRP=16.582;SRR=13;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:38:38,22:16:580:22:723:-12.845,0
JB409847	15721	.	G	A	0.00716156	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=22;CIGAR=1X;DP=41;DPB=41;DPRA=0;EPP=50.7827;EPPR=4.03889;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=6.40676;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=886;QR=728;RO=19;RPL=22;RPP=50.7827;RPPR=3.12459;RPR=0;RUN=1;SAF=0;SAP=50.7827;SAR=22;SRF=6;SRP=8.61041;SRR=13;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:41:41,22:19:728:22:886:-14.2043,0
JB409847	15996	.	C	A	579.563	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=17;CIGAR=1X;DP=17;DPB=17;DPRA=0;EPP=3.13803;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=133.449;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=669;QR=0;RO=0;RPL=6;RPP=6.20364;RPPR=0;RPR=11;RUN=1;SAF=10;SAP=4.1599;SAR=7;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:17:17,17:0:0:17:669:-60.5415,0
JB409847	16014	.	G	A	706.384	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=21;CIGAR=1X;DP=21;DPB=21;DPRA=0;EPP=3.1137;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=162.651;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=808;QR=0;RO=0;RPL=10;RPP=3.1137;RPPR=0;RPR=11;RUN=1;SAF=12;SAP=3.94093;SAR=9;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:21:21,21:0:0:21:808:-73.0402,0
JB409847	16452	.	C	T	696.042	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=21;CIGAR=1X;DP=21;DPB=21;DPRA=0;EPP=3.1137;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=160.27;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=801;QR=0;RO=0;RPL=10;RPP=3.1137;RPPR=0;RPR=11;RUN=1;SAF=14;SAP=8.07707;SAR=7;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:21:21,21:0:0:21:801:-72.4087,0
JB409847	16484	.	A	G	624.982	.	AB=0;ABP=0;AC=1;AF=1;AN=1;AO=20;CIGAR=1X;DP=20;DPB=20;DPRA=0;EPP=13.8677;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=143.907;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=734;QR=0;RO=0;RPL=12;RPP=4.74748;RPPR=0;RPR=8;RUN=1;SAF=13;SAP=6.91895;SAR=7;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.Illumina=1	GT:DP:DPR:RO:QR:AO:QA:GL	1:20:20,20:0:0:20:734:-66.3799,0
