Mercurial > repos > greg > vsnp_get_snps
diff test-data/SRR8073662_zc.vcf @ 0:ee4ef1fc23c6 draft
Uploaded
| author | greg |
|---|---|
| date | Tue, 21 Apr 2020 10:14:11 -0400 |
| parents | |
| children | da20c7c76d06 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/SRR8073662_zc.vcf Tue Apr 21 10:14:11 2020 -0400 @@ -0,0 +1,1011 @@ +##fileformat=VCFv4.2 +##fileDate=20190125 +##source=freeBayes v1.2.0-dirty +##reference=/scratch/analysis_staging/a_script/vcf_test_files_sra_downloaded_2019-01-23/SRR8073662/NC_002945v4.fasta +##contig=<ID=NC_002945.4,length=4349904> +##phasing=none +##commandline="freebayes -E -1 -e 1 -u --strict-vcf -f /scratch/analysis_staging/a_script/vcf_test_files_sra_downloaded_2019-01-23/SRR8073662/NC_002945v4.fasta /scratch/analysis_staging/a_script/vcf_test_files_sra_downloaded_2019-01-23/SRR8073662/SRR8073662-nodup.bam --region NC_002945.4:0-100000 +##filter="QUAL > 20 +##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="Count of full observations of the reference haplotype."> +##INFO=<ID=AO,Number=A,Type=Integer,Description="Count of full observations of this alternate haplotype."> +##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=Integer,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=AD,Number=R,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 SRR8073662 +NC_002945.4 1057 . A G 1991.37 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=78;CIGAR=1X;DP=80;DPB=80;DPRA=0;EPP=4.01252;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQ=60;MQMR=0;NS=1;NUMALT=1;ODDS=112.736;PAIRED=0.961538;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2256;QR=0;RO=0;RPL=41;RPP=3.45573;RPPR=0;RPR=37;RUN=1;SAF=47;SAP=10.1372;SAR=31;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.ILLUMINA=1 GT:DP:AD:RO:QR:AO:QA:GL 1/1:80:0,78:0:0:78:2256:-203.125,-23.4803,0 +NC_002945.4 4480 . T C 1266.94 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=48;CIGAR=1X;DP=49;DPB=49;DPRA=0;EPP=9.52472;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQ=60;MQMR=0;NS=1;NUMALT=1;ODDS=71.1473;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1446;QR=0;RO=0;RPL=26;RPP=3.73412;RPPR=0;RPR=22;RUN=1;SAF=24;SAP=3.0103;SAR=24;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.ILLUMINA=1 GT:DP:AD:RO:QR:AO:QA:GL 1/1:49:0,48:0:0:48:1446:-130.232,-14.4494,0 +NC_002945.4 8741 . T C 1656.81 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=68;CIGAR=1X;DP=68;DPB=68;DPRA=0;EPP=44.396;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQ=60;MQMR=0;NS=1;NUMALT=1;ODDS=98.8732;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1927;QR=0;RO=0;RPL=35;RPP=3.13803;RPPR=0;RPR=33;RUN=1;SAF=41;SAP=9.26925;SAR=27;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.ILLUMINA=1 GT:DP:AD:RO:QR:AO:QA:GL 1/1:68:0,68:0:0:68:1927:-173.649,-20.47,0 +NC_002945.4 29061 . C T 1418.86 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=55;CIGAR=1X;DP=56;DPB=56;DPRA=0;EPP=3.36563;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQ=59.8909;MQMR=0;NS=1;NUMALT=1;ODDS=80.8514;PAIRED=0.854545;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1614;QR=0;RO=0;RPL=22;RPP=7.78754;RPPR=0;RPR=33;RUN=1;SAF=29;SAP=3.36563;SAR=26;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.ILLUMINA=1 GT:DP:AD:RO:QR:AO:QA:GL 1/1:56:0,55:0:0:55:1614:-145.339,-16.5567,0 +NC_002945.4 29470 . N . . . . GT ./. +NC_002945.4 29471 . N . . . . GT ./. +NC_002945.4 29472 . N . . . . GT ./. +NC_002945.4 29473 . N . . . . GT ./. +NC_002945.4 29474 . N . . . . GT ./. +NC_002945.4 29475 . N . . . . GT ./. +NC_002945.4 29476 . N . . . . GT ./. +NC_002945.4 29477 . N . . . . GT ./. +NC_002945.4 29478 . N . . . . GT ./. +NC_002945.4 29479 . N . . . . GT ./. +NC_002945.4 29480 . N . . . . GT ./. +NC_002945.4 29481 . N . . . . GT ./. +NC_002945.4 29482 . N . . . . GT ./. +NC_002945.4 29483 . N . . . . GT ./. +NC_002945.4 29484 . N . . . . GT ./. +NC_002945.4 29485 . N . . . . GT ./. +NC_002945.4 29486 . N . . . . GT ./. +NC_002945.4 29487 . N . . . . GT ./. +NC_002945.4 29488 . N . . . . GT ./. +NC_002945.4 29489 . N . . . . GT ./. +NC_002945.4 29490 . N . . . . GT ./. +NC_002945.4 29491 . N . . . . GT ./. +NC_002945.4 29492 . N . . . . GT ./. +NC_002945.4 29493 . N . . . . GT ./. +NC_002945.4 29494 . N . . . . GT ./. +NC_002945.4 29495 . N . . . . GT ./. +NC_002945.4 29496 . N . . . . GT ./. +NC_002945.4 29497 . N . . . . GT ./. +NC_002945.4 29498 . N . . . . GT ./. +NC_002945.4 29499 . N . . . . GT ./. +NC_002945.4 29500 . N . . . . GT ./. +NC_002945.4 29501 . N . . . . GT ./. +NC_002945.4 29502 . N . . . . GT ./. +NC_002945.4 29503 . N . . . . GT ./. +NC_002945.4 29504 . N . . . . GT ./. +NC_002945.4 29505 . N . . . . GT ./. +NC_002945.4 29506 . N . . . . GT ./. +NC_002945.4 29507 . N . . . . GT ./. +NC_002945.4 29508 . N . . . . GT ./. +NC_002945.4 29509 . N . . . . GT ./. +NC_002945.4 29510 . N . . . . GT ./. +NC_002945.4 29511 . N . . . . GT ./. +NC_002945.4 29512 . N . . . . GT ./. +NC_002945.4 29513 . N . . . . GT ./. +NC_002945.4 29514 . N . . . . GT ./. +NC_002945.4 29515 . N . . . . GT ./. +NC_002945.4 29516 . N . . . . GT ./. +NC_002945.4 29517 . N . . . . GT ./. +NC_002945.4 29518 . N . . . . GT ./. +NC_002945.4 29519 . N . . . . GT ./. +NC_002945.4 29520 . N . . . . GT ./. +NC_002945.4 29521 . N . . . . GT ./. +NC_002945.4 29522 . N . . . . GT ./. +NC_002945.4 29523 . N . . . . GT ./. +NC_002945.4 29524 . N . . . . GT ./. +NC_002945.4 29525 . N . . . . GT ./. +NC_002945.4 29526 . N . . . . GT ./. +NC_002945.4 29527 . N . . . . GT ./. +NC_002945.4 29528 . N . . . . GT ./. +NC_002945.4 29529 . N . . . . GT ./. +NC_002945.4 29530 . N . . . . GT ./. +NC_002945.4 29531 . N . . . . GT ./. +NC_002945.4 29532 . N . . . . GT ./. +NC_002945.4 29533 . N . . . . GT ./. +NC_002945.4 29534 . N . . . . GT ./. +NC_002945.4 29535 . N . . . . GT ./. +NC_002945.4 29536 . N . . . . GT ./. +NC_002945.4 29537 . N . . . . GT ./. +NC_002945.4 29538 . N . . . . GT ./. +NC_002945.4 29539 . N . . . . GT ./. +NC_002945.4 29540 . N . . . . GT ./. +NC_002945.4 29541 . N . . . . GT ./. +NC_002945.4 29542 . N . . . . GT ./. +NC_002945.4 29543 . N . . . . GT ./. +NC_002945.4 29544 . N . . . . GT ./. +NC_002945.4 29545 . N . . . . GT ./. +NC_002945.4 29546 . N . . . . GT ./. +NC_002945.4 29547 . N . . . . GT ./. +NC_002945.4 29548 . N . . . . GT ./. +NC_002945.4 29549 . N . . . . GT ./. +NC_002945.4 29550 . N . . . . GT ./. +NC_002945.4 29551 . N . . . . GT ./. +NC_002945.4 29552 . N . . . . GT ./. +NC_002945.4 29553 . N . . . . GT ./. +NC_002945.4 29554 . N . . . . GT ./. +NC_002945.4 29555 . N . . . . GT ./. +NC_002945.4 29556 . N . . . . GT ./. +NC_002945.4 29557 . N . . . . GT ./. +NC_002945.4 29558 . N . . . . GT ./. +NC_002945.4 29559 . N . . . . GT ./. +NC_002945.4 29560 . N . . . . GT ./. +NC_002945.4 29561 . N . . . . GT ./. +NC_002945.4 29562 . N . . . . GT ./. +NC_002945.4 29563 . N . . . . GT ./. +NC_002945.4 29564 . N . . . . GT ./. +NC_002945.4 29565 . N . . . . GT ./. +NC_002945.4 29566 . N . . . . GT ./. +NC_002945.4 29567 . N . . . . GT ./. +NC_002945.4 29568 . N . . . . GT ./. +NC_002945.4 29569 . N . . . . GT ./. +NC_002945.4 29570 . N . . . . GT ./. +NC_002945.4 29571 . N . . . . GT ./. +NC_002945.4 29572 . N . . . . GT ./. +NC_002945.4 29573 . N . . . . GT ./. +NC_002945.4 29574 . N . . . . GT ./. +NC_002945.4 29575 . N . . . . GT ./. +NC_002945.4 29576 . N . . . . GT ./. +NC_002945.4 29577 . N . . . . GT ./. +NC_002945.4 29578 . N . . . . GT ./. +NC_002945.4 29579 . N . . . . GT ./. +NC_002945.4 29580 . N . . . . GT ./. +NC_002945.4 29581 . N . . . . GT ./. +NC_002945.4 29582 . N . . . . GT ./. +NC_002945.4 29583 . N . . . . GT ./. +NC_002945.4 29584 . N . . . . GT ./. +NC_002945.4 29585 . N . . . . GT ./. +NC_002945.4 29586 . N . . . . GT ./. +NC_002945.4 29587 . N . . . . GT ./. +NC_002945.4 29588 . N . . . . GT ./. +NC_002945.4 29589 . N . . . . GT ./. +NC_002945.4 29590 . N . . . . GT ./. +NC_002945.4 29591 . N . . . . GT ./. +NC_002945.4 29592 . N . . . . GT ./. +NC_002945.4 29593 . N . . . . GT ./. +NC_002945.4 29594 . N . . . . GT ./. +NC_002945.4 29595 . N . . . . GT ./. +NC_002945.4 29596 . N . . . . GT ./. +NC_002945.4 29597 . N . . . . GT ./. +NC_002945.4 29598 . N . . . . GT ./. +NC_002945.4 29599 . N . . . . GT ./. +NC_002945.4 29600 . N . . . . GT ./. +NC_002945.4 29601 . N . . . . GT ./. +NC_002945.4 29602 . N . . . . GT ./. +NC_002945.4 29603 . N . . . . GT ./. +NC_002945.4 29604 . N . . . . GT ./. +NC_002945.4 29605 . N . . . . GT ./. +NC_002945.4 29606 . N . . . . GT ./. +NC_002945.4 29607 . N . . . . GT ./. +NC_002945.4 29608 . N . . . . GT ./. +NC_002945.4 29609 . N . . . . GT ./. +NC_002945.4 29610 . N . . . . GT ./. +NC_002945.4 29611 . N . . . . GT ./. +NC_002945.4 29612 . N . . . . GT ./. +NC_002945.4 29613 . N . . . . GT ./. +NC_002945.4 29614 . N . . . . GT ./. +NC_002945.4 29615 . N . . . . GT ./. +NC_002945.4 29616 . N . . . . GT ./. +NC_002945.4 29617 . N . . . . GT ./. +NC_002945.4 29618 . N . . . . GT ./. +NC_002945.4 29619 . N . . . . GT ./. +NC_002945.4 29620 . N . . . . GT ./. +NC_002945.4 29621 . N . . . . GT ./. +NC_002945.4 29622 . N . . . . GT ./. +NC_002945.4 29623 . N . . . . GT ./. +NC_002945.4 29624 . N . . . . GT ./. +NC_002945.4 29625 . N . . . . GT ./. +NC_002945.4 29626 . N . . . . GT ./. +NC_002945.4 29627 . N . . . . GT ./. +NC_002945.4 29628 . N . . . . GT ./. +NC_002945.4 29629 . N . . . . GT ./. +NC_002945.4 29630 . N . . . . GT ./. +NC_002945.4 29631 . N . . . . GT ./. +NC_002945.4 29632 . N . . . . GT ./. +NC_002945.4 29633 . N . . . . GT ./. +NC_002945.4 29634 . N . . . . GT ./. +NC_002945.4 29635 . N . . . . GT ./. +NC_002945.4 29636 . N . . . . GT ./. +NC_002945.4 29637 . N . . . . GT ./. +NC_002945.4 29638 . N . . . . GT ./. +NC_002945.4 29639 . N . . . . GT ./. +NC_002945.4 29640 . N . . . . GT ./. +NC_002945.4 29641 . N . . . . GT ./. +NC_002945.4 29642 . N . . . . GT ./. +NC_002945.4 29643 . N . . . . GT ./. +NC_002945.4 29644 . N . . . . GT ./. +NC_002945.4 29645 . N . . . . GT ./. +NC_002945.4 29646 . N . . . . GT ./. +NC_002945.4 29647 . N . . . . GT ./. +NC_002945.4 29648 . N . . . . GT ./. +NC_002945.4 29649 . N . . . . GT ./. +NC_002945.4 29650 . N . . . . GT ./. +NC_002945.4 29651 . N . . . . GT ./. +NC_002945.4 29652 . N . . . . GT ./. +NC_002945.4 29653 . N . . . . GT ./. +NC_002945.4 29654 . N . . . . GT ./. +NC_002945.4 29655 . N . . . . GT ./. +NC_002945.4 29656 . N . . . . GT ./. +NC_002945.4 29657 . N . . . . GT ./. +NC_002945.4 29658 . N . . . . GT ./. +NC_002945.4 29659 . N . . . . GT ./. +NC_002945.4 29660 . N . . . . GT ./. +NC_002945.4 29661 . N . . . . GT ./. +NC_002945.4 29662 . N . . . . GT ./. +NC_002945.4 29663 . N . . . . GT ./. +NC_002945.4 29664 . N . . . . GT ./. +NC_002945.4 29665 . N . . . . GT ./. +NC_002945.4 29666 . N . . . . GT ./. +NC_002945.4 29667 . N . . . . GT ./. +NC_002945.4 29668 . N . . . . GT ./. +NC_002945.4 29669 . N . . . . GT ./. +NC_002945.4 29670 . N . . . . GT ./. +NC_002945.4 29671 . N . . . . GT ./. +NC_002945.4 29672 . N . . . . GT ./. +NC_002945.4 29673 . N . . . . GT ./. +NC_002945.4 29674 . N . . . . GT ./. +NC_002945.4 29675 . N . . . . GT ./. +NC_002945.4 29676 . N . . . . GT ./. +NC_002945.4 29677 . N . . . . GT ./. +NC_002945.4 29678 . N . . . . GT ./. +NC_002945.4 29679 . N . . . . GT ./. +NC_002945.4 29680 . N . . . . GT ./. +NC_002945.4 29681 . N . . . . GT ./. +NC_002945.4 29682 . N . . . . GT ./. +NC_002945.4 29683 . N . . . . GT ./. +NC_002945.4 29684 . N . . . . GT ./. +NC_002945.4 29685 . N . . . . GT ./. +NC_002945.4 29686 . N . . . . GT ./. +NC_002945.4 29687 . N . . . . GT ./. +NC_002945.4 29688 . N . . . . GT ./. +NC_002945.4 29689 . N . . . . GT ./. +NC_002945.4 29690 . N . . . . GT ./. +NC_002945.4 29691 . N . . . . GT ./. +NC_002945.4 29692 . N . . . . GT ./. +NC_002945.4 29693 . N . . . . GT ./. +NC_002945.4 29694 . N . . . . GT ./. +NC_002945.4 29695 . N . . . . GT ./. +NC_002945.4 29696 . N . . . . GT ./. +NC_002945.4 29697 . N . . . . GT ./. +NC_002945.4 29698 . N . . . . GT ./. +NC_002945.4 29699 . N . . . . GT ./. +NC_002945.4 29700 . N . . . . GT ./. +NC_002945.4 29701 . N . . . . GT ./. +NC_002945.4 29702 . N . . . . GT ./. +NC_002945.4 29703 . N . . . . GT ./. +NC_002945.4 29704 . N . . . . GT ./. +NC_002945.4 29705 . N . . . . GT ./. +NC_002945.4 29706 . N . . . . GT ./. +NC_002945.4 29707 . N . . . . GT ./. +NC_002945.4 29708 . N . . . . GT ./. +NC_002945.4 29709 . N . . . . GT ./. +NC_002945.4 29710 . N . . . . GT ./. +NC_002945.4 29711 . N . . . . GT ./. +NC_002945.4 29712 . N . . . . GT ./. +NC_002945.4 29713 . N . . . . GT ./. +NC_002945.4 29714 . N . . . . GT ./. +NC_002945.4 29715 . N . . . . GT ./. +NC_002945.4 29716 . N . . . . GT ./. +NC_002945.4 29717 . N . . . . GT ./. +NC_002945.4 29718 . N . . . . GT ./. +NC_002945.4 29719 . N . . . . GT ./. +NC_002945.4 29720 . N . . . . GT ./. +NC_002945.4 29721 . N . . . . GT ./. +NC_002945.4 29722 . N . . . . GT ./. +NC_002945.4 29723 . N . . . . GT ./. +NC_002945.4 29724 . N . . . . GT ./. +NC_002945.4 29725 . N . . . . GT ./. +NC_002945.4 29726 . N . . . . GT ./. +NC_002945.4 29727 . N . . . . GT ./. +NC_002945.4 29728 . N . . . . GT ./. +NC_002945.4 29729 . N . . . . GT ./. +NC_002945.4 29730 . N . . . . GT ./. +NC_002945.4 29731 . N . . . . GT ./. +NC_002945.4 29732 . N . . . . GT ./. +NC_002945.4 29733 . N . . . . GT ./. +NC_002945.4 29734 . N . . . . GT ./. +NC_002945.4 29735 . N . . . . GT ./. +NC_002945.4 29736 . N . . . . GT ./. +NC_002945.4 29737 . N . . . . GT ./. +NC_002945.4 29738 . N . . . . GT ./. +NC_002945.4 29739 . N . . . . GT ./. +NC_002945.4 29740 . N . . . . GT ./. +NC_002945.4 29741 . N . . . . GT ./. +NC_002945.4 29742 . N . . . . GT ./. +NC_002945.4 29743 . N . . . . GT ./. +NC_002945.4 29744 . N . . . . GT ./. +NC_002945.4 29745 . N . . . . GT ./. +NC_002945.4 29746 . N . . . . GT ./. +NC_002945.4 29747 . N . . . . GT ./. +NC_002945.4 29748 . N . . . . GT ./. +NC_002945.4 29749 . N . . . . GT ./. +NC_002945.4 29750 . N . . . . GT ./. +NC_002945.4 29751 . N . . . . GT ./. +NC_002945.4 29752 . N . . . . GT ./. +NC_002945.4 29753 . N . . . . GT ./. +NC_002945.4 29754 . N . . . . GT ./. +NC_002945.4 29755 . N . . . . GT ./. +NC_002945.4 29756 . N . . . . GT ./. +NC_002945.4 29757 . N . . . . GT ./. +NC_002945.4 29758 . N . . . . GT ./. +NC_002945.4 29759 . N . . . . GT ./. +NC_002945.4 29760 . N . . . . GT ./. +NC_002945.4 29761 . N . . . . GT ./. +NC_002945.4 29762 . N . . . . GT ./. +NC_002945.4 29763 . N . . . . GT ./. +NC_002945.4 29764 . N . . . . GT ./. +NC_002945.4 29765 . N . . . . GT ./. +NC_002945.4 29766 . N . . . . GT ./. +NC_002945.4 29767 . N . . . . GT ./. +NC_002945.4 29768 . N . . . . GT ./. +NC_002945.4 29769 . N . . . . GT ./. +NC_002945.4 29770 . N . . . . GT ./. +NC_002945.4 29771 . N . . . . GT ./. +NC_002945.4 29772 . N . . . . GT ./. +NC_002945.4 29773 . N . . . . GT ./. +NC_002945.4 29774 . N . . . . GT ./. +NC_002945.4 29775 . N . . . . GT ./. +NC_002945.4 29776 . N . . . . GT ./. +NC_002945.4 29777 . N . . . . GT ./. +NC_002945.4 29778 . N . . . . GT ./. +NC_002945.4 29779 . N . . . . GT ./. +NC_002945.4 29780 . N . . . . GT ./. +NC_002945.4 29781 . N . . . . GT ./. +NC_002945.4 29782 . N . . . . GT ./. +NC_002945.4 29783 . N . . . . GT ./. +NC_002945.4 29784 . N . . . . GT ./. +NC_002945.4 29785 . N . . . . GT ./. +NC_002945.4 29786 . N . . . . GT ./. +NC_002945.4 29787 . N . . . . GT ./. +NC_002945.4 29788 . N . . . . GT ./. +NC_002945.4 29789 . N . . . . GT ./. +NC_002945.4 29790 . N . . . . GT ./. +NC_002945.4 29791 . N . . . . GT ./. +NC_002945.4 29792 . N . . . . GT ./. +NC_002945.4 29793 . N . . . . GT ./. +NC_002945.4 29794 . N . . . . GT ./. +NC_002945.4 29795 . N . . . . GT ./. +NC_002945.4 29796 . N . . . . GT ./. +NC_002945.4 29797 . N . . . . GT ./. +NC_002945.4 29798 . N . . . . GT ./. +NC_002945.4 29799 . N . . . . GT ./. +NC_002945.4 29800 . N . . . . GT ./. +NC_002945.4 29801 . N . . . . GT ./. +NC_002945.4 29802 . N . . . . GT ./. +NC_002945.4 29803 . N . . . . GT ./. +NC_002945.4 29804 . N . . . . GT ./. +NC_002945.4 29805 . N . . . . GT ./. +NC_002945.4 29806 . N . . . . GT ./. +NC_002945.4 29807 . N . . . . GT ./. +NC_002945.4 29808 . N . . . . GT ./. +NC_002945.4 29809 . N . . . . GT ./. +NC_002945.4 29810 . N . . . . GT ./. +NC_002945.4 29811 . N . . . . GT ./. +NC_002945.4 29812 . N . . . . GT ./. +NC_002945.4 29813 . N . . . . GT ./. +NC_002945.4 29814 . N . . . . GT ./. +NC_002945.4 29815 . N . . . . GT ./. +NC_002945.4 29816 . N . . . . GT ./. +NC_002945.4 29817 . N . . . . GT ./. +NC_002945.4 29818 . N . . . . GT ./. +NC_002945.4 29819 . N . . . . GT ./. +NC_002945.4 29820 . N . . . . GT ./. +NC_002945.4 29821 . N . . . . GT ./. +NC_002945.4 29822 . N . . . . GT ./. +NC_002945.4 29823 . N . . . . GT ./. +NC_002945.4 29824 . N . . . . GT ./. +NC_002945.4 29825 . N . . . . GT ./. +NC_002945.4 29826 . N . . . . GT ./. +NC_002945.4 29827 . N . . . . GT ./. +NC_002945.4 29828 . N . . . . GT ./. +NC_002945.4 29829 . N . . . . GT ./. +NC_002945.4 29830 . N . . . . GT ./. +NC_002945.4 29831 . N . . . . GT ./. +NC_002945.4 29832 . N . . . . GT ./. +NC_002945.4 29833 . N . . . . GT ./. +NC_002945.4 29834 . N . . . . GT ./. +NC_002945.4 29835 . N . . . . GT ./. +NC_002945.4 29836 . N . . . . GT ./. +NC_002945.4 29837 . N . . . . GT ./. +NC_002945.4 29838 . N . . . . GT ./. +NC_002945.4 29839 . N . . . . GT ./. +NC_002945.4 29840 . N . . . . GT ./. +NC_002945.4 29841 . N . . . . GT ./. +NC_002945.4 29842 . N . . . . GT ./. +NC_002945.4 29843 . N . . . . GT ./. +NC_002945.4 29844 . N . . . . GT ./. +NC_002945.4 29845 . N . . . . GT ./. +NC_002945.4 29846 . N . . . . GT ./. +NC_002945.4 29847 . N . . . . GT ./. +NC_002945.4 29848 . N . . . . GT ./. +NC_002945.4 29849 . N . . . . GT ./. +NC_002945.4 29850 . N . . . . GT ./. +NC_002945.4 29851 . N . . . . GT ./. +NC_002945.4 29852 . N . . . . GT ./. +NC_002945.4 29853 . N . . . . GT ./. +NC_002945.4 29854 . N . . . . GT ./. +NC_002945.4 29855 . N . . . . GT ./. +NC_002945.4 29856 . N . . . . GT ./. +NC_002945.4 29857 . N . . . . GT ./. +NC_002945.4 29858 . N . . . . GT ./. +NC_002945.4 29859 . N . . . . GT ./. +NC_002945.4 29860 . N . . . . GT ./. +NC_002945.4 29861 . N . . . . GT ./. +NC_002945.4 29862 . N . . . . GT ./. +NC_002945.4 29863 . N . . . . GT ./. +NC_002945.4 29864 . N . . . . GT ./. +NC_002945.4 29865 . N . . . . GT ./. +NC_002945.4 29866 . N . . . . GT ./. +NC_002945.4 29867 . N . . . . GT ./. +NC_002945.4 29868 . N . . . . GT ./. +NC_002945.4 29869 . N . . . . GT ./. +NC_002945.4 29870 . N . . . . GT ./. +NC_002945.4 29871 . N . . . . GT ./. +NC_002945.4 29872 . N . . . . GT ./. +NC_002945.4 29873 . N . . . . GT ./. +NC_002945.4 29874 . N . . . . GT ./. +NC_002945.4 29875 . N . . . . GT ./. +NC_002945.4 29876 . N . . . . GT ./. +NC_002945.4 29877 . N . . . . GT ./. +NC_002945.4 29878 . N . . . . GT ./. +NC_002945.4 29879 . N . . . . GT ./. +NC_002945.4 29880 . N . . . . GT ./. +NC_002945.4 29881 . N . . . . GT ./. +NC_002945.4 29882 . N . . . . GT ./. +NC_002945.4 29883 . N . . . . GT ./. +NC_002945.4 29884 . N . . . . GT ./. +NC_002945.4 29885 . N . . . . GT ./. +NC_002945.4 29886 . N . . . . GT ./. +NC_002945.4 29887 . N . . . . GT ./. +NC_002945.4 29888 . N . . . . GT ./. +NC_002945.4 29889 . N . . . . GT ./. +NC_002945.4 29890 . N . . . . GT ./. +NC_002945.4 29891 . N . . . . GT ./. +NC_002945.4 29892 . N . . . . GT ./. +NC_002945.4 29893 . N . . . . GT ./. +NC_002945.4 29894 . N . . . . GT ./. +NC_002945.4 29895 . N . . . . GT ./. +NC_002945.4 29896 . N . . . . GT ./. +NC_002945.4 29897 . N . . . . GT ./. +NC_002945.4 29898 . N . . . . GT ./. +NC_002945.4 29899 . N . . . . GT ./. +NC_002945.4 29900 . N . . . . GT ./. +NC_002945.4 29901 . N . . . . GT ./. +NC_002945.4 29902 . N . . . . GT ./. +NC_002945.4 29903 . N . . . . GT ./. +NC_002945.4 29904 . N . . . . GT ./. +NC_002945.4 29905 . N . . . . GT ./. +NC_002945.4 29906 . N . . . . GT ./. +NC_002945.4 29907 . N . . . . GT ./. +NC_002945.4 29908 . N . . . . GT ./. +NC_002945.4 29909 . N . . . . GT ./. +NC_002945.4 29910 . N . . . . GT ./. +NC_002945.4 29911 . N . . . . GT ./. +NC_002945.4 29912 . N . . . . GT ./. +NC_002945.4 29913 . N . . . . GT ./. +NC_002945.4 29914 . N . . . . GT ./. +NC_002945.4 29915 . N . . . . GT ./. +NC_002945.4 29916 . N . . . . GT ./. +NC_002945.4 29917 . N . . . . GT ./. +NC_002945.4 29918 . N . . . . GT ./. +NC_002945.4 29919 . N . . . . GT ./. +NC_002945.4 29920 . N . . . . GT ./. +NC_002945.4 29921 . N . . . . GT ./. +NC_002945.4 29922 . N . . . . GT ./. +NC_002945.4 29923 . N . . . . GT ./. +NC_002945.4 29924 . N . . . . GT ./. +NC_002945.4 29925 . N . . . . GT ./. +NC_002945.4 29926 . N . . . . GT ./. +NC_002945.4 29927 . N . . . . GT ./. +NC_002945.4 29928 . N . . . . GT ./. +NC_002945.4 29929 . N . . . . GT ./. +NC_002945.4 29930 . N . . . . GT ./. +NC_002945.4 29931 . N . . . . GT ./. +NC_002945.4 29932 . N . . . . GT ./. +NC_002945.4 29933 . N . . . . GT ./. +NC_002945.4 29934 . N . . . . GT ./. +NC_002945.4 29935 . N . . . . GT ./. +NC_002945.4 29936 . N . . . . GT ./. +NC_002945.4 29937 . N . . . . GT ./. +NC_002945.4 29938 . N . . . . GT ./. +NC_002945.4 29939 . N . . . . GT ./. +NC_002945.4 29940 . N . . . . GT ./. +NC_002945.4 29941 . N . . . . GT ./. +NC_002945.4 29942 . N . . . . GT ./. +NC_002945.4 29943 . N . . . . GT ./. +NC_002945.4 29944 . N . . . . GT ./. +NC_002945.4 29945 . N . . . . GT ./. +NC_002945.4 29946 . N . . . . GT ./. +NC_002945.4 29947 . N . . . . GT ./. +NC_002945.4 29948 . N . . . . GT ./. +NC_002945.4 29949 . N . . . . GT ./. +NC_002945.4 29950 . N . . . . GT ./. +NC_002945.4 29951 . N . . . . GT ./. +NC_002945.4 29952 . N . . . . GT ./. +NC_002945.4 29953 . N . . . . GT ./. +NC_002945.4 29954 . N . . . . GT ./. +NC_002945.4 29955 . N . . . . GT ./. +NC_002945.4 29956 . N . . . . GT ./. +NC_002945.4 29957 . N . . . . GT ./. +NC_002945.4 29958 . N . . . . GT ./. +NC_002945.4 29959 . N . . . . GT ./. +NC_002945.4 29960 . N . . . . GT ./. +NC_002945.4 29961 . N . . . . GT ./. +NC_002945.4 29962 . N . . . . GT ./. +NC_002945.4 29963 . N . . . . GT ./. +NC_002945.4 29964 . N . . . . GT ./. +NC_002945.4 29965 . N . . . . GT ./. +NC_002945.4 29966 . N . . . . GT ./. +NC_002945.4 29967 . N . . . . GT ./. +NC_002945.4 29968 . N . . . . GT ./. +NC_002945.4 29969 . N . . . . GT ./. +NC_002945.4 29970 . N . . . . GT ./. +NC_002945.4 29971 . N . . . . GT ./. +NC_002945.4 29972 . N . . . . GT ./. +NC_002945.4 29973 . N . . . . GT ./. +NC_002945.4 29974 . N . . . . GT ./. +NC_002945.4 29975 . N . . . . GT ./. +NC_002945.4 29976 . N . . . . GT ./. +NC_002945.4 29977 . N . . . . GT ./. +NC_002945.4 29978 . N . . . . GT ./. +NC_002945.4 29979 . N . . . . GT ./. +NC_002945.4 29980 . N . . . . GT ./. +NC_002945.4 29981 . N . . . . GT ./. +NC_002945.4 29982 . N . . . . GT ./. +NC_002945.4 29983 . N . . . . GT ./. +NC_002945.4 29984 . N . . . . GT ./. +NC_002945.4 29985 . N . . . . GT ./. +NC_002945.4 29986 . N . . . . GT ./. +NC_002945.4 29987 . N . . . . GT ./. +NC_002945.4 29988 . N . . . . GT ./. +NC_002945.4 29989 . N . . . . GT ./. +NC_002945.4 29990 . N . . . . GT ./. +NC_002945.4 29991 . N . . . . GT ./. +NC_002945.4 29992 . N . . . . GT ./. +NC_002945.4 29993 . N . . . . GT ./. +NC_002945.4 29994 . N . . . . GT ./. +NC_002945.4 29995 . N . . . . GT ./. +NC_002945.4 29996 . N . . . . GT ./. +NC_002945.4 29997 . N . . . . GT ./. +NC_002945.4 29998 . N . . . . GT ./. +NC_002945.4 29999 . N . . . . GT ./. +NC_002945.4 30000 . N . . . . GT ./. +NC_002945.4 30001 . N . . . . GT ./. +NC_002945.4 30002 . N . . . . GT ./. +NC_002945.4 30003 . N . . . . GT ./. +NC_002945.4 30004 . N . . . . GT ./. +NC_002945.4 30005 . N . . . . GT ./. +NC_002945.4 30006 . N . . . . GT ./. +NC_002945.4 30007 . N . . . . GT ./. +NC_002945.4 30008 . N . . . . GT ./. +NC_002945.4 30009 . N . . . . GT ./. +NC_002945.4 30010 . N . . . . GT ./. +NC_002945.4 30011 . N . . . . GT ./. +NC_002945.4 30012 . N . . . . GT ./. +NC_002945.4 30013 . N . . . . GT ./. +NC_002945.4 30014 . N . . . . GT ./. +NC_002945.4 30015 . N . . . . GT ./. +NC_002945.4 30016 . N . . . . GT ./. +NC_002945.4 30017 . N . . . . GT ./. +NC_002945.4 30018 . N . . . . GT ./. +NC_002945.4 30019 . N . . . . GT ./. +NC_002945.4 30020 . N . . . . GT ./. +NC_002945.4 30021 . N . . . . GT ./. +NC_002945.4 30022 . N . . . . GT ./. +NC_002945.4 30023 . N . . . . GT ./. +NC_002945.4 30024 . N . . . . GT ./. +NC_002945.4 30025 . N . . . . GT ./. +NC_002945.4 30026 . N . . . . GT ./. +NC_002945.4 30027 . N . . . . GT ./. +NC_002945.4 30028 . N . . . . GT ./. +NC_002945.4 30029 . N . . . . GT ./. +NC_002945.4 30030 . N . . . . GT ./. +NC_002945.4 30031 . N . . . . GT ./. +NC_002945.4 30032 . N . . . . GT ./. +NC_002945.4 30033 . N . . . . GT ./. +NC_002945.4 30034 . N . . . . GT ./. +NC_002945.4 30035 . N . . . . GT ./. +NC_002945.4 30036 . N . . . . GT ./. +NC_002945.4 30037 . N . . . . GT ./. +NC_002945.4 30038 . N . . . . GT ./. +NC_002945.4 30039 . N . . . . GT ./. +NC_002945.4 30040 . N . . . . GT ./. +NC_002945.4 30041 . N . . . . GT ./. +NC_002945.4 30042 . N . . . . GT ./. +NC_002945.4 30043 . N . . . . GT ./. +NC_002945.4 30044 . N . . . . GT ./. +NC_002945.4 30045 . N . . . . GT ./. +NC_002945.4 30046 . N . . . . GT ./. +NC_002945.4 30047 . N . . . . GT ./. +NC_002945.4 30048 . N . . . . GT ./. +NC_002945.4 30049 . N . . . . GT ./. +NC_002945.4 30050 . N . . . . GT ./. +NC_002945.4 30051 . N . . . . GT ./. +NC_002945.4 30052 . N . . . . GT ./. +NC_002945.4 30053 . N . . . . GT ./. +NC_002945.4 30054 . N . . . . GT ./. +NC_002945.4 30055 . N . . . . GT ./. +NC_002945.4 30056 . N . . . . GT ./. +NC_002945.4 30057 . N . . . . GT ./. +NC_002945.4 30058 . N . . . . GT ./. +NC_002945.4 30059 . N . . . . GT ./. +NC_002945.4 30060 . N . . . . GT ./. +NC_002945.4 30061 . N . . . . GT ./. +NC_002945.4 30062 . N . . . . GT ./. +NC_002945.4 30063 . N . . . . GT ./. +NC_002945.4 30064 . N . . . . GT ./. +NC_002945.4 30065 . N . . . . GT ./. +NC_002945.4 30066 . N . . . . GT ./. +NC_002945.4 30067 . N . . . . GT ./. +NC_002945.4 30068 . N . . . . GT ./. +NC_002945.4 30069 . N . . . . GT ./. +NC_002945.4 30070 . N . . . . GT ./. +NC_002945.4 30071 . N . . . . GT ./. +NC_002945.4 30072 . N . . . . GT ./. +NC_002945.4 30073 . N . . . . GT ./. +NC_002945.4 30074 . N . . . . GT ./. +NC_002945.4 30075 . N . . . . GT ./. +NC_002945.4 30076 . N . . . . GT ./. +NC_002945.4 30077 . N . . . . GT ./. +NC_002945.4 30078 . N . . . . GT ./. +NC_002945.4 30079 . N . . . . GT ./. +NC_002945.4 30080 . N . . . . GT ./. +NC_002945.4 30081 . N . . . . GT ./. +NC_002945.4 30082 . N . . . . GT ./. +NC_002945.4 33788 . A G 1024.83 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=40;CIGAR=1X;DP=40;DPB=40;DPRA=0;EPP=3.22745;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQ=60;MQMR=0;NS=1;NUMALT=1;ODDS=60.0569;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1290;QR=0;RO=0;RPL=21;RPP=3.22745;RPPR=0;RPR=19;RUN=1;SAF=40;SAP=89.8692;SAR=0;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.ILLUMINA=1 GT:DP:AD:RO:QR:AO:QA:GL 1/1:40:0,40:0:0:40:1290:-116.37,-12.0412,0 +NC_002945.4 41228 . A C 1797.65 . 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GT ./. +NC_002945.4 132673 . N . . . . GT ./. +NC_002945.4 132674 . N . . . . GT ./. +NC_002945.4 140686 . A G 2969.95 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=110;CIGAR=1X;DP=112;DPB=112;DPRA=0;EPP=4.2737;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQ=60;MQMR=0;NS=1;NUMALT=1;ODDS=157.098;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3362;QR=0;RO=0;RPL=71;RPP=23.2247;RPPR=0;RPR=39;RUN=1;SAF=52;SAP=3.72096;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.ILLUMINA=1 GT:DP:AD:RO:QR:AO:QA:GL 1/1:112:0,110:0:0:110:3362:-302.582,-33.1133,0 +NC_002945.4 143799 . T C 2348.79 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=93;CIGAR=1X;DP=97;DPB=97;DPRA=0;EPP=3.03365;EPPR=7.35324;GTI=0;LEN=1;MEANALT=3;MQ=60;MQMR=60;NS=1;NUMALT=1;ODDS=124.333;PAIRED=0.989247;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2699;QR=37;RO=2;RPL=57;RPP=13.3073;RPPR=7.35324;RPR=36;RUN=1;SAF=31;SAP=25.4488;SAR=62;SRF=0;SRP=7.35324;SRR=2;TYPE=snp;technology.ILLUMINA=1 GT:DP:AD:RO:QR:AO:QA:GL 1/1:97:2,93:2:37:93:2699:-239.615,-25.243,0 +NC_002945.4 144992 . G A 1419.32 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=51;CIGAR=1X;DP=52;DPB=52;DPRA=0;EPP=3.3935;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQ=60;MQMR=0;NS=1;NUMALT=1;ODDS=75.3062;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1617;QR=0;RO=0;RPL=19;RPP=10.206;RPPR=0;RPR=32;RUN=1;SAF=28;SAP=4.07475;SAR=23;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.ILLUMINA=1 GT:DP:AD:RO:QR:AO:QA:GL 1/1:52:0,51:0:0:51:1617:-145.649,-15.3525,0 +NC_002945.4 148871 . G A 2283.59 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=78;CIGAR=1X;DP=78;DPB=78;DPRA=0;EPP=3.45573;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQ=59.9231;MQMR=0;NS=1;NUMALT=1;ODDS=112.736;PAIRED=0.974359;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2572;QR=0;RO=0;RPL=41;RPP=3.45573;RPPR=0;RPR=37;RUN=1;SAF=42;SAP=4.01252;SAR=36;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.ILLUMINA=1 GT:DP:AD:RO:QR:AO:QA:GL 1/1:78:0,78:0:0:78:2572:-231.682,-23.4803,0 +NC_002945.4 149955 . N . . . . GT ./. +NC_002945.4 149956 . N . . . . GT ./. +NC_002945.4 149957 . N . . . . GT ./. +NC_002945.4 149958 . N . . . . GT ./. +NC_002945.4 149959 . N . . . . GT ./. +NC_002945.4 149960 . N . . . . GT ./. +NC_002945.4 149961 . N . . . . GT ./. +NC_002945.4 149962 . N . . . . GT ./. +NC_002945.4 149963 . N . . . . GT ./. +NC_002945.4 149964 . N . . . . GT ./. +NC_002945.4 149965 . N . . . . GT ./. +NC_002945.4 149966 . N . . . . GT ./. +NC_002945.4 149967 . N . . . . GT ./. +NC_002945.4 149968 . N . . . . GT ./. +NC_002945.4 149969 . N . . . . GT ./. +NC_002945.4 149970 . N . . . . GT ./. +NC_002945.4 149971 . N . . . . GT ./. +NC_002945.4 149972 . N . . . . GT ./. +NC_002945.4 149973 . N . . . . GT ./. +NC_002945.4 149974 . N . . . . GT ./. +NC_002945.4 149975 . N . . . . GT ./. +NC_002945.4 149976 . N . . . . GT ./. +NC_002945.4 149977 . N . . . . GT ./. +NC_002945.4 149978 . N . . . . GT ./. +NC_002945.4 149979 . N . . . . GT ./. +NC_002945.4 149980 . N . . . . GT ./. +NC_002945.4 149981 . N . . . . GT ./. +NC_002945.4 149982 . N . . . . GT ./. +NC_002945.4 149983 . N . . . . GT ./. +NC_002945.4 149984 . N . . . . GT ./. +NC_002945.4 149985 . N . . . . GT ./. +NC_002945.4 149986 . N . . . . GT ./. +NC_002945.4 149987 . N . . . . GT ./. +NC_002945.4 149988 . N . . . . GT ./. +NC_002945.4 149989 . N . . . . GT ./. +NC_002945.4 149990 . N . . . . GT ./. +NC_002945.4 149991 . N . . . . GT ./. +NC_002945.4 149992 . N . . . . GT ./. +NC_002945.4 149993 . N . . . . GT ./. +NC_002945.4 149994 . N . . . . GT ./. +NC_002945.4 149995 . N . . . . GT ./. +NC_002945.4 149996 . N . . . . GT ./. +NC_002945.4 149997 . N . . . . GT ./. +NC_002945.4 149998 . N . . . . GT ./. +NC_002945.4 149999 . N . . . . GT ./. +NC_002945.4 150000 . N . . . . GT ./. +NC_002945.4 150001 . N . . . . GT ./. +NC_002945.4 150002 . N . . . . GT ./. +NC_002945.4 150003 . N . . . . GT ./. +NC_002945.4 150004 . N . . . . GT ./. +NC_002945.4 150005 . N . . . . GT ./. +NC_002945.4 150006 . N . . . . GT ./. +NC_002945.4 150007 . N . . . . GT ./. +NC_002945.4 150008 . N . . . . GT ./. +NC_002945.4 150009 . N . . . . GT ./. +NC_002945.4 150010 . N . . . . GT ./. +NC_002945.4 150011 . N . . . . GT ./. +NC_002945.4 150012 . N . . . . GT ./. +NC_002945.4 150013 . N . . . . GT ./. +NC_002945.4 150014 . N . . . . GT ./. +NC_002945.4 150015 . N . . . . GT ./. +NC_002945.4 150016 . N . . . . GT ./. +NC_002945.4 150017 . N . . . . GT ./. +NC_002945.4 150018 . N . . . . GT ./. +NC_002945.4 150019 . N . . . . GT ./. +NC_002945.4 150020 . N . . . . GT ./. +NC_002945.4 150021 . N . . . . GT ./. +NC_002945.4 150022 . N . . . . GT ./. +NC_002945.4 150023 . N . . . . GT ./. +NC_002945.4 150024 . N . . . . GT ./. +NC_002945.4 150025 . N . . . . GT ./. +NC_002945.4 150026 . N . . . . GT ./. +NC_002945.4 150027 . N . . . . GT ./. +NC_002945.4 150028 . N . . . . GT ./. +NC_002945.4 150029 . N . . . . GT ./. +NC_002945.4 150030 . N . . . . GT ./. +NC_002945.4 150031 . N . . . . GT ./. +NC_002945.4 150032 . N . . . . GT ./. +NC_002945.4 150033 . N . . . . GT ./. +NC_002945.4 150034 . N . . . . GT ./. +NC_002945.4 150035 . N . . . . GT ./. +NC_002945.4 150036 . N . . . . GT ./. +NC_002945.4 150037 . N . . . . GT ./. +NC_002945.4 150038 . N . . . . GT ./. +NC_002945.4 150039 . N . . . . GT ./. +NC_002945.4 150040 . N . . . . GT ./. +NC_002945.4 150041 . N . . . . GT ./. +NC_002945.4 150042 . N . . . . GT ./. +NC_002945.4 150043 . N . . . . GT ./. +NC_002945.4 150044 . N . . . . GT ./. +NC_002945.4 150045 . N . . . . GT ./. +NC_002945.4 150046 . N . . . . GT ./. +NC_002945.4 150047 . N . . . . GT ./. +NC_002945.4 150048 . N . . . . GT ./. +NC_002945.4 150049 . N . . . . GT ./. +NC_002945.4 150050 . N . . . . GT ./. +NC_002945.4 150051 . N . . . . GT ./. +NC_002945.4 150052 . N . . . . GT ./. +NC_002945.4 150053 . N . . . . GT ./. +NC_002945.4 150054 . N . . . . GT ./. +NC_002945.4 150055 . N . . . . GT ./. +NC_002945.4 150056 . N . . . . GT ./. +NC_002945.4 150057 . N . . . . GT ./. +NC_002945.4 150058 . N . . . . GT ./. +NC_002945.4 150059 . N . . . . GT ./. +NC_002945.4 150060 . N . . . . GT ./. +NC_002945.4 150061 . N . . . . GT ./. +NC_002945.4 150062 . N . . . . GT ./. +NC_002945.4 150063 . N . . . . GT ./. +NC_002945.4 150064 . N . . . . GT ./. +NC_002945.4 150065 . N . . . . GT ./. +NC_002945.4 150066 . N . . . . GT ./. +NC_002945.4 150067 . N . . . . GT ./. +NC_002945.4 150068 . N . . . . GT ./. +NC_002945.4 150069 . N . . . . GT ./. +NC_002945.4 150070 . N . . . . GT ./. +NC_002945.4 150071 . N . . . . GT ./. +NC_002945.4 150072 . N . . . . GT ./. +NC_002945.4 150073 . N . . . . GT ./. +NC_002945.4 150074 . N . . . . GT ./. +NC_002945.4 150075 . N . . . . GT ./. +NC_002945.4 150076 . N . . . . GT ./. +NC_002945.4 150077 . N . . . . GT ./. +NC_002945.4 150078 . N . . . . GT ./. +NC_002945.4 150079 . N . . . . GT ./. +NC_002945.4 150080 . N . . . . GT ./. +NC_002945.4 150081 . N . . . . GT ./. +NC_002945.4 150082 . N . . . . GT ./. +NC_002945.4 150083 . N . . . . GT ./. +NC_002945.4 150084 . N . . . . GT ./. +NC_002945.4 150085 . N . . . . GT ./. +NC_002945.4 150086 . N . . . . GT ./. +NC_002945.4 150087 . N . . . . GT ./. +NC_002945.4 150088 . N . . . . GT ./. +NC_002945.4 150089 . N . . . . GT ./. +NC_002945.4 150090 . N . . . . GT ./. +NC_002945.4 150091 . N . . . . GT ./. +NC_002945.4 150092 . N . . . . GT ./. +NC_002945.4 150093 . N . . . . GT ./. +NC_002945.4 150094 . N . . . . GT ./. +NC_002945.4 150095 . N . . . . GT ./. +NC_002945.4 150096 . N . . . . GT ./. +NC_002945.4 150097 . N . . . . GT ./. +NC_002945.4 150098 . N . . . . GT ./. +NC_002945.4 150099 . N . . . . GT ./. +NC_002945.4 150100 . N . . . . GT ./. +NC_002945.4 150101 . N . . . . GT ./. +NC_002945.4 150102 . N . . . . GT ./. +NC_002945.4 150103 . N . . . . GT ./. +NC_002945.4 150104 . N . . . . GT ./. +NC_002945.4 150105 . N . . . . GT ./. +NC_002945.4 150106 . N . . . . GT ./. +NC_002945.4 150107 . N . . . . GT ./. +NC_002945.4 150108 . N . . . . GT ./. +NC_002945.4 150109 . N . . . . GT ./. +NC_002945.4 150110 . N . . . . GT ./. +NC_002945.4 150111 . N . . . . GT ./. +NC_002945.4 150112 . N . . . . GT ./. +NC_002945.4 150113 . N . . . . GT ./. +NC_002945.4 150114 . N . . . . GT ./. +NC_002945.4 150115 . N . . . . GT ./. +NC_002945.4 150116 . N . . . . GT ./. +NC_002945.4 150117 . N . . . . GT ./. +NC_002945.4 150118 . N . . . . GT ./. +NC_002945.4 150119 . N . . . . GT ./. +NC_002945.4 150120 . N . . . . GT ./. +NC_002945.4 150121 . N . . . . GT ./. +NC_002945.4 150122 . N . . . . GT ./. +NC_002945.4 150123 . N . . . . GT ./. +NC_002945.4 150124 . N . . . . GT ./. +NC_002945.4 150125 . N . . . . GT ./. +NC_002945.4 150126 . N . . . . GT ./. +NC_002945.4 150127 . N . . . . GT ./. +NC_002945.4 150128 . N . . . . GT ./. +NC_002945.4 150129 . N . . . . GT ./. +NC_002945.4 150130 . N . . . . GT ./. +NC_002945.4 150131 . N . . . . GT ./. +NC_002945.4 150132 . N . . . . GT ./. +NC_002945.4 150133 . N . . . . GT ./. +NC_002945.4 150134 . N . . . . GT ./. +NC_002945.4 150135 . N . . . . GT ./. +NC_002945.4 150136 . N . . . . GT ./. +NC_002945.4 150137 . N . . . . GT ./. +NC_002945.4 150138 . N . . . . GT ./. +NC_002945.4 150139 . N . . . . GT ./. +NC_002945.4 150140 . N . . . . GT ./. +NC_002945.4 150141 . N . . . . GT ./. +NC_002945.4 150142 . N . . . . GT ./. +NC_002945.4 150143 . N . . . . GT ./. +NC_002945.4 151022 . N . . . . GT ./. +NC_002945.4 151023 . N . . . . GT ./. +NC_002945.4 151024 . N . . . . GT ./. +NC_002945.4 151025 . N . . . . GT ./. +NC_002945.4 151026 . N . . . . GT ./. +NC_002945.4 151027 . N . . . . GT ./. +NC_002945.4 151028 . N . . . . GT ./. +NC_002945.4 151029 . N . . . . GT ./. +NC_002945.4 151030 . N . . . . GT ./. +NC_002945.4 151031 . N . . . . GT ./. +NC_002945.4 151032 . N . . . . GT ./. +NC_002945.4 151033 . N . . . . GT ./. +NC_002945.4 151034 . N . . . . GT ./. +NC_002945.4 151035 . N . . . . GT ./. +NC_002945.4 151036 . N . . . . GT ./. +NC_002945.4 151037 . N . . . . GT ./. +NC_002945.4 151038 . N . . . . GT ./. +NC_002945.4 151039 . N . . . . GT ./. +NC_002945.4 151040 . N . . . . GT ./. +NC_002945.4 159370 . A G 1749.91 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=62;CIGAR=1X;DP=62;DPB=62;DPRA=0;EPP=3.15039;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQ=60;MQMR=0;NS=1;NUMALT=1;ODDS=90.5554;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1998;QR=0;RO=0;RPL=42;RPP=19.9618;RPPR=0;RPR=20;RUN=1;SAF=26;SAP=6.51267;SAR=36;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.ILLUMINA=1 GT:DP:AD:RO:QR:AO:QA:GL 1/1:62:0,62:0:0:62:1998:-180.043,-18.6639,0 +NC_002945.4 160535 . T C 1804.25 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=74;CIGAR=1X;DP=76;DPB=76;DPRA=0;EPP=3.12768;EPPR=7.35324;GTI=0;LEN=1;MEANALT=1;MQ=59.8649;MQMR=60;NS=1;NUMALT=1;ODDS=100.699;PAIRED=0.986486;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2050;QR=25;RO=2;RPL=41;RPP=4.88833;RPPR=7.35324;RPR=33;RUN=1;SAF=31;SAP=7.23587;SAR=43;SRF=2;SRP=7.35324;SRR=0;TYPE=snp;technology.ILLUMINA=1 GT:DP:AD:RO:QR:AO:QA:GL 1/1:76:2,74:2:25:74:2050:-182.337,-20.5033,0 +NC_002945.4 165799 . G A 1394.34 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=48;CIGAR=1X;DP=51;DPB=51;DPRA=0;EPP=5.9056;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQ=60;MQMR=0;NS=1;NUMALT=1;ODDS=71.1473;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1583;QR=0;RO=0;RPL=25;RPP=3.19126;RPPR=0;RPR=23;RUN=1;SAF=25;SAP=3.19126;SAR=23;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.ILLUMINA=1 GT:DP:AD:RO:QR:AO:QA:GL 1/1:51:0,48:0:0:48:1583:-142.577,-14.4494,0 +NC_002945.4 166696 . A G 1822.75 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=67;CIGAR=1X;DP=67;DPB=67;DPRA=0;EPP=3.30199;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQ=60;MQMR=0;NS=1;NUMALT=1;ODDS=97.4869;PAIRED=0.985075;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2076;QR=0;RO=0;RPL=34;RPP=3.04271;RPPR=0;RPR=33;RUN=1;SAF=22;SAP=20.1552;SAR=45;SRF=0;SRP=0;SRR=0;TYPE=snp;technology.ILLUMINA=1 GT:DP:AD:RO:QR:AO:QA:GL 1/1:67:0,67:0:0:67:2076:-187.068,-20.169,0 +NC_002945.4 179885 . G A 1895.35 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=77;CIGAR=1X;DP=82;DPB=82;DPRA=0;EPP=3.0385;EPPR=13.8677;GTI=0;LEN=1;MEANALT=1;MQ=60;MQMR=60;NS=1;NUMALT=1;ODDS=98.8465;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2153;QR=60;RO=5;RPL=34;RPP=5.29458;RPPR=13.8677;RPR=43;RUN=1;SAF=41;SAP=3.71532;SAR=36;SRF=5;SRP=13.8677;SRR=0;TYPE=snp;technology.ILLUMINA=1 GT:DP:AD:RO:QR:AO:QA:GL 1/1:82:5,77:5:60:77:2153:-188.447,-19.1645,0 +NC_002945.4 189083 . A G 1178.55 . 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