diff test-data/02_5877_MEX_TX_Fed.vcf @ 8:e54b96acea98 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/vsnp commit 95b221f68d19702681babd765c67caeeb24e7f1d"
author iuc
date Tue, 16 Nov 2021 08:29:11 +0000
parents
children
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/02_5877_MEX_TX_Fed.vcf	Tue Nov 16 08:29:11 2021 +0000
@@ -0,0 +1,4776 @@
+##fileformat=VCFv4.2
+##FILTER=<ID=LowQual,Description="Low quality">
+##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="Approximate read depth (reads with MQ=255 or with bad mates are filtered)">
+##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality">
+##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
+##FORMAT=<ID=PL,Number=G,Type=Integer,Description="Normalized, Phred-scaled likelihoods for genotypes as defined in the VCF specification">
+##GATKCommandLine.HaplotypeCaller=<ID=HaplotypeCaller,Version=3.8-0-ge9d806836,Date="Mon Dec 25 07:02:10 CST 2017",Epoch=1514206930563,CommandLineOptions="analysis_type=HaplotypeCaller input_file=[/scratch/analysis_staging/a_script/bovis_reanalysis_af2122_2017-12-14/2001-2008/02-5877/02-5877-quality.bam] showFullBamList=false read_buffer_size=null read_filter=[] disable_read_filter=[] intervals=null excludeIntervals=null interval_set_rule=UNION interval_merging=ALL interval_padding=0 reference_sequence=/scratch/analysis_staging/a_script/bovis_reanalysis_af2122_2017-12-14/2001-2008/02-5877/NC_002945v4.fasta nonDeterministicRandomSeed=false disableDithering=false maxRuntime=-1 maxRuntimeUnits=MINUTES downsampling_type=BY_SAMPLE downsample_to_fraction=null downsample_to_coverage=500 baq=OFF baqGapOpenPenalty=40.0 refactor_NDN_cigar_string=false fix_misencoded_quality_scores=false allow_potentially_misencoded_quality_scores=false useOriginalQualities=false defaultBaseQualities=-1 performanceLog=null BQSR=null quantize_quals=0 static_quantized_quals=null round_down_quantized=false disable_indel_quals=false emit_original_quals=false preserve_qscores_less_than=6 globalQScorePrior=-1.0 secondsBetweenProgressUpdates=10 validation_strictness=SILENT remove_program_records=false keep_program_records=false sample_rename_mapping_file=null unsafe=null use_jdk_deflater=false use_jdk_inflater=false disable_auto_index_creation_and_locking_when_reading_rods=false no_cmdline_in_header=false sites_only=false never_trim_vcf_format_field=false bcf=false bam_compression=null simplifyBAM=false disable_bam_indexing=false generate_md5=false num_threads=1 num_cpu_threads_per_data_thread=1 num_io_threads=0 monitorThreadEfficiency=false num_bam_file_handles=null read_group_black_list=null pedigree=[] pedigreeString=[] pedigreeValidationType=STRICT allow_intervals_with_unindexed_bam=false generateShadowBCF=false variant_index_type=DYNAMIC_SEEK variant_index_parameter=-1 reference_window_stop=0 phone_home= gatk_key=null tag=NA logging_level=INFO log_to_file=null help=false version=false out=/scratch/analysis_staging/a_script/bovis_reanalysis_af2122_2017-12-14/2001-2008/02-5877/02-5877-hapall.vcf likelihoodCalculationEngine=PairHMM heterogeneousKmerSizeResolution=COMBO_MIN dbsnp=(RodBinding name= source=UNBOUND) dontTrimActiveRegions=false maxDiscARExtension=25 maxGGAARExtension=300 paddingAroundIndels=150 paddingAroundSNPs=20 comp=[] annotation=[] excludeAnnotation=[] group=[StandardAnnotation, StandardHCAnnotation] debug=false useFilteredReadsForAnnotations=false emitRefConfidence=NONE bamWriterType=CALLED_HAPLOTYPES emitDroppedReads=false disableOptimizations=false annotateNDA=false useNewAFCalculator=false heterozygosity=0.001 indel_heterozygosity=1.25E-4 heterozygosity_stdev=0.01 standard_min_confidence_threshold_for_calling=10.0 standard_min_confidence_threshold_for_emitting=30.0 max_alternate_alleles=6 max_genotype_count=1024 max_num_PL_values=100 input_prior=[] sample_ploidy=2 genotyping_mode=DISCOVERY alleles=(RodBinding name= source=UNBOUND) contamination_fraction_to_filter=0.0 contamination_fraction_per_sample_file=null p_nonref_model=null exactcallslog=null output_mode=EMIT_VARIANTS_ONLY allSitePLs=false gcpHMM=10 pair_hmm_implementation=FASTEST_AVAILABLE phredScaledGlobalReadMismappingRate=45 noFpga=false nativePairHmmThreads=1 useDoublePrecision=false sample_name=null kmerSize=[10, 25] dontIncreaseKmerSizesForCycles=false allowNonUniqueKmersInRef=true numPruningSamples=1 recoverDanglingHeads=false doNotRecoverDanglingBranches=false minDanglingBranchLength=4 consensus=false maxNumHaplotypesInPopulation=128 errorCorrectKmers=false minPruning=2 debugGraphTransformations=false allowCyclesInKmerGraphToGeneratePaths=false graphOutput=null kmerLengthForReadErrorCorrection=25 minObservationsForKmerToBeSolid=20 GVCFGQBands=[1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 70, 80, 90, 99] indelSizeToEliminateInRefModel=10 min_base_quality_score=10 includeUmappedReads=false useAllelesTrigger=false doNotRunPhysicalPhasing=true keepRG=null justDetermineActiveRegions=false dontGenotype=false dontUseSoftClippedBases=true captureAssemblyFailureBAM=false errorCorrectReads=false pcr_indel_model=CONSERVATIVE maxReadsInRegionPerSample=10000 minReadsPerAlignmentStart=10 mergeVariantsViaLD=false activityProfileOut=null activeRegionOut=null activeRegionIn=null activeRegionExtension=null forceActive=false activeRegionMaxSize=null bandPassSigma=null maxReadsInMemoryPerSample=30000 maxTotalReadsInMemory=10000000 maxProbPropagationDistance=50 activeProbabilityThreshold=0.002 min_mapping_quality_score=20 filter_reads_with_N_cigar=false filter_mismatching_base_and_quals=false filter_bases_not_stored=false">
+##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=BaseQRankSum,Number=1,Type=Float,Description="Z-score from Wilcoxon rank sum test of Alt Vs. Ref base qualities">
+##INFO=<ID=ClippingRankSum,Number=1,Type=Float,Description="Z-score From Wilcoxon rank sum test of Alt vs. Ref number of hard clipped bases">
+##INFO=<ID=DP,Number=1,Type=Integer,Description="Approximate read depth; some reads may have been filtered">
+##INFO=<ID=DS,Number=0,Type=Flag,Description="Were any of the samples downsampled?">
+##INFO=<ID=ExcessHet,Number=1,Type=Float,Description="Phred-scaled p-value for exact test of excess heterozygosity">
+##INFO=<ID=FS,Number=1,Type=Float,Description="Phred-scaled p-value using Fisher's exact test to detect strand bias">
+##INFO=<ID=HaplotypeScore,Number=1,Type=Float,Description="Consistency of the site with at most two segregating haplotypes">
+##INFO=<ID=InbreedingCoeff,Number=1,Type=Float,Description="Inbreeding coefficient as estimated from the genotype likelihoods per-sample when compared against the Hardy-Weinberg expectation">
+##INFO=<ID=MLEAC,Number=A,Type=Integer,Description="Maximum likelihood expectation (MLE) for the allele counts (not necessarily the same as the AC), for each ALT allele, in the same order as listed">
+##INFO=<ID=MLEAF,Number=A,Type=Float,Description="Maximum likelihood expectation (MLE) for the allele frequency (not necessarily the same as the AF), for each ALT allele, in the same order as listed">
+##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=QD,Number=1,Type=Float,Description="Variant Confidence/Quality by Depth">
+##INFO=<ID=ReadPosRankSum,Number=1,Type=Float,Description="Z-score from Wilcoxon rank sum test of Alt vs. Ref read position bias">
+##INFO=<ID=SOR,Number=1,Type=Float,Description="Symmetric Odds Ratio of 2x2 contingency table to detect strand bias">
+##contig=<ID=NC_002945.4,length=4349904>
+##reference=file:///scratch/analysis_staging/a_script/bovis_reanalysis_af2122_2017-12-14/2001-2008/02-5877/NC_002945v4.fasta
+#CHROM	POS	ID	REF	ALT	QUAL	FILTER	INFO	FORMAT	02-5877
+NC_002945.4	1057	.	A	G	9550.77	.	AC=2;AF=1.00;AN=2;DP=314;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=30.51;SOR=0.793	GT:AD:DP:GQ:PL	1/1:0,313:313:99:9579,932,0
+NC_002945.4	8741	.	T	C	6602.77	.	AC=2;AF=1.00;AN=2;DP=205;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=32.21;SOR=0.894	GT:AD:DP:GQ:PL	1/1:0,205:205:99:6631,612,0
+NC_002945.4	33788	.	A	G	5351.77	.	AC=2;AF=1.00;AN=2;DP=128;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=34.24;SOR=5.203	GT:AD:DP:GQ:PL	1/1:0,128:128:99:5380,384,0
+NC_002945.4	41437	.	T	C	3949.77	.	AC=2;AF=1.00;AN=2;DP=120;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=32.91;SOR=1.078	GT:AD:DP:GQ:PL	1/1:0,120:120:99:3978,359,0
+NC_002945.4	67098	.	G	A	7682.77	.	AC=2;AF=1.00;AN=2;DP=239;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=32.15;SOR=1.095	GT:AD:DP:GQ:PL	1/1:0,239:239:99:7711,717,0
+NC_002945.4	69913	.	T	C	9898.77	.	AC=2;AF=1.00;AN=2;BaseQRankSum=-0.899;ClippingRankSum=0.000;DP=307;ExcessHet=3.0103;FS=3.379;MLEAC=2;MLEAF=1.00;MQ=60.00;MQRankSum=0.000;QD=32.24;ReadPosRankSum=-0.587;SOR=0.502	GT:AD:DP:GQ:PL	1/1:1,306:307:99:9927,877,0
+NC_002945.4	103928	.	G	C	3252.77	.	AC=2;AF=1.00;AN=2;DP=76;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=53.51;QD=30.63;SOR=2.334	GT:AD:DP:GQ:PL	1/1:0,75:75:99:3281,226,0
+NC_002945.4	103931	.	G	C	3261.77	.	AC=2;AF=1.00;AN=2;DP=77;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=53.21;QD=29.09;SOR=2.365	GT:AD:DP:GQ:PL	1/1:0,76:76:99:3290,228,0
+NC_002945.4	104264	.	A	G	182.90	.	AC=2;AF=1.00;AN=2;DP=5;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=37.76;QD=32.93;SOR=3.611	GT:AD:DP:GQ:PL	1/1:0,5:5:15:211,15,0
+NC_002945.4	119328	.	G	T	8863.77	.	AC=2;AF=1.00;AN=2;DP=279;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=31.77;SOR=0.715	GT:AD:DP:GQ:PL	1/1:0,279:279:99:8892,834,0
+NC_002945.4	127447	.	G	C	7408.77	.	AC=2;AF=1.00;AN=2;DP=229;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=32.64;SOR=0.980	GT:AD:DP:GQ:PL	1/1:0,227:227:99:7437,679,0
+NC_002945.4	130237	.	T	C	9361.77	.	AC=2;AF=1.00;AN=2;DP=283;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=33.08;SOR=1.220	GT:AD:DP:GQ:PL	1/1:0,283:283:99:9390,847,0
+NC_002945.4	152355	.	G	T	5940.77	.	AC=2;AF=1.00;AN=2;BaseQRankSum=1.913;ClippingRankSum=0.000;DP=218;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQRankSum=0.000;QD=27.25;ReadPosRankSum=-0.430;SOR=0.238	GT:AD:DP:GQ:PL	1/1:1,217:218:99:5969,634,0
+NC_002945.4	159370	.	A	G	6878.77	.	AC=2;AF=1.00;AN=2;DP=210;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=32.76;SOR=0.772	GT:AD:DP:GQ:PL	1/1:0,210:210:99:6907,630,0
+NC_002945.4	160535	.	T	C	8614.77	.	AC=2;AF=1.00;AN=2;DP=283;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=30.44;SOR=0.918	GT:AD:DP:GQ:PL	1/1:0,283:283:99:8643,842,0
+NC_002945.4	165799	.	G	A	6660.77	.	AC=2;AF=1.00;AN=2;DP=217;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=30.69;SOR=1.042	GT:AD:DP:GQ:PL	1/1:0,217:217:99:6689,648,0
+NC_002945.4	166696	.	A	G	5785.77	.	AC=2;AF=1.00;AN=2;DP=181;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=31.97;SOR=1.005	GT:AD:DP:GQ:PL	1/1:0,181:181:99:5814,541,0
+NC_002945.4	180444	.	T	C	8717.77	.	AC=2;AF=1.00;AN=2;BaseQRankSum=1.738;ClippingRankSum=0.000;DP=293;ExcessHet=3.0103;FS=3.957;MLEAC=2;MLEAF=1.00;MQ=60.00;MQRankSum=0.000;QD=29.96;ReadPosRankSum=2.313;SOR=0.911	GT:AD:DP:GQ:PL	1/1:1,290:291:99:8746,855,0
+NC_002945.4	232188	.	G	C	4226.77	.	AC=2;AF=1.00;AN=2;DP=149;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=28.37;SOR=1.194	GT:AD:DP:GQ:PL	1/1:0,149:149:99:4255,441,0
+NC_002945.4	246207	.	C	T	6840.77	.	AC=2;AF=1.00;AN=2;DP=219;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=31.24;SOR=0.946	GT:AD:DP:GQ:PL	1/1:0,219:219:99:6869,655,0
+NC_002945.4	294329	.	G	A	8025.77	.	AC=2;AF=1.00;AN=2;DP=260;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=30.99;SOR=1.665	GT:AD:DP:GQ:PL	1/1:0,259:259:99:8054,772,0
+NC_002945.4	295519	.	T	C	7467.77	.	AC=2;AF=1.00;AN=2;BaseQRankSum=-0.437;ClippingRankSum=0.000;DP=235;ExcessHet=3.0103;FS=3.066;MLEAC=2;MLEAF=1.00;MQ=60.00;MQRankSum=0.000;QD=31.78;ReadPosRankSum=1.967;SOR=0.278	GT:AD:DP:GQ:PL	1/1:1,234:235:99:7496,664,0
+NC_002945.4	306695	.	N	.	.	.	.	GT	./.
+NC_002945.4	306696	.	N	.	.	.	.	GT	./.
+NC_002945.4	306697	.	N	.	.	.	.	GT	./.
+NC_002945.4	306698	.	N	.	.	.	.	GT	./.
+NC_002945.4	306699	.	N	.	.	.	.	GT	./.
+NC_002945.4	306700	.	N	.	.	.	.	GT	./.
+NC_002945.4	306701	.	N	.	.	.	.	GT	./.
+NC_002945.4	306702	.	N	.	.	.	.	GT	./.
+NC_002945.4	306703	.	N	.	.	.	.	GT	./.
+NC_002945.4	306704	.	N	.	.	.	.	GT	./.
+NC_002945.4	306705	.	N	.	.	.	.	GT	./.
+NC_002945.4	306706	.	N	.	.	.	.	GT	./.
+NC_002945.4	306707	.	N	.	.	.	.	GT	./.
+NC_002945.4	306708	.	N	.	.	.	.	GT	./.
+NC_002945.4	306709	.	N	.	.	.	.	GT	./.
+NC_002945.4	306710	.	N	.	.	.	.	GT	./.
+NC_002945.4	324581	.	G	A	8444.77	.	AC=2;AF=1.00;AN=2;DP=276;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=30.60;SOR=0.783	GT:AD:DP:GQ:PL	1/1:0,276:276:99:8473,825,0
+NC_002945.4	327870	.	A	G	10500.77	.	AC=2;AF=1.00;AN=2;DP=339;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=30.98;SOR=0.878	GT:AD:DP:GQ:PL	1/1:0,339:339:99:10529,1015,0
+NC_002945.4	331311	.	T	C	9339.77	.	AC=2;AF=1.00;AN=2;DP=212;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.75;QD=30.83;SOR=0.761	GT:AD:DP:GQ:PL	1/1:0,211:211:99:9368,635,0
+NC_002945.4	331312	.	T	C	9339.77	.	AC=2;AF=1.00;AN=2;DP=212;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.75;QD=29.67;SOR=0.761	GT:AD:DP:GQ:PL	1/1:0,211:211:99:9368,635,0
+NC_002945.4	331333	.	C	T	9689.77	.	AC=2;AF=1.00;AN=2;DP=220;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.76;QD=34.04;SOR=0.778	GT:AD:DP:GQ:PL	1/1:0,219:219:99:9718,665,0
+NC_002945.4	331336	.	T	C	9689.77	.	AC=2;AF=1.00;AN=2;DP=219;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.76;QD=32.42;SOR=0.799	GT:AD:DP:GQ:PL	1/1:0,217:217:99:9718,665,0
+NC_002945.4	331363	.	G	A	9337.77	.	AC=2;AF=1.00;AN=2;DP=212;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.78;QD=37.76;SOR=0.751	GT:AD:DP:GQ:PL	1/1:0,210:210:99:9366,635,0
+NC_002945.4	331369	.	A	G	9291.77	.	AC=2;AF=1.00;AN=2;DP=211;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.78;QD=27.64;SOR=0.742	GT:AD:DP:GQ:PL	1/1:0,209:209:99:9320,632,0
+NC_002945.4	333331	.	N	.	.	.	.	GT	./.
+NC_002945.4	333332	.	N	.	.	.	.	GT	./.
+NC_002945.4	333333	.	N	.	.	.	.	GT	./.
+NC_002945.4	333334	.	N	.	.	.	.	GT	./.
+NC_002945.4	333335	.	N	.	.	.	.	GT	./.
+NC_002945.4	333336	.	N	.	.	.	.	GT	./.
+NC_002945.4	333337	.	N	.	.	.	.	GT	./.
+NC_002945.4	333338	.	N	.	.	.	.	GT	./.
+NC_002945.4	333339	.	N	.	.	.	.	GT	./.
+NC_002945.4	333340	.	N	.	.	.	.	GT	./.
+NC_002945.4	333341	.	N	.	.	.	.	GT	./.
+NC_002945.4	333342	.	N	.	.	.	.	GT	./.
+NC_002945.4	333343	.	N	.	.	.	.	GT	./.
+NC_002945.4	333344	.	N	.	.	.	.	GT	./.
+NC_002945.4	333345	.	N	.	.	.	.	GT	./.
+NC_002945.4	333346	.	N	.	.	.	.	GT	./.
+NC_002945.4	333347	.	N	.	.	.	.	GT	./.
+NC_002945.4	333348	.	N	.	.	.	.	GT	./.
+NC_002945.4	333349	.	N	.	.	.	.	GT	./.
+NC_002945.4	333350	.	N	.	.	.	.	GT	./.
+NC_002945.4	333351	.	N	.	.	.	.	GT	./.
+NC_002945.4	333352	.	N	.	.	.	.	GT	./.
+NC_002945.4	333353	.	N	.	.	.	.	GT	./.
+NC_002945.4	333354	.	N	.	.	.	.	GT	./.
+NC_002945.4	333355	.	N	.	.	.	.	GT	./.
+NC_002945.4	333356	.	N	.	.	.	.	GT	./.
+NC_002945.4	333357	.	N	.	.	.	.	GT	./.
+NC_002945.4	333358	.	N	.	.	.	.	GT	./.
+NC_002945.4	333359	.	N	.	.	.	.	GT	./.
+NC_002945.4	333360	.	N	.	.	.	.	GT	./.
+NC_002945.4	333361	.	N	.	.	.	.	GT	./.
+NC_002945.4	333362	.	N	.	.	.	.	GT	./.
+NC_002945.4	333363	.	N	.	.	.	.	GT	./.
+NC_002945.4	333364	.	N	.	.	.	.	GT	./.
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+NC_002945.4	970109	.	N	.	.	.	.	GT	./.
+NC_002945.4	970110	.	N	.	.	.	.	GT	./.
+NC_002945.4	970111	.	N	.	.	.	.	GT	./.
+NC_002945.4	970112	.	N	.	.	.	.	GT	./.
+NC_002945.4	970113	.	N	.	.	.	.	GT	./.
+NC_002945.4	970114	.	N	.	.	.	.	GT	./.
+NC_002945.4	970115	.	N	.	.	.	.	GT	./.
+NC_002945.4	970116	.	N	.	.	.	.	GT	./.
+NC_002945.4	970117	.	N	.	.	.	.	GT	./.
+NC_002945.4	970118	.	N	.	.	.	.	GT	./.
+NC_002945.4	970119	.	N	.	.	.	.	GT	./.
+NC_002945.4	970120	.	N	.	.	.	.	GT	./.
+NC_002945.4	970121	.	N	.	.	.	.	GT	./.
+NC_002945.4	970122	.	N	.	.	.	.	GT	./.
+NC_002945.4	970123	.	N	.	.	.	.	GT	./.
+NC_002945.4	970124	.	N	.	.	.	.	GT	./.
+NC_002945.4	970125	.	N	.	.	.	.	GT	./.
+NC_002945.4	970126	.	N	.	.	.	.	GT	./.
+NC_002945.4	970127	.	N	.	.	.	.	GT	./.
+NC_002945.4	970128	.	N	.	.	.	.	GT	./.
+NC_002945.4	970129	.	N	.	.	.	.	GT	./.
+NC_002945.4	970130	.	N	.	.	.	.	GT	./.
+NC_002945.4	970131	.	N	.	.	.	.	GT	./.
+NC_002945.4	970132	.	N	.	.	.	.	GT	./.
+NC_002945.4	970133	.	N	.	.	.	.	GT	./.
+NC_002945.4	970154	.	N	.	.	.	.	GT	./.
+NC_002945.4	970155	.	N	.	.	.	.	GT	./.
+NC_002945.4	970156	.	N	.	.	.	.	GT	./.
+NC_002945.4	970157	.	N	.	.	.	.	GT	./.
+NC_002945.4	970158	.	N	.	.	.	.	GT	./.
+NC_002945.4	970159	.	N	.	.	.	.	GT	./.
+NC_002945.4	970160	.	N	.	.	.	.	GT	./.
+NC_002945.4	970161	.	N	.	.	.	.	GT	./.
+NC_002945.4	970162	.	N	.	.	.	.	GT	./.
+NC_002945.4	970163	.	N	.	.	.	.	GT	./.
+NC_002945.4	970164	.	N	.	.	.	.	GT	./.
+NC_002945.4	970165	.	N	.	.	.	.	GT	./.
+NC_002945.4	970166	.	N	.	.	.	.	GT	./.
+NC_002945.4	970167	.	N	.	.	.	.	GT	./.
+NC_002945.4	976327	.	C	T	5094.77	.	AC=2;AF=1.00;AN=2;DP=170;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=30.33;SOR=1.770	GT:AD:DP:GQ:PL	1/1:0,168:168:99:5123,495,0
+NC_002945.4	982007	.	G	C	5740.77	.	AC=2;AF=1.00;AN=2;BaseQRankSum=-0.690;ClippingRankSum=0.000;DP=197;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQRankSum=0.000;QD=29.14;ReadPosRankSum=-0.449;SOR=0.231	GT:AD:DP:GQ:PL	1/1:1,196:197:99:5769,550,0
+NC_002945.4	998183	.	C	G	9423.77	.	AC=2;AF=1.00;AN=2;BaseQRankSum=1.858;ClippingRankSum=0.000;DP=301;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQRankSum=0.000;QD=31.31;ReadPosRankSum=-0.474;SOR=0.276	GT:AD:DP:GQ:PL	1/1:1,300:301:99:9452,886,0
+NC_002945.4	1022365	.	T	C	8450.77	.	AC=2;AF=1.00;AN=2;DP=285;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=29.65;SOR=0.773	GT:AD:DP:GQ:PL	1/1:0,285:285:99:8479,849,0
+NC_002945.4	1053067	.	T	G	9727.77	.	AC=2;AF=1.00;AN=2;DP=319;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=30.49;SOR=0.967	GT:AD:DP:GQ:PL	1/1:0,319:319:99:9756,947,0
+NC_002945.4	1096802	.	T	G	4506.77	.	AC=2;AF=1.00;AN=2;DP=149;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=58.48;QD=30.45;SOR=1.470	GT:AD:DP:GQ:PL	1/1:0,148:148:99:4535,441,0
+NC_002945.4	1104019	.	T	C	10285.77	.	AC=2;AF=1.00;AN=2;DP=338;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=30.43;SOR=0.831	GT:AD:DP:GQ:PL	1/1:0,338:338:99:10314,1006,0
+NC_002945.4	1124266	.	G	A	8464.77	.	AC=2;AF=1.00;AN=2;DP=273;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=31.01;SOR=0.745	GT:AD:DP:GQ:PL	1/1:0,273:273:99:8493,815,0
+NC_002945.4	1137800	.	G	C	6583.77	.	AC=2;AF=1.00;AN=2;DP=196;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=33.59;SOR=0.734	GT:AD:DP:GQ:PL	1/1:0,196:196:99:6612,587,0
+NC_002945.4	1139489	.	T	C	7148.77	.	AC=2;AF=1.00;AN=2;DP=214;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=33.41;SOR=0.896	GT:AD:DP:GQ:PL	1/1:0,214:214:99:7177,641,0
+NC_002945.4	1139963	.	G	A	6477.77	.	AC=2;AF=1.00;AN=2;BaseQRankSum=0.006;ClippingRankSum=0.000;DP=223;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQRankSum=0.000;QD=29.05;ReadPosRankSum=-0.831;SOR=0.720	GT:AD:DP:GQ:PL	1/1:2,221:223:99:6506,612,0
+NC_002945.4	1141124	.	C	T	4355.77	.	AC=2;AF=1.00;AN=2;DP=144;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=30.25;SOR=0.840	GT:AD:DP:GQ:PL	1/1:0,144:144:99:4384,430,0
+NC_002945.4	1144616	.	G	A	6051.77	.	AC=2;AF=1.00;AN=2;DP=193;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=31.36;SOR=0.790	GT:AD:DP:GQ:PL	1/1:0,193:193:99:6080,578,0
+NC_002945.4	1168458	.	G	T	5965.77	.	AC=2;AF=1.00;AN=2;BaseQRankSum=1.837;ClippingRankSum=0.000;DP=201;ExcessHet=3.0103;FS=3.076;MLEAC=2;MLEAF=1.00;MQ=60.00;MQRankSum=0.000;QD=29.68;ReadPosRankSum=-0.549;SOR=0.287	GT:AD:DP:GQ:PL	1/1:1,200:201:99:5994,586,0
+NC_002945.4	1182886	.	T	C	5607.77	.	AC=2;AF=1.00;AN=2;DP=174;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=32.23;SOR=0.788	GT:AD:DP:GQ:PL	1/1:0,174:174:99:5636,518,0
+NC_002945.4	1184193	.	G	A	4110.77	.	AC=2;AF=1.00;AN=2;BaseQRankSum=-0.490;ClippingRankSum=0.000;DP=158;ExcessHet=3.0103;FS=3.508;MLEAC=2;MLEAF=1.00;MQ=60.00;MQRankSum=0.000;QD=26.18;ReadPosRankSum=2.523;SOR=0.605	GT:AD:DP:GQ:PL	1/1:1,156:157:99:4139,426,0
+NC_002945.4	1190101	.	G	A	351.77	.	AC=2;AF=1.00;AN=2;DP=13;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=27.06;SOR=2.147	GT:AD:DP:GQ:PL	1/1:0,13:13:38:380,38,0
+NC_002945.4	1190261	.	T	A	466.77	.	AC=2;AF=1.00;AN=2;DP=15;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=56.57;QD=33.34;SOR=2.985	GT:AD:DP:GQ:PL	1/1:0,14:14:42:495,42,0
+NC_002945.4	1191323	.	C	T	3455.77	.	AC=2;AF=1.00;AN=2;BaseQRankSum=1.752;ClippingRankSum=0.000;DP=100;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQRankSum=0.000;QD=34.56;ReadPosRankSum=-0.532;SOR=1.532	GT:AD:DP:GQ:PL	1/1:1,99:100:99:3484,288,0
+NC_002945.4	1206896	.	A	G	7237.77	.	AC=2;AF=1.00;AN=2;DP=231;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=31.33;SOR=0.911	GT:AD:DP:GQ:PL	1/1:0,231:231:99:7266,689,0
+NC_002945.4	1214031	.	G	A	16.86	.	AC=1;AF=0.500;AN=2;BaseQRankSum=-0.451;ClippingRankSum=0.000;DP=14;ExcessHet=3.0103;FS=2.963;MLEAC=1;MLEAF=0.500;MQ=60.00;MQRankSum=0.000;QD=1.20;ReadPosRankSum=-0.654;SOR=0.148	GT:AD:DP:GQ:PL	0/1:12,2:14:45:45,0,875
+NC_002945.4	1214540	.	T	C	815.77	.	AC=2;AF=1.00;AN=2;DP=29;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=28.13;SOR=1.255	GT:AD:DP:GQ:PL	1/1:0,29:29:85:844,85,0
+NC_002945.4	1214767	.	C	T	89.77	.	AC=1;AF=0.500;AN=2;BaseQRankSum=-1.858;ClippingRankSum=0.000;DP=57;ExcessHet=3.0103;FS=16.442;MLEAC=1;MLEAF=0.500;MQ=59.71;MQRankSum=0.754;QD=1.60;ReadPosRankSum=-6.933;SOR=1.893	GT:AD:DP:GQ:PL	0/1:37,19:56:99:118,0,630
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+NC_002945.4	1218405	.	N	.	.	.	.	GT	./.
+NC_002945.4	1218406	.	N	.	.	.	.	GT	./.
+NC_002945.4	1218407	.	N	.	.	.	.	GT	./.
+NC_002945.4	1218408	.	N	.	.	.	.	GT	./.
+NC_002945.4	1218409	.	N	.	.	.	.	GT	./.
+NC_002945.4	1218410	.	N	.	.	.	.	GT	./.
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+NC_002945.4	1218412	.	N	.	.	.	.	GT	./.
+NC_002945.4	1218413	.	N	.	.	.	.	GT	./.
+NC_002945.4	1218414	.	N	.	.	.	.	GT	./.
+NC_002945.4	1218415	.	N	.	.	.	.	GT	./.
+NC_002945.4	1218416	.	N	.	.	.	.	GT	./.
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+NC_002945.4	1272542	.	A	G	6712.77	.	AC=2;AF=1.00;AN=2;DP=206;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=32.59;SOR=0.859	GT:AD:DP:GQ:PL	1/1:0,206:206:99:6741,615,0
+NC_002945.4	1278083	.	T	G	7183.77	.	AC=2;AF=1.00;AN=2;BaseQRankSum=1.148;ClippingRankSum=0.000;DP=219;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=53.74;MQRankSum=-0.117;QD=32.80;ReadPosRankSum=-0.542;SOR=1.091	GT:AD:DP:GQ:PL	1/1:2,217:219:99:7212,604,0
+NC_002945.4	1278084	.	G	C	9920.77	.	AC=2;AF=1.00;AN=2;DP=218;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=53.90;QD=28.18;SOR=1.053	GT:AD:DP:GQ:PL	1/1:0,218:218:99:9949,671,0
+NC_002945.4	1278089	.	G	T	10014.77	.	AC=2;AF=1.00;AN=2;DP=223;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=54.25;QD=28.32;SOR=1.055	GT:AD:DP:GQ:PL	1/1:0,223:223:99:10043,680,0
+NC_002945.4	1285158	.	C	T	4889.77	.	AC=2;AF=1.00;AN=2;DP=151;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=32.38;SOR=0.974	GT:AD:DP:GQ:PL	1/1:0,151:151:99:4918,451,0
+NC_002945.4	1295549	.	C	T	9783.77	.	AC=2;AF=1.00;AN=2;DP=331;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=29.56;SOR=0.787	GT:AD:DP:GQ:PL	1/1:0,331:331:99:9812,987,0
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+NC_002945.4	1326143	.	G	A	6866.77	.	AC=2;AF=1.00;AN=2;BaseQRankSum=-0.432;ClippingRankSum=0.000;DP=233;ExcessHet=3.0103;FS=3.299;MLEAC=2;MLEAF=1.00;MQ=60.00;MQRankSum=0.000;QD=29.47;ReadPosRankSum=2.289;SOR=0.448	GT:AD:DP:GQ:PL	1/1:1,232:233:99:6895,661,0
+NC_002945.4	1341413	.	A	C	5904.77	.	AC=2;AF=1.00;AN=2;DP=134;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=53.88;QD=35.03;SOR=0.994	GT:AD:DP:GQ:PL	1/1:0,134:134:99:5933,403,0
+NC_002945.4	1341414	.	G	A	5904.77	.	AC=2;AF=1.00;AN=2;DP=133;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=53.84;QD=25.82;SOR=1.016	GT:AD:DP:GQ:PL	1/1:0,133:133:99:5933,403,0
+NC_002945.4	1341506	.	T	C	5731.77	.	AC=2;AF=1.00;AN=2;DP=132;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=58.39;QD=32.17;SOR=0.755	GT:AD:DP:GQ:PL	1/1:0,132:132:99:5760,397,0
+NC_002945.4	1341507	.	C	A	5731.77	.	AC=2;AF=1.00;AN=2;DP=132;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=58.39;QD=32.77;SOR=0.755	GT:AD:DP:GQ:PL	1/1:0,132:132:99:5760,397,0
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+NC_002945.4	1417803	.	N	.	.	.	.	GT	./.
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+NC_002945.4	1417805	.	N	.	.	.	.	GT	./.
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+NC_002945.4	1417808	.	N	.	.	.	.	GT	./.
+NC_002945.4	1417809	.	N	.	.	.	.	GT	./.
+NC_002945.4	1417810	.	N	.	.	.	.	GT	./.
+NC_002945.4	1417811	.	N	.	.	.	.	GT	./.
+NC_002945.4	1421904	.	T	C	7669.77	.	AC=2;AF=1.00;AN=2;DP=233;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=32.92;SOR=0.868	GT:AD:DP:GQ:PL	1/1:0,233:233:99:7698,696,0
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+NC_002945.4	1446436	.	G	A	6946.77	.	AC=2;AF=1.00;AN=2;DP=226;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=30.87;SOR=0.738	GT:AD:DP:GQ:PL	1/1:0,225:225:99:6975,672,0
+NC_002945.4	1470606	.	C	T	5956.77	.	AC=2;AF=1.00;AN=2;BaseQRankSum=1.115;ClippingRankSum=0.000;DP=215;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.49;MQRankSum=-0.375;QD=27.71;ReadPosRankSum=-0.174;SOR=0.780	GT:AD:DP:GQ:PL	1/1:2,213:215:99:5985,573,0
+NC_002945.4	1477794	.	T	C	10519.77	.	AC=2;AF=1.00;AN=2;DP=338;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=31.22;SOR=0.852	GT:AD:DP:GQ:PL	1/1:0,337:337:99:10548,1006,0
+NC_002945.4	1491887	.	N	.	.	.	.	GT	./.
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+NC_002945.4	1529147	.	T	G	7666.77	.	AC=2;AF=1.00;AN=2;BaseQRankSum=1.706;ClippingRankSum=0.000;DP=252;ExcessHet=3.0103;FS=3.080;MLEAC=2;MLEAF=1.00;MQ=60.00;MQRankSum=0.000;QD=30.42;ReadPosRankSum=-0.669;SOR=0.287	GT:AD:DP:GQ:PL	1/1:1,251:252:99:7695,740,0
+NC_002945.4	1533175	.	A	G	9163.77	.	AC=2;AF=1.00;AN=2;DP=292;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=31.38;SOR=0.952	GT:AD:DP:GQ:PL	1/1:0,292:292:99:9192,873,0
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+NC_002945.4	1573872	.	N	.	.	.	.	GT	./.
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+NC_002945.4	1573972	.	N	.	.	.	.	GT	./.
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+NC_002945.4	1574004	.	N	.	.	.	.	GT	./.
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+NC_002945.4	1601835	.	G	A	7578.77	.	AC=2;AF=1.00;AN=2;DP=256;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=29.60;SOR=0.879	GT:AD:DP:GQ:PL	1/1:0,256:256:99:7607,762,0
+NC_002945.4	1610248	.	C	G	6653.77	.	AC=2;AF=1.00;AN=2;DP=209;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=31.84;SOR=0.868	GT:AD:DP:GQ:PL	1/1:0,209:209:99:6682,625,0
+NC_002945.4	1619153	.	A	G	1950.77	.	AC=2;AF=1.00;AN=2;DP=56;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=27.93;SOR=1.262	GT:AD:DP:GQ:PL	1/1:0,55:55:99:1979,164,0
+NC_002945.4	1632869	.	G	T	1991.77	.	AC=2;AF=1.00;AN=2;DP=73;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.95;QD=27.66;SOR=1.148	GT:AD:DP:GQ:PL	1/1:0,72:72:99:2020,212,0
+NC_002945.4	1633335	.	N	.	.	.	.	GT	./.
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+NC_002945.4	1656339	.	G	A	6701.77	.	AC=2;AF=1.00;AN=2;DP=238;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=28.40;SOR=0.818	GT:AD:DP:GQ:PL	1/1:0,236:236:99:6730,697,0
+NC_002945.4	1677471	.	C	G	8913.77	.	AC=2;AF=1.00;AN=2;DP=281;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=31.72;SOR=0.972	GT:AD:DP:GQ:PL	1/1:0,281:281:99:8942,840,0
+NC_002945.4	1690441	.	G	A	5534.77	.	AC=2;AF=1.00;AN=2;DP=179;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=30.92;SOR=1.098	GT:AD:DP:GQ:PL	1/1:0,179:179:99:5563,533,0
+NC_002945.4	1710892	.	G	T	6488.77	.	AC=2;AF=1.00;AN=2;DP=222;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=29.23;SOR=0.910	GT:AD:DP:GQ:PL	1/1:0,222:222:99:6517,662,0
+NC_002945.4	1717086	.	T	C	5856.77	.	AC=2;AF=1.00;AN=2;DP=182;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=32.36;SOR=0.704	GT:AD:DP:GQ:PL	1/1:0,181:181:99:5885,540,0
+NC_002945.4	1721256	.	C	T	7001.77	.	AC=2;AF=1.00;AN=2;DP=226;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=31.12;SOR=0.834	GT:AD:DP:GQ:PL	1/1:0,225:225:99:7030,671,0
+NC_002945.4	1722022	.	C	A	7001.77	.	AC=2;AF=1.00;AN=2;DP=226;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=30.98;SOR=1.288	GT:AD:DP:GQ:PL	1/1:0,226:226:99:7030,674,0
+NC_002945.4	1753812	.	C	T	8264.77	.	AC=2;AF=1.00;AN=2;BaseQRankSum=1.873;ClippingRankSum=0.000;DP=273;ExcessHet=3.0103;FS=3.755;MLEAC=2;MLEAF=1.00;MQ=60.00;MQRankSum=0.000;QD=30.27;ReadPosRankSum=-0.565;SOR=0.771	GT:AD:DP:GQ:PL	1/1:1,272:273:99:8293,805,0
+NC_002945.4	1803035	.	C	T	4713.77	.	AC=2;AF=1.00;AN=2;DP=154;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=30.61;SOR=0.693	GT:AD:DP:GQ:PL	1/1:0,154:154:99:4742,460,0
+NC_002945.4	1833330	.	A	G	6721.77	.	AC=2;AF=1.00;AN=2;DP=219;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=30.83;SOR=0.959	GT:AD:DP:GQ:PL	1/1:0,218:218:99:6750,651,0
+NC_002945.4	1865339	.	T	G	74.77	.	AC=1;AF=0.500;AN=2;BaseQRankSum=-1.236;ClippingRankSum=0.000;DP=55;ExcessHet=3.0103;FS=105.009;MLEAC=1;MLEAF=0.500;MQ=60.00;MQRankSum=0.000;QD=1.36;ReadPosRankSum=-3.849;SOR=5.992	GT:AD:DP:GQ:PL	0/1:36,19:55:99:103,0,706
+NC_002945.4	1869352	.	N	.	.	.	.	GT	./.
+NC_002945.4	1869353	.	N	.	.	.	.	GT	./.
+NC_002945.4	1869354	.	N	.	.	.	.	GT	./.
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+NC_002945.4	1869356	.	N	.	.	.	.	GT	./.
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+NC_002945.4	1869358	.	N	.	.	.	.	GT	./.
+NC_002945.4	1869359	.	N	.	.	.	.	GT	./.
+NC_002945.4	1869360	.	N	.	.	.	.	GT	./.
+NC_002945.4	1869361	.	N	.	.	.	.	GT	./.
+NC_002945.4	1869362	.	N	.	.	.	.	GT	./.
+NC_002945.4	1869363	.	N	.	.	.	.	GT	./.
+NC_002945.4	1869364	.	N	.	.	.	.	GT	./.
+NC_002945.4	1869365	.	N	.	.	.	.	GT	./.
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+NC_002945.4	1880869	.	C	T	6327.77	.	AC=2;AF=1.00;AN=2;DP=219;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=28.89;SOR=0.880	GT:AD:DP:GQ:PL	1/1:0,219:219:99:6356,655,0
+NC_002945.4	1915122	.	C	T	3182.77	.	AC=2;AF=1.00;AN=2;DP=103;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=30.90;SOR=1.072	GT:AD:DP:GQ:PL	1/1:0,103:103:99:3211,307,0
+NC_002945.4	1915461	.	G	C	4512.77	.	AC=2;AF=1.00;AN=2;DP=144;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=31.34;SOR=1.593	GT:AD:DP:GQ:PL	1/1:0,144:144:99:4541,427,0
+NC_002945.4	1915936	.	A	G	7481.77	.	AC=2;AF=1.00;AN=2;DP=232;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=32.25;SOR=0.839	GT:AD:DP:GQ:PL	1/1:0,232:232:99:7510,694,0
+NC_002945.4	1920100	.	T	C	6520.77	.	AC=2;AF=1.00;AN=2;DP=204;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=31.96;SOR=1.081	GT:AD:DP:GQ:PL	1/1:0,204:204:99:6549,608,0
+NC_002945.4	1932972	.	A	G	4472.77	.	AC=2;AF=1.00;AN=2;DP=151;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=29.82;SOR=0.864	GT:AD:DP:GQ:PL	1/1:0,150:150:99:4501,446,0
+NC_002945.4	1957978	.	T	G	6175.77	.	AC=2;AF=1.00;AN=2;DP=198;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=31.19;SOR=0.798	GT:AD:DP:GQ:PL	1/1:0,198:198:99:6204,592,0
+NC_002945.4	1958977	.	A	T	6046.77	.	AC=2;AF=1.00;AN=2;DP=186;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=32.69;SOR=1.402	GT:AD:DP:GQ:PL	1/1:0,185:185:99:6075,548,0
+NC_002945.4	1961656	.	G	A	6173.77	.	AC=2;AF=1.00;AN=2;BaseQRankSum=1.823;ClippingRankSum=0.000;DP=211;ExcessHet=3.0103;FS=3.031;MLEAC=2;MLEAF=1.00;MQ=60.00;MQRankSum=0.000;QD=29.26;ReadPosRankSum=-0.581;SOR=0.253	GT:AD:DP:GQ:PL	1/1:1,210:211:99:6202,619,0
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+NC_002945.4	1986921	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986922	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986923	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986924	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986925	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986926	.	N	.	.	.	.	GT	./.
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+NC_002945.4	1986928	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986929	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986930	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986931	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986932	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986933	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986934	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986935	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986936	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986937	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986938	.	N	.	.	.	.	GT	./.
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+NC_002945.4	1986940	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986941	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986942	.	N	.	.	.	.	GT	./.
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+NC_002945.4	1986945	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986946	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986947	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986948	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986949	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986950	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986951	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986952	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986953	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986954	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986955	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986956	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986957	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986958	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986959	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986960	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986961	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986962	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986963	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986964	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986965	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986966	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986967	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986968	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986969	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986970	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986971	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986972	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986973	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986974	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986975	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986976	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986977	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986978	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986979	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986980	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986981	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986982	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986983	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986984	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986985	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986986	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986987	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986988	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986989	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986990	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986991	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986992	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986993	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986994	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986995	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986996	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986997	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986998	.	N	.	.	.	.	GT	./.
+NC_002945.4	1986999	.	N	.	.	.	.	GT	./.
+NC_002945.4	1987000	.	N	.	.	.	.	GT	./.
+NC_002945.4	1987001	.	N	.	.	.	.	GT	./.
+NC_002945.4	1987002	.	N	.	.	.	.	GT	./.
+NC_002945.4	1987003	.	N	.	.	.	.	GT	./.
+NC_002945.4	1993034	.	N	.	.	.	.	GT	./.
+NC_002945.4	1996036	.	G	A	326.78	.	AC=2;AF=1.00;AN=2;DP=9;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=26.83;SOR=4.615	GT:AD:DP:GQ:PL	1/1:0,9:9:27:355,27,0
+NC_002945.4	2002061	.	A	G	4635.77	.	AC=2;AF=1.00;AN=2;BaseQRankSum=-0.163;ClippingRankSum=0.000;DP=171;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQRankSum=0.000;QD=27.11;ReadPosRankSum=0.701;SOR=0.382	GT:AD:DP:GQ:PL	1/1:3,168:171:99:4664,433,0
+NC_002945.4	2007303	.	C	G	7899.77	.	AC=2;AF=1.00;AN=2;DP=246;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=32.11;SOR=1.049	GT:AD:DP:GQ:PL	1/1:0,246:246:99:7928,734,0
+NC_002945.4	2008404	.	C	T	4159.77	.	AC=2;AF=1.00;AN=2;DP=127;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=33.28;SOR=1.934	GT:AD:DP:GQ:PL	1/1:0,125:125:99:4188,372,0
+NC_002945.4	2024890	.	T	C	7496.73	.	AC=2;AF=1.00;AN=2;DP=240;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=31.50;SOR=0.955	GT:AD:DP:GQ:PL	1/1:0,238:238:99:7534,709,0
+NC_002945.4	2027869	.	G	A	5097.77	.	AC=2;AF=1.00;AN=2;DP=160;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=31.86;SOR=0.744	GT:AD:DP:GQ:PL	1/1:0,160:160:99:5126,478,0
+NC_002945.4	2034234	.	T	C	4902.77	.	AC=2;AF=1.00;AN=2;DP=167;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=29.36;SOR=0.832	GT:AD:DP:GQ:PL	1/1:0,167:167:99:4931,500,0
+NC_002945.4	2039619	.	A	G	6316.77	.	AC=2;AF=1.00;AN=2;DP=204;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=30.96;SOR=1.029	GT:AD:DP:GQ:PL	1/1:0,204:204:99:6345,609,0
+NC_002945.4	2046882	.	C	T	6264.77	.	AC=2;AF=1.00;AN=2;BaseQRankSum=0.667;ClippingRankSum=0.000;DP=214;ExcessHet=3.0103;FS=3.573;MLEAC=2;MLEAF=1.00;MQ=60.00;MQRankSum=0.000;QD=29.27;ReadPosRankSum=1.646;SOR=0.646	GT:AD:DP:GQ:PL	1/1:1,213:214:99:6293,613,0
+NC_002945.4	2049171	.	A	G	6167.77	.	AC=2;AF=1.00;AN=2;DP=163;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=30.42;SOR=0.981	GT:AD:DP:GQ:PL	1/1:0,163:163:99:6196,489,0
+NC_002945.4	2050664	.	C	T	8179.77	.	AC=2;AF=1.00;AN=2;DP=256;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=32.08;SOR=0.701	GT:AD:DP:GQ:PL	1/1:0,255:255:99:8208,764,0
+NC_002945.4	2056922	.	N	.	.	.	.	GT	./.
+NC_002945.4	2057553	.	G	A	3620.77	.	AC=2;AF=1.00;AN=2;BaseQRankSum=1.716;ClippingRankSum=0.000;DP=132;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQRankSum=0.000;QD=27.85;ReadPosRankSum=-0.546;SOR=0.300	GT:AD:DP:GQ:PL	1/1:1,129:130:99:3649,372,0
+NC_002945.4	2059249	.	G	A	8270.77	.	AC=2;AF=1.00;AN=2;DP=274;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=30.19;SOR=0.768	GT:AD:DP:GQ:PL	1/1:0,274:274:99:8299,819,0
+NC_002945.4	2059920	.	A	G	6969.77	.	AC=2;AF=1.00;AN=2;DP=231;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=30.30;SOR=0.728	GT:AD:DP:GQ:PL	1/1:0,230:230:99:6998,688,0
+NC_002945.4	2075405	.	C	T	5955.77	.	AC=2;AF=1.00;AN=2;DP=192;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=31.18;SOR=0.861	GT:AD:DP:GQ:PL	1/1:0,191:191:99:5984,571,0
+NC_002945.4	2087039	.	A	C	7578.77	.	AC=2;AF=1.00;AN=2;DP=229;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=33.24;SOR=0.803	GT:AD:DP:GQ:PL	1/1:0,228:228:99:7607,684,0
+NC_002945.4	2089475	.	C	T	7024.77	.	AC=2;AF=1.00;AN=2;DP=228;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=31.36;SOR=1.163	GT:AD:DP:GQ:PL	1/1:0,224:224:99:7053,666,0
+NC_002945.4	2099043	.	T	C	5887.77	.	AC=2;AF=1.00;AN=2;BaseQRankSum=-0.359;ClippingRankSum=0.000;DP=179;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQRankSum=0.000;QD=33.26;ReadPosRankSum=-0.407;SOR=0.386	GT:AD:DP:GQ:PL	1/1:1,176:177:99:5916,488,0
+NC_002945.4	2108042	.	G	A	5460.77	.	AC=2;AF=1.00;AN=2;DP=186;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=29.36;SOR=0.878	GT:AD:DP:GQ:PL	1/1:0,186:186:99:5489,551,0
+NC_002945.4	2108312	.	C	T	7807.77	.	AC=2;AF=1.00;AN=2;DP=262;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=29.91;SOR=0.797	GT:AD:DP:GQ:PL	1/1:0,261:261:99:7836,779,0
+NC_002945.4	2116802	.	C	T	6517.77	.	AC=2;AF=1.00;AN=2;DP=221;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=29.49;SOR=0.702	GT:AD:DP:GQ:PL	1/1:0,221:221:99:6546,659,0
+NC_002945.4	2120728	.	C	T	5851.77	.	AC=2;AF=1.00;AN=2;DP=184;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=31.98;SOR=0.749	GT:AD:DP:GQ:PL	1/1:0,183:183:99:5880,546,0
+NC_002945.4	2145868	.	T	C	7883.77	.	AC=2;AF=1.00;AN=2;DP=256;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=30.80;SOR=0.861	GT:AD:DP:GQ:PL	1/1:0,256:256:99:7912,766,0
+NC_002945.4	2161367	.	C	T	2086.77	.	AC=1;AF=0.500;AN=2;BaseQRankSum=0.011;ClippingRankSum=0.000;DP=108;ExcessHet=3.0103;FS=11.585;MLEAC=1;MLEAF=0.500;MQ=59.18;MQRankSum=1.624;QD=19.50;ReadPosRankSum=5.757;SOR=1.811	GT:AD:DP:GQ:PL	0/1:31,76:107:99:2115,0,214
+NC_002945.4	2177828	.	C	G	7112.77	.	AC=2;AF=1.00;AN=2;DP=216;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=33.08;SOR=0.820	GT:AD:DP:GQ:PL	1/1:0,215:215:99:7141,642,0
+NC_002945.4	2193109	.	C	G	281.77	.	AC=1;AF=0.500;AN=2;BaseQRankSum=-3.680;ClippingRankSum=0.000;DP=313;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=58.21;MQRankSum=-10.050;QD=0.90;ReadPosRankSum=1.812;SOR=0.696	GT:AD:DP:GQ:PL	0/1:265,48:313:99:310,0,7482
+NC_002945.4	2215255	.	G	A	3632.77	.	AC=2;AF=1.00;AN=2;DP=136;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=27.94;SOR=2.780	GT:AD:DP:GQ:PL	1/1:0,130:130:99:3661,374,0
+NC_002945.4	2219072	.	G	A	4901.77	.	AC=2;AF=1.00;AN=2;DP=155;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.97;QD=32.04;SOR=0.788	GT:AD:DP:GQ:PL	1/1:0,153:153:99:4930,457,0
+NC_002945.4	2222708	.	C	G	5927.77	.	AC=2;AF=1.00;AN=2;DP=178;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=33.68;SOR=0.716	GT:AD:DP:GQ:PL	1/1:0,176:176:99:5956,526,0
+NC_002945.4	2244454	.	C	G	4260.77	.	AC=2;AF=1.00;AN=2;DP=147;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=28.98;SOR=0.852	GT:AD:DP:GQ:PL	1/1:0,147:147:99:4289,438,0
+NC_002945.4	2246992	.	C	G	6960.77	.	AC=2;AF=1.00;AN=2;DP=207;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=33.63;SOR=0.986	GT:AD:DP:GQ:PL	1/1:0,207:207:99:6989,619,0
+NC_002945.4	2249617	.	A	G	7626.77	.	AC=2;AF=1.00;AN=2;DP=250;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=30.51;SOR=0.883	GT:AD:DP:GQ:PL	1/1:0,250:250:99:7655,748,0
+NC_002945.4	2256653	.	C	A	4626.77	.	AC=2;AF=1.00;AN=2;DP=167;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=27.87;SOR=0.931	GT:AD:DP:GQ:PL	1/1:0,166:166:99:4655,491,0
+NC_002945.4	2257546	.	C	A	5685.77	.	AC=2;AF=1.00;AN=2;DP=190;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=29.93;SOR=1.464	GT:AD:DP:GQ:PL	1/1:0,190:190:99:5714,561,0
+NC_002945.4	2283200	.	A	G	6928.77	.	AC=2;AF=1.00;AN=2;DP=215;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.89;QD=32.23;SOR=0.951	GT:AD:DP:GQ:PL	1/1:0,215:215:99:6957,643,0
+NC_002945.4	2283218	.	C	G	9639.77	.	AC=2;AF=1.00;AN=2;DP=215;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.89;QD=28.36;SOR=0.906	GT:AD:DP:GQ:PL	1/1:0,215:215:99:9668,647,0
+NC_002945.4	2283220	.	A	G	9729.77	.	AC=2;AF=1.00;AN=2;DP=214;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.89;QD=33.10;SOR=0.896	GT:AD:DP:GQ:PL	1/1:0,214:214:99:9758,653,0
+NC_002945.4	2283227	.	A	G	9871.77	.	AC=2;AF=1.00;AN=2;DP=216;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.89;QD=30.82;SOR=0.916	GT:AD:DP:GQ:PL	1/1:0,216:216:99:9900,662,0
+NC_002945.4	2283235	.	G	A	10164.77	.	AC=2;AF=1.00;AN=2;DP=214;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.89;QD=30.58;SOR=0.896	GT:AD:DP:GQ:PL	1/1:0,214:214:99:10193,689,0
+NC_002945.4	2283236	.	G	C	10164.77	.	AC=2;AF=1.00;AN=2;DP=222;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.90;QD=28.92;SOR=0.846	GT:AD:DP:GQ:PL	1/1:0,222:222:99:10193,689,0
+NC_002945.4	2283350	.	C	T	6648.77	.	AC=2;AF=1.00;AN=2;DP=149;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=34.62;SOR=1.233	GT:AD:DP:GQ:PL	1/1:0,149:149:99:6677,449,0
+NC_002945.4	2283353	.	G	T	6648.77	.	AC=2;AF=1.00;AN=2;DP=147;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=33.23;SOR=1.202	GT:AD:DP:GQ:PL	1/1:0,147:147:99:6677,449,0
+NC_002945.4	2283355	.	G	C	6586.77	.	AC=2;AF=1.00;AN=2;DP=147;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=26.88;SOR=1.202	GT:AD:DP:GQ:PL	1/1:0,147:147:99:6615,442,0
+NC_002945.4	2283362	.	A	T	6576.77	.	AC=2;AF=1.00;AN=2;DP=140;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=29.64;SOR=1.237	GT:AD:DP:GQ:PL	1/1:0,140:140:99:6605,442,0
+NC_002945.4	2283371	.	C	A	6251.77	.	AC=2;AF=1.00;AN=2;DP=140;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=29.91;SOR=1.253	GT:AD:DP:GQ:PL	1/1:0,140:140:99:6280,421,0
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+NC_002945.4	2302484	.	N	.	.	.	.	GT	./.
+NC_002945.4	2324495	.	N	.	.	.	.	GT	./.
+NC_002945.4	2324496	.	N	.	.	.	.	GT	./.
+NC_002945.4	2324497	.	N	.	.	.	.	GT	./.
+NC_002945.4	2324498	.	N	.	.	.	.	GT	./.
+NC_002945.4	2324499	.	N	.	.	.	.	GT	./.
+NC_002945.4	2324500	.	N	.	.	.	.	GT	./.
+NC_002945.4	2324501	.	N	.	.	.	.	GT	./.
+NC_002945.4	2324502	.	N	.	.	.	.	GT	./.
+NC_002945.4	2326263	.	N	.	.	.	.	GT	./.
+NC_002945.4	2326264	.	N	.	.	.	.	GT	./.
+NC_002945.4	2326265	.	N	.	.	.	.	GT	./.
+NC_002945.4	2326266	.	N	.	.	.	.	GT	./.
+NC_002945.4	2326267	.	N	.	.	.	.	GT	./.
+NC_002945.4	2326268	.	N	.	.	.	.	GT	./.
+NC_002945.4	2326269	.	N	.	.	.	.	GT	./.
+NC_002945.4	2326270	.	N	.	.	.	.	GT	./.
+NC_002945.4	2326271	.	N	.	.	.	.	GT	./.
+NC_002945.4	2326272	.	N	.	.	.	.	GT	./.
+NC_002945.4	2326273	.	N	.	.	.	.	GT	./.
+NC_002945.4	2333994	.	T	C	7720.77	.	AC=2;AF=1.00;AN=2;DP=245;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=31.77;SOR=0.701	GT:AD:DP:GQ:PL	1/1:0,243:243:99:7749,725,0
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+NC_002945.4	3116934	.	N	.	.	.	.	GT	./.
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+NC_002945.4	3116936	.	N	.	.	.	.	GT	./.
+NC_002945.4	3116937	.	N	.	.	.	.	GT	./.
+NC_002945.4	3116938	.	N	.	.	.	.	GT	./.
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+NC_002945.4	3116945	.	N	.	.	.	.	GT	./.
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+NC_002945.4	3116952	.	N	.	.	.	.	GT	./.
+NC_002945.4	3116953	.	N	.	.	.	.	GT	./.
+NC_002945.4	3116954	.	N	.	.	.	.	GT	./.
+NC_002945.4	3116955	.	N	.	.	.	.	GT	./.
+NC_002945.4	3116956	.	N	.	.	.	.	GT	./.
+NC_002945.4	3116957	.	N	.	.	.	.	GT	./.
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+NC_002945.4	3116960	.	N	.	.	.	.	GT	./.
+NC_002945.4	3116961	.	N	.	.	.	.	GT	./.
+NC_002945.4	3116962	.	N	.	.	.	.	GT	./.
+NC_002945.4	3116963	.	N	.	.	.	.	GT	./.
+NC_002945.4	3116964	.	N	.	.	.	.	GT	./.
+NC_002945.4	3116965	.	N	.	.	.	.	GT	./.
+NC_002945.4	3116966	.	N	.	.	.	.	GT	./.
+NC_002945.4	3116967	.	N	.	.	.	.	GT	./.
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+NC_002945.4	3137471	.	A	G	5710.77	.	AC=2;AF=1.00;AN=2;DP=186;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=30.70;SOR=0.878	GT:AD:DP:GQ:PL	1/1:0,186:186:99:5739,556,0
+NC_002945.4	3140342	.	G	T	8637.77	.	AC=2;AF=1.00;AN=2;DP=286;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=30.20;SOR=0.795	GT:AD:DP:GQ:PL	1/1:0,286:286:99:8666,856,0
+NC_002945.4	3154140	.	T	C	8524.77	.	AC=2;AF=1.00;AN=2;DP=257;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=33.17;SOR=0.887	GT:AD:DP:GQ:PL	1/1:0,257:257:99:8553,768,0
+NC_002945.4	3159182	.	G	A	5990.77	.	AC=2;AF=1.00;AN=2;DP=195;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=30.72;SOR=0.834	GT:AD:DP:GQ:PL	1/1:0,195:195:99:6019,583,0
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+NC_002945.4	3193460	.	G	T	10996.77	.	AC=2;AF=1.00;AN=2;DP=248;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=25.71;SOR=0.776	GT:AD:DP:GQ:PL	1/1:0,248:248:99:11025,746,0
+NC_002945.4	3193461	.	G	T	10996.77	.	AC=2;AF=1.00;AN=2;DP=248;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=32.40;SOR=0.776	GT:AD:DP:GQ:PL	1/1:0,248:248:99:11025,746,0
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+NC_002945.4	3203316	.	T	C	8060.77	.	AC=2;AF=1.00;AN=2;DP=262;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=30.88;SOR=0.701	GT:AD:DP:GQ:PL	1/1:0,261:261:99:8089,781,0
+NC_002945.4	3211854	.	T	C	6396.77	.	AC=2;AF=1.00;AN=2;DP=199;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=32.14;SOR=0.703	GT:AD:DP:GQ:PL	1/1:0,199:199:99:6425,595,0
+NC_002945.4	3219348	.	N	.	.	.	.	GT	./.
+NC_002945.4	3219349	.	N	.	.	.	.	GT	./.
+NC_002945.4	3219350	.	N	.	.	.	.	GT	./.
+NC_002945.4	3219351	.	N	.	.	.	.	GT	./.
+NC_002945.4	3219352	.	N	.	.	.	.	GT	./.
+NC_002945.4	3219353	.	N	.	.	.	.	GT	./.
+NC_002945.4	3219354	.	N	.	.	.	.	GT	./.
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+NC_002945.4	3270181	.	A	G	6549.77	.	AC=2;AF=1.00;AN=2;BaseQRankSum=2.027;ClippingRankSum=0.000;DP=226;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQRankSum=0.000;QD=28.98;ReadPosRankSum=1.081;SOR=0.227	GT:AD:DP:GQ:PL	1/1:1,225:226:99:6578,664,0
+NC_002945.4	3282696	.	G	A	7559.77	.	AC=2;AF=1.00;AN=2;DP=245;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=30.86;SOR=0.734	GT:AD:DP:GQ:PL	1/1:0,245:245:99:7588,731,0
+NC_002945.4	3288444	.	G	A	10110.77	.	AC=2;AF=1.00;AN=2;DP=330;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=30.64;SOR=0.891	GT:AD:DP:GQ:PL	1/1:0,330:330:99:10139,988,0
+NC_002945.4	3297745	.	A	T	760.77	.	AC=1;AF=0.500;AN=2;BaseQRankSum=4.133;ClippingRankSum=0.000;DP=133;ExcessHet=3.0103;FS=9.242;MLEAC=1;MLEAF=0.500;MQ=57.06;MQRankSum=-1.634;QD=5.76;ReadPosRankSum=-5.771;SOR=0.134	GT:AD:DP:GQ:PL	0/1:96,36:132:99:789,0,2820
+NC_002945.4	3329772	.	C	G	6812.77	.	AC=2;AF=1.00;AN=2;DP=201;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=33.89;SOR=0.744	GT:AD:DP:GQ:PL	1/1:0,201:201:99:6841,603,0
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+NC_002945.4	3396621	.	G	C	6856.77	.	AC=2;AF=1.00;AN=2;DP=230;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;QD=29.81;SOR=0.802	GT:AD:DP:GQ:PL	1/1:0,230:230:99:6885,686,0
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