Mercurial > repos > nml > gnali
changeset 3:02d368ec14cf draft
"planemo upload for repository https://github.com/phac-nml/gnali/ commit 48745557cc8e603b61ba1a78308f72562f559e59"
| author | nml |
|---|---|
| date | Wed, 13 Jan 2021 18:35:15 +0000 |
| parents | 49012f2b4c19 |
| children | b6e197aac430 |
| files | gnali.xml macros.xml test-data/patch-results/Nonessential_Host_Genes_(Basic).txt test-data/patch-results/Nonessential_Host_Genes_(Detailed).txt test-data/patch.txt test-data/results/Nonessential_Gene_Variants.vcf test-data/results/Nonessential_Host_Genes_(Basic).txt test-data/results/Nonessential_Host_Genes_(Detailed).txt test-data/results/Nonessential_Host_Genes_Basic.txt test-data/results/Nonessential_Host_Genes_Detailed.txt |
| diffstat | 10 files changed, 711 insertions(+), 164 deletions(-) [+] |
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--- a/gnali.xml Mon Apr 20 17:04:56 2020 -0400 +++ b/gnali.xml Wed Jan 13 18:35:15 2021 +0000 @@ -1,109 +1,122 @@ -<tool id="gnali" name="gNALI" version="0.1.1" python_template_version="3.6"> +<tool id="gnali" name="gNALI" version="1.0.1" python_template_version="3.7"> <description>Get nonessential, LoF variants</description> - <requirements> - <requirement type="package" version="0.1.1">gnali</requirement> - </requirements> + <macros> + <import>macros.xml</import> + </macros> + <expand macro="requirements" /> <command detect_errors="exit_code"><![CDATA[ - gnali -i '$test_genes' -o output + gnali -i '$test_genes' -o output -d '$database_info.database' + #if $database_info.predefined_filters != "None": + --predefined_filters '$database_info.predefined_filters' + #end if + #if len($additional_filters) > 0: + --additional_filters + #for $filt in $additional_filters + '$filt.filter' + #end for + #end if + #if $vcf_output: + '$vcf_output' + #end if + #if $pop_freqs: + '$pop_freqs' + #end if ]]></command> <inputs> <param type="data" name="test_genes" label="Test genes" format="txt" help="Specify a list of genes as HGNC symbols, separated by newline characters" /> - <param type="select" name="database" label="Database" format="txt" help="Database to query" > - <option value="gnomad2.1.1" selected="true">gnomAD2.1.1 (GRCh37/hg19)</option> - </param> + <param name="vcf_output" type="boolean" truevalue="--vcf" falsevalue="" optional="false" checked="false" label="VCF output" help="Generate vcf file for filtered variants" /> + <param name="pop_freqs" type="boolean" truevalue="--pop_freqs" falsevalue="" optional="false" checked="false" label="Population frequencies" help="Generate population frequency data for variants that passed filtering" /> + <conditional name="database_info"> + <param type="select" name="database" label="Database" format="txt" help="Database to query" > + <option value="gnomadv2.1.1" selected="true">gnomADv2.1.1 (GRCh37/hg19)</option> + <option value="gnomadv3">gnomADv3 (GRCh38/hg38)</option> + </param> + <when value="gnomadv2.1.1"> + <param name="predefined_filters" type="select" display="checkboxes" multiple="True" label="Predefined filters" help="Filter variants by selected filters"> + <option value="homozygous-controls">homozygous controls (controls_nhomalt>0)</option> + <option value="heterozygous-controls">heterozygous controls (controls_nhomalt=0)</option> + <option value="nhomalt>0">homozygous (nhomalt>0)</option> + </param> + </when> + <when value="gnomadv3"> + <param name="predefined_filters" type="select" display="checkboxes" multiple="True" label="Predefined filters" help="Filter variants by selected filters"> + <option value="homozygous">homozygous (nhomalt>0)</option> + <option value="heterozygous">heterozygous (nhomalt=0)</option> + </param> + </when> + </conditional> + <repeat name="additional_filters" title="Additional filters" min="0" default="0" help="Additional filters (as expressions, ex. AC>10) to apply" > + <param name="filter" type="text" optional="False" label="Filter"> + <sanitizer invalid_char=""> + <valid initial="string.ascii_letters,string.digits"> + <add value=">" /> + <add value="<" /> + <add value="=" /> + </valid> + </sanitizer> + </param> + </repeat> </inputs> <outputs> - <data name="basic_output" label="gNALI basic output" format="txt" from_work_dir="output/Nonessential_Host_Genes_\(Basic\).txt" /> - <data name="detailed_output" label="gNALI detailed output" format="txt" from_work_dir="output/Nonessential_Host_Genes_\(Detailed\).txt" /> + <data name="basic_output" label="gNALI basic output on ${test_genes.element_identifier}" format="txt" from_work_dir="output/Nonessential_Host_Genes_\(Basic\).txt" /> + <data name="detailed_output" label="gNALI detailed output on ${test_genes.element_identifier}" format="txt" from_work_dir="output/Nonessential_Host_Genes_\(Detailed\).txt" /> + <data name="variants_vcf_output" label="gNALI variants vcf on ${test_genes.element_identifier}" format="vcf" from_work_dir="output/Nonessential_Gene_Variants.vcf" > + <filter>vcf_output</filter> + </data> </outputs> <tests> <test> <param name="test_genes" value="test_genes.txt"/> - <output name="basic_output"> - <assert_contents> - <has_text text="HGNC_Symbol" /> - <has_text text="CCR5" /> - </assert_contents> - </output> - <output name="detailed_output"> - <assert_contents> - <has_text_matching expression="Chromosome\tPosition_Start\tRSID\tReference_Allele\tAlternate_Allele\tScore\tQuality\tLoF_Variant\tLoF_Annotation\tHGNC_Symbol\tEnsembl Code" /> - <has_text_matching expression="3\t46414935\trs938517991\tAT\tA\t9974.16\tPASS\t-\tframeshift_variant\tCCR5\tENSG00000160791" /> - <has_text_matching expression="3\t46414943\trs775750898\tTACAGTCAGTATCAATTCTGGAAGAATTTCCAG\tT\t74264261.52\tPASS\t-\tframeshift_variant\tCCR5\tENSG00000160791" /> - <has_text_matching expression="3\t46415066\trs146972949\tC\tT\t120238.89\tPASS\tT\tstop_gained\tCCR5\tENSG00000160791" /> - <has_text_matching expression="3\t46414943\trs775750898\tTACAGTCAGTATCAATTCTGGAAGAATTTCCAG\tT\t1947603.90\tPASS\t-\tframeshift_variant\tCCR5\tENSG00000160791" /> - </assert_contents> + <param name="predefined_filters" value="homozygous-controls"/> + <param name="pop_freqs" value="--pop_freqs"/> + <param name="vcf_output" value="--vcf"/> + <output name="basic_output" + value="results/Nonessential_Host_Genes_Basic.txt" + ftype="txt" + compare="diff"> </output> - </test> - <test> - <param name="test_genes" value="patch.txt"/> - <output name="basic_output"> - <assert_contents> - <has_text text="HGNC_Symbol" /> - <has_text text="CCR5" /> - <has_text text="RPEL1" /> - <has_text text="OTOGL" /> - <has_text text="PKD1L2" /> - <has_text text="COL6A5" /> - <has_text text="DCP1A" /> - <has_text text="KRT10" /> - </assert_contents> - </output> - <output name="detailed_output"> - <assert_contents> - <has_text_matching expression="Chromosome\tPosition_Start\tRSID\tReference_Allele\tAlternate_Allele\tScore\tQuality\tLoF_Variant\tLoF_Annotation\tHGNC_Symbol\tEnsembl Code" /> - <has_text_matching expression="10\t105005931\trs61746130\tC\tT\t4480914.72\tPASS\tT\tstop_gained\tRPEL1\tENSG00000235376" /> - <has_text_matching expression="12\t80770908\trs1222716200\tC\tT\t4175.99\tPASS\tT\tstop_gained\tOTOGL\tENSG00000165899" /> - <has_text_matching expression="16\t81242148\trs752607955\tGTT\tG\t218022105.25\tPASS\t-\tframeshift_variant\tPKD1L2\tENSG00000166473" /> - <has_text_matching expression="16\t81242198\trs7499011\tG\tA\t124146106.95\tPASS\tA\tstop_gained\tPKD1L2\tENSG00000166473" /> - <has_text_matching expression="3\t130114290\trs115380050\tC\tT\t105366.23\tPASS\tT\tstop_gained\tCOL6A5\tENSG00000172752" /> - <has_text_matching expression="3\t130139996\trs139339125\tG\tT\t576280.08\tPASS\tT\tsplice_acceptor_variant\tCOL6A5\tENSG00000172752" /> - <has_text_matching expression="3\t130159309\t.\tAAT\tA\t3284.41\tPASS\t-\tframeshift_variant\tCOL6A5\tENSG00000172752" /> - <has_text_matching expression="3\t130159330\trs2201717\tC\tT\t8770317.31\tPASS\tT\tstop_gained\tCOL6A5\tENSG00000172752" /> - <has_text_matching expression="3\t130187662\trs115375867\tG\tT\t1785133.61\tPASS\tT\tstop_gained\tCOL6A5\tENSG00000172752" /> - <has_text_matching expression="3\t130190720\trs11355796\tAT\tA\t157372019.43\tPASS\t-\tframeshift_variant\tCOL6A5\tENSG00000172752" /> - <has_text_matching expression="3\t53324819\trs782498227\tATGGCAC\tA\t304085671.95\tPASS\t-\tsplice_donor_variant&intron_variant\tDCP1A\tENSG00000162290" /> - <has_text_matching expression="3\t46414935\trs938517991\tAT\tA\t9974.16\tPASS\t-\tframeshift_variant\tCCR5\tENSG00000160791" /> - <has_text_matching expression="3\t46414943\trs775750898\tTACAGTCAGTATCAATTCTGGAAGAATTTCCAG\tT\t74264261.52\tPASS\t-\tframeshift_variant\tCCR5\tENSG00000160791" /> - <has_text_matching expression="3\t46415066\trs146972949\tC\tT\t120238.89\tPASS\tT\tstop_gained\tCCR5\tENSG00000160791" /> - <has_text_matching expression="16\t81242148\trs752607955\tGTT\tG\t12370921.18\tPASS\t-\tframeshift_variant\tPKD1L2\tENSG00000166473" /> - <has_text_matching expression="16\t81242198\trs7499011\tG\tA\t7423817.85\tPASS\tA\tstop_gained\tPKD1L2\tENSG00000166473" /> - <has_text_matching expression="17\t38975327\trs764791942\tT\tTAGCCGCCGCC\t282793.87\tPASS\tAGCCGCCGCC\tframeshift_variant\tKRT10\tENSG00000186395" /> - <has_text_matching expression="17\t38975329\trs762667965\tG\tGAGCTT\t238711.24\tPASS\tAGCTT\tframeshift_variant\tKRT10\tENSG00000186395" /> - <has_text_matching expression="3\t130159330\trs2201717\tC\tT\t165579.83\tPASS\tT\tstop_gained\tCOL6A5\tENSG00000172752" /> - <has_text_matching expression="3\t130190720\trs11355796\tAT\tA\t14066881.99\tPASS\t-\tframeshift_variant\tCOL6A5\tENSG00000172752" /> - <has_text_matching expression="3\t53324819\trs782498227\tATGGCAC\tA\t17202744.04\tPASS\t-\tsplice_donor_variant&intron_variant\tDCP1A\tENSG00000162290" /> - <has_text_matching expression="3\t46414943\trs775750898\tTACAGTCAGTATCAATTCTGGAAGAATTTCCAG\tT\t1947603.90\tPASS\t-\tframeshift_variant\tCCR5\tENSG00000160791" /> - </assert_contents> - </output> + <output name="detailed_output" + value="results/Nonessential_Host_Genes_Detailed.txt" + ftype="txt" + compare="diff"> + </output> + <output name="variants_vcf_output" + value="results/Nonessential_Gene_Variants.vcf" + ftype="vcf" + compare="diff"> + </output> </test> </tests> <help><![CDATA[ -gNALI - Gene Nonessentiality and Loss-of-function Identifier -============================================================ +Introduction +------------------ -gNALI is a tool to find (high confidence) potential loss-of-function variants of genes. +gNALI (gene nonessentiality and loss-of-function identifier) is a tool to find (high confidence) +potential loss of function variants of genes. +NOTE: loss-of-function is influenced by the genome build. Not all variants available in gnomADv2.1.1 are +available in gnomADv3 and vice versa. -Authors -------- +Usage +----------- -gNALI was developed by Xia Liu. +Your input file must be of format .csv, .txt, or tsv and should contain a list of genes +(as HGNC symbols) to test, separated by newline characters. +It should not contain any blank lines until the end of the list. -Usage ------ +**Population Frequencies** -Accepted input formats: csv, txt, tsv +When using the population frequencies feature: + +Per population group: -Your input file should contain a list of genes (as HGNC symbols) to test, separated by newline characters. -It should not contain any blank lines until the end of the list. +* AC denotes allele count -There will be two output files: +* AN denotes allele number - 1. A basic output file, containing genes (as HGNC symbols) with nonessential, loss-of-function variants. - 2. A detailed output file, with more information on the variants. +* AF denotes allele frequency ]]></help> <citations>
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/macros.xml Wed Jan 13 18:35:15 2021 +0000 @@ -0,0 +1,8 @@ +<macros> + <token name="@VERSION@">1.0.1</token> + <xml name="requirements"> + <requirements> + <requirement type="package" version ="@VERSION@">gnali</requirement> + </requirements> + </xml> +</macros> \ No newline at end of file
--- a/test-data/patch-results/Nonessential_Host_Genes_(Basic).txt Mon Apr 20 17:04:56 2020 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,7 +0,0 @@ -RPEL1 -OTOGL -PKD1L2 -COL6A5 -DCP1A -CCR5 -KRT10
--- a/test-data/patch-results/Nonessential_Host_Genes_(Detailed).txt Mon Apr 20 17:04:56 2020 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,23 +0,0 @@ -Chromosome Position_Start RSID Reference_Allele Alternate_Allele Score Quality LoF_Variant LoF_Annotation HGNC_Symbol Ensembl Code -10 105005931 rs61746130 C T 4480914.72 PASS T stop_gained RPEL1 ENSG00000235376 -12 80770908 rs1222716200 C T 4175.99 PASS T stop_gained OTOGL ENSG00000165899 -16 81242148 rs752607955 GTT G 218022105.25 PASS - frameshift_variant PKD1L2 ENSG00000166473 -16 81242198 rs7499011 G A 124146106.95 PASS A stop_gained PKD1L2 ENSG00000166473 -3 130114290 rs115380050 C T 105366.23 PASS T stop_gained COL6A5 ENSG00000172752 -3 130139996 rs139339125 G T 576280.08 PASS T splice_acceptor_variant COL6A5 ENSG00000172752 -3 130159309 . AAT A 3284.41 PASS - frameshift_variant COL6A5 ENSG00000172752 -3 130159330 rs2201717 C T 8770317.31 PASS T stop_gained COL6A5 ENSG00000172752 -3 130187662 rs115375867 G T 1785133.61 PASS T stop_gained COL6A5 ENSG00000172752 -3 130190720 rs11355796 AT A 157372019.43 PASS - frameshift_variant COL6A5 ENSG00000172752 -3 53324819 rs782498227 ATGGCAC A 304085671.95 PASS - splice_donor_variant&intron_variant DCP1A ENSG00000162290 -3 46414935 rs938517991 AT A 9974.16 PASS - frameshift_variant CCR5 ENSG00000160791 -3 46414943 rs775750898 TACAGTCAGTATCAATTCTGGAAGAATTTCCAG T 74264261.52 PASS - frameshift_variant CCR5 ENSG00000160791 -3 46415066 rs146972949 C T 120238.89 PASS T stop_gained CCR5 ENSG00000160791 -16 81242148 rs752607955 GTT G 12370921.18 PASS - frameshift_variant PKD1L2 ENSG00000166473 -16 81242198 rs7499011 G A 7423817.85 PASS A stop_gained PKD1L2 ENSG00000166473 -17 38975327 rs764791942 T TAGCCGCCGCC 282793.87 PASS AGCCGCCGCC frameshift_variant KRT10 ENSG00000186395 -17 38975329 rs762667965 G GAGCTT 238711.24 PASS AGCTT frameshift_variant KRT10 ENSG00000186395 -3 130159330 rs2201717 C T 165579.83 PASS T stop_gained COL6A5 ENSG00000172752 -3 130190720 rs11355796 AT A 14066881.99 PASS - frameshift_variant COL6A5 ENSG00000172752 -3 53324819 rs782498227 ATGGCAC A 17202744.04 PASS - splice_donor_variant&intron_variant DCP1A ENSG00000162290 -3 46414943 rs775750898 TACAGTCAGTATCAATTCTGGAAGAATTTCCAG T 1947603.90 PASS - frameshift_variant CCR5 ENSG00000160791
--- a/test-data/patch.txt Mon Apr 20 17:04:56 2020 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,48 +0,0 @@ -CD4 -ALCAM -TPST2 -CCR5 -SLC35B2 -PRM3 -TPBGL -PCDHB9 -FMN1 -SEC22B -COL6A5 -ANKRD63 -ITIH5 -PPP2R2D -DNAJC5B -FAT3 -WNK2 -FER1L5 -SEMA3B -FIGNL2 -NUTM2B -AGAP11 -TSGA10IP -DNAH17 -ENO4 -KRT10 -C6orf229 -HNRNPCP5 -SLC22A31 -MYCBP2 -OTOGL -ST8SIA1 -PKD1L2 -PIGB -ZSCAN26 -CASP8AP2 -CCDC168 -HEATR5A -NEURL3 -SLC35F4 -COPG2 -DCP1A -DOC2B -FOXD1 -FTH1P18 -RHBG -RPEL1 -TLX1NB
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/results/Nonessential_Gene_Variants.vcf Wed Jan 13 18:35:15 2021 +0000 @@ -0,0 +1,603 @@ +##fileformat=VCFv4.2 +##hailversion=0.2.7-c860755b5da3 +##FILTER=<ID=AC0,Description="Allele count is zero after filtering out low-confidence genotypes (GQ < 20; DP < 10; and AB < 0.2 for het calls)"> +##FILTER=<ID=InbreedingCoeff,Description="InbreedingCoeff < -0.3"> +##FILTER=<ID=PASS,Description="Passed all variant filters"> +##FILTER=<ID=RF,Description="Failed random forest filtering thresholds of 0.2634762834546574, 0.22213813189901457 (probabilities of being a true positive variant) for SNPs, indels"> +##INFO=<ID=AC,Number=A,Type=Integer,Description="Alternate allele count for samples"> +##INFO=<ID=AN,Number=1,Type=Integer,Description="Total number of alleles in samples"> +##INFO=<ID=AF,Number=A,Type=Float,Description="Alternate allele frequency in samples"> +##INFO=<ID=rf_tp_probability,Number=1,Type=Float,Description="Random forest prediction probability for a site being a true variant"> +##INFO=<ID=FS,Number=1,Type=Float,Description="Phred-scaled p-value of Fisher's exact test for strand bias"> +##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=MQ,Number=1,Type=Float,Description="Root mean square of the mapping quality of reads across all samples"> +##INFO=<ID=MQRankSum,Number=1,Type=Float,Description="Z-score from Wilcoxon rank sum test of alternate vs. reference read mapping qualities"> +##INFO=<ID=QD,Number=1,Type=Float,Description="Variant call confidence normalized by depth of sample reads supporting a variant"> +##INFO=<ID=ReadPosRankSum,Number=1,Type=Float,Description="Z-score from Wilcoxon rank sum test of alternate vs. reference read position bias"> +##INFO=<ID=SOR,Number=1,Type=Float,Description="Strand bias estimated by the symmetric odds ratio test"> +##INFO=<ID=VQSR_POSITIVE_TRAIN_SITE,Number=0,Type=Flag,Description="Variant was used to build the positive training set of high-quality variants for VQSR"> +##INFO=<ID=VQSR_NEGATIVE_TRAIN_SITE,Number=0,Type=Flag,Description="Variant was used to build the negative training set of low-quality variants for VQSR"> +##INFO=<ID=BaseQRankSum,Number=1,Type=Float,Description="Z-score from Wilcoxon rank sum test of alternate vs. reference base qualities"> +##INFO=<ID=ClippingRankSum,Number=1,Type=Float,Description="Z-score from Wilcoxon rank sum test of alternate vs. reference number of hard clipped bases"> +##INFO=<ID=DP,Number=1,Type=Integer,Description="Depth of informative coverage for each sample; reads with MQ=255 or with bad mates are filtered"> +##INFO=<ID=VQSLOD,Number=1,Type=Float,Description="Log-odds ratio of being a true variant versus being a false positive under the trained VQSR Gaussian mixture model"> +##INFO=<ID=VQSR_culprit,Number=1,Type=String,Description="Worst-performing annotation in the VQSR Gaussian mixture model"> +##INFO=<ID=segdup,Number=0,Type=Flag,Description="Variant falls within a segmental duplication region"> +##INFO=<ID=lcr,Number=0,Type=Flag,Description="Variant falls within a low complexity region"> +##INFO=<ID=decoy,Number=0,Type=Flag,Description="Variant falls within a reference decoy region"> +##INFO=<ID=nonpar,Number=0,Type=Flag,Description="Variant (on sex chromosome) falls outside a pseudoautosomal region"> +##INFO=<ID=rf_positive_label,Number=0,Type=Flag,Description="Variant was labelled as a positive example for training of random forest model"> +##INFO=<ID=rf_negative_label,Number=0,Type=Flag,Description="Variant was labelled as a negative example for training of random forest model"> +##INFO=<ID=rf_label,Number=1,Type=String,Description="Random forest training label"> +##INFO=<ID=rf_train,Number=0,Type=Flag,Description="Variant was used in training random forest model"> +##INFO=<ID=transmitted_singleton,Number=0,Type=Flag,Description="Variant was a callset-wide doubleton that was transmitted within a family (i.e., a singleton amongst unrelated sampes in cohort)"> +##INFO=<ID=variant_type,Number=1,Type=String,Description="Variant type (snv, indel, multi-snv, multi-indel, or mixed)"> +##INFO=<ID=allele_type,Number=A,Type=String,Description="Allele type (snv, ins, del, or mixed)"> +##INFO=<ID=n_alt_alleles,Number=A,Type=Integer,Description="Total number of alternate alleles observed at variant locus"> +##INFO=<ID=was_mixed,Number=0,Type=Flag,Description="Variant type was mixed"> +##INFO=<ID=has_star,Number=0,Type=Flag,Description="Variant locus coincides with a spanning deletion (represented by a star) observed elsewhere in the callset"> +##INFO=<ID=pab_max,Number=A,Type=Float,Description="Maximum p-value over callset for binomial test of observed allele balance for a heterozygous genotype, given expectation of AB=0.5"> +##INFO=<ID=gq_hist_alt_bin_freq,Number=A,Type=String,Description="Histogram for GQ in heterozygous individuals; bin edges are: 0|5|10|15|20|25|30|35|40|45|50|55|60|65|70|75|80|85|90|95|100"> +##INFO=<ID=gq_hist_all_bin_freq,Number=A,Type=String,Description="Histogram for GQ; bin edges are: 0|5|10|15|20|25|30|35|40|45|50|55|60|65|70|75|80|85|90|95|100"> +##INFO=<ID=dp_hist_alt_bin_freq,Number=A,Type=String,Description="Histogram for DP in heterozygous individuals; bin edges are: 0|5|10|15|20|25|30|35|40|45|50|55|60|65|70|75|80|85|90|95|100"> +##INFO=<ID=dp_hist_alt_n_larger,Number=A,Type=Integer,Description="Count of DP values falling above highest histogram bin edge"> +##INFO=<ID=dp_hist_all_bin_freq,Number=A,Type=String,Description="Histogram for DP; bin edges are: 0|5|10|15|20|25|30|35|40|45|50|55|60|65|70|75|80|85|90|95|100"> +##INFO=<ID=dp_hist_all_n_larger,Number=A,Type=Integer,Description="Count of DP values falling above highest histogram bin edge"> +##INFO=<ID=ab_hist_alt_bin_freq,Number=A,Type=String,Description="Histogram for AB in heterozygous individuals; bin edges are: 0.00|0.05|0.10|0.15|0.20|0.25|0.30|0.35|0.40|0.45|0.50|0.55|0.60|0.65|0.70|0.75|0.80|0.85|0.90|0.95|1.00"> +##INFO=<ID=AC_nfe_seu,Number=A,Type=Integer,Description="Alternate allele count for samples of Southern European ancestry"> +##INFO=<ID=AN_nfe_seu,Number=1,Type=Integer,Description="Total number of alleles in samples of Southern European ancestry"> +##INFO=<ID=AF_nfe_seu,Number=A,Type=Float,Description="Alternate allele frequency in samples of Southern European ancestry"> +##INFO=<ID=nhomalt_nfe_seu,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Southern European ancestry"> +##INFO=<ID=controls_AC_afr_male,Number=A,Type=Integer,Description="Alternate allele count for male samples of African-American/African ancestry in the controls subset"> +##INFO=<ID=controls_AN_afr_male,Number=1,Type=Integer,Description="Total number of alleles in male samples of African-American/African ancestry in the controls subset"> +##INFO=<ID=controls_AF_afr_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples of African-American/African ancestry in the controls subset"> +##INFO=<ID=controls_nhomalt_afr_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples of African-American/African ancestry in the controls subset"> +##INFO=<ID=non_topmed_AC_amr,Number=A,Type=Integer,Description="Alternate allele count for samples of Latino ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AN_amr,Number=1,Type=Integer,Description="Total number of alleles in samples of Latino ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AF_amr,Number=A,Type=Float,Description="Alternate allele frequency in samples of Latino ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_nhomalt_amr,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Latino ancestry in the non_topmed subset"> +##INFO=<ID=AC_raw,Number=A,Type=Integer,Description="Alternate allele count for samples, before removing low-confidence genotypes"> +##INFO=<ID=AN_raw,Number=1,Type=Integer,Description="Total number of alleles in samples, before removing low-confidence genotypes"> +##INFO=<ID=AF_raw,Number=A,Type=Float,Description="Alternate allele frequency in samples, before removing low-confidence genotypes"> +##INFO=<ID=nhomalt_raw,Number=A,Type=Integer,Description="Count of homozygous individuals in samples, before removing low-confidence genotypes"> +##INFO=<ID=AC_fin_female,Number=A,Type=Integer,Description="Alternate allele count for female samples of Finnish ancestry"> +##INFO=<ID=AN_fin_female,Number=1,Type=Integer,Description="Total number of alleles in female samples of Finnish ancestry"> +##INFO=<ID=AF_fin_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples of Finnish ancestry"> +##INFO=<ID=nhomalt_fin_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples of Finnish ancestry"> +##INFO=<ID=non_neuro_AC_asj_female,Number=A,Type=Integer,Description="Alternate allele count for female samples of Ashkenazi Jewish ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AN_asj_female,Number=1,Type=Integer,Description="Total number of alleles in female samples of Ashkenazi Jewish ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AF_asj_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples of Ashkenazi Jewish ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_nhomalt_asj_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples of Ashkenazi Jewish ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AC_afr_male,Number=A,Type=Integer,Description="Alternate allele count for male samples of African-American/African ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AN_afr_male,Number=1,Type=Integer,Description="Total number of alleles in male samples of African-American/African ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AF_afr_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples of African-American/African ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_nhomalt_afr_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples of African-American/African ancestry in the non_neuro subset"> +##INFO=<ID=AC_afr_male,Number=A,Type=Integer,Description="Alternate allele count for male samples of African-American/African ancestry"> +##INFO=<ID=AN_afr_male,Number=1,Type=Integer,Description="Total number of alleles in male samples of African-American/African ancestry"> +##INFO=<ID=AF_afr_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples of African-American/African ancestry"> +##INFO=<ID=nhomalt_afr_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples of African-American/African ancestry"> +##INFO=<ID=AC_afr,Number=A,Type=Integer,Description="Alternate allele count for samples of African-American/African ancestry"> +##INFO=<ID=AN_afr,Number=1,Type=Integer,Description="Total number of alleles in samples of African-American/African ancestry"> +##INFO=<ID=AF_afr,Number=A,Type=Float,Description="Alternate allele frequency in samples of African-American/African ancestry"> +##INFO=<ID=nhomalt_afr,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of African-American/African ancestry"> +##INFO=<ID=non_neuro_AC_afr_female,Number=A,Type=Integer,Description="Alternate allele count for female samples of African-American/African ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AN_afr_female,Number=1,Type=Integer,Description="Total number of alleles in female samples of African-American/African ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AF_afr_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples of African-American/African ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_nhomalt_afr_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples of African-American/African ancestry in the non_neuro subset"> +##INFO=<ID=non_topmed_AC_amr_female,Number=A,Type=Integer,Description="Alternate allele count for female samples of Latino ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AN_amr_female,Number=1,Type=Integer,Description="Total number of alleles in female samples of Latino ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AF_amr_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples of Latino ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_nhomalt_amr_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples of Latino ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AC_oth_female,Number=A,Type=Integer,Description="Alternate allele count for female samples of Other ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AN_oth_female,Number=1,Type=Integer,Description="Total number of alleles in female samples of Other ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AF_oth_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples of Other ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_nhomalt_oth_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples of Other ancestry in the non_topmed subset"> +##INFO=<ID=AC_eas_female,Number=A,Type=Integer,Description="Alternate allele count for female samples of East Asian ancestry"> +##INFO=<ID=AN_eas_female,Number=1,Type=Integer,Description="Total number of alleles in female samples of East Asian ancestry"> +##INFO=<ID=AF_eas_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples of East Asian ancestry"> +##INFO=<ID=nhomalt_eas_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples of East Asian ancestry"> +##INFO=<ID=AC_afr_female,Number=A,Type=Integer,Description="Alternate allele count for female samples of African-American/African ancestry"> +##INFO=<ID=AN_afr_female,Number=1,Type=Integer,Description="Total number of alleles in female samples of African-American/African ancestry"> +##INFO=<ID=AF_afr_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples of African-American/African ancestry"> +##INFO=<ID=nhomalt_afr_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples of African-American/African ancestry"> +##INFO=<ID=non_neuro_AC_female,Number=A,Type=Integer,Description="Alternate allele count for female samples in the non_neuro subset"> +##INFO=<ID=non_neuro_AN_female,Number=1,Type=Integer,Description="Total number of alleles in female samples in the non_neuro subset"> +##INFO=<ID=non_neuro_AF_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples in the non_neuro subset"> +##INFO=<ID=non_neuro_nhomalt_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples in the non_neuro subset"> +##INFO=<ID=controls_AC_afr,Number=A,Type=Integer,Description="Alternate allele count for samples of African-American/African ancestry in the controls subset"> +##INFO=<ID=controls_AN_afr,Number=1,Type=Integer,Description="Total number of alleles in samples of African-American/African ancestry in the controls subset"> +##INFO=<ID=controls_AF_afr,Number=A,Type=Float,Description="Alternate allele frequency in samples of African-American/African ancestry in the controls subset"> +##INFO=<ID=controls_nhomalt_afr,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of African-American/African ancestry in the controls subset"> +##INFO=<ID=AC_nfe_onf,Number=A,Type=Integer,Description="Alternate allele count for samples of Other Non-Finnish European ancestry"> +##INFO=<ID=AN_nfe_onf,Number=1,Type=Integer,Description="Total number of alleles in samples of Other Non-Finnish European ancestry"> +##INFO=<ID=AF_nfe_onf,Number=A,Type=Float,Description="Alternate allele frequency in samples of Other Non-Finnish European ancestry"> +##INFO=<ID=nhomalt_nfe_onf,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Other Non-Finnish European ancestry"> +##INFO=<ID=controls_AC_fin_male,Number=A,Type=Integer,Description="Alternate allele count for male samples of Finnish ancestry in the controls subset"> +##INFO=<ID=controls_AN_fin_male,Number=1,Type=Integer,Description="Total number of alleles in male samples of Finnish ancestry in the controls subset"> +##INFO=<ID=controls_AF_fin_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples of Finnish ancestry in the controls subset"> +##INFO=<ID=controls_nhomalt_fin_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples of Finnish ancestry in the controls subset"> +##INFO=<ID=non_neuro_AC_nfe_nwe,Number=A,Type=Integer,Description="Alternate allele count for samples of North-Western European ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AN_nfe_nwe,Number=1,Type=Integer,Description="Total number of alleles in samples of North-Western European ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AF_nfe_nwe,Number=A,Type=Float,Description="Alternate allele frequency in samples of North-Western European ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_nhomalt_nfe_nwe,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of North-Western European ancestry in the non_neuro subset"> +##INFO=<ID=AC_fin_male,Number=A,Type=Integer,Description="Alternate allele count for male samples of Finnish ancestry"> +##INFO=<ID=AN_fin_male,Number=1,Type=Integer,Description="Total number of alleles in male samples of Finnish ancestry"> +##INFO=<ID=AF_fin_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples of Finnish ancestry"> +##INFO=<ID=nhomalt_fin_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples of Finnish ancestry"> +##INFO=<ID=AC_nfe_female,Number=A,Type=Integer,Description="Alternate allele count for female samples of Non-Finnish European ancestry"> +##INFO=<ID=AN_nfe_female,Number=1,Type=Integer,Description="Total number of alleles in female samples of Non-Finnish European ancestry"> +##INFO=<ID=AF_nfe_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples of Non-Finnish European ancestry"> +##INFO=<ID=nhomalt_nfe_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples of Non-Finnish European ancestry"> +##INFO=<ID=AC_amr,Number=A,Type=Integer,Description="Alternate allele count for samples of Latino ancestry"> +##INFO=<ID=AN_amr,Number=1,Type=Integer,Description="Total number of alleles in samples of Latino ancestry"> +##INFO=<ID=AF_amr,Number=A,Type=Float,Description="Alternate allele frequency in samples of Latino ancestry"> +##INFO=<ID=nhomalt_amr,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Latino ancestry"> +##INFO=<ID=non_topmed_AC_nfe_male,Number=A,Type=Integer,Description="Alternate allele count for male samples of Non-Finnish European ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AN_nfe_male,Number=1,Type=Integer,Description="Total number of alleles in male samples of Non-Finnish European ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AF_nfe_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples of Non-Finnish European ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_nhomalt_nfe_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples of Non-Finnish European ancestry in the non_topmed subset"> +##INFO=<ID=AC_eas,Number=A,Type=Integer,Description="Alternate allele count for samples of East Asian ancestry"> +##INFO=<ID=AN_eas,Number=1,Type=Integer,Description="Total number of alleles in samples of East Asian ancestry"> +##INFO=<ID=AF_eas,Number=A,Type=Float,Description="Alternate allele frequency in samples of East Asian ancestry"> +##INFO=<ID=nhomalt_eas,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of East Asian ancestry"> +##INFO=<ID=nhomalt,Number=A,Type=Integer,Description="Count of homozygous individuals in samples"> +##INFO=<ID=non_neuro_AC_nfe_female,Number=A,Type=Integer,Description="Alternate allele count for female samples of Non-Finnish European ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AN_nfe_female,Number=1,Type=Integer,Description="Total number of alleles in female samples of Non-Finnish European ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AF_nfe_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples of Non-Finnish European ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_nhomalt_nfe_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples of Non-Finnish European ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AC_afr,Number=A,Type=Integer,Description="Alternate allele count for samples of African-American/African ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AN_afr,Number=1,Type=Integer,Description="Total number of alleles in samples of African-American/African ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AF_afr,Number=A,Type=Float,Description="Alternate allele frequency in samples of African-American/African ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_nhomalt_afr,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of African-American/African ancestry in the non_neuro subset"> +##INFO=<ID=controls_AC_raw,Number=A,Type=Integer,Description="Alternate allele count for samples in the controls subset, before removing low-confidence genotypes"> +##INFO=<ID=controls_AN_raw,Number=1,Type=Integer,Description="Total number of alleles in samples in the controls subset, before removing low-confidence genotypes"> +##INFO=<ID=controls_AF_raw,Number=A,Type=Float,Description="Alternate allele frequency in samples in the controls subset, before removing low-confidence genotypes"> +##INFO=<ID=controls_nhomalt_raw,Number=A,Type=Integer,Description="Count of homozygous individuals in samples in the controls subset, before removing low-confidence genotypes"> +##INFO=<ID=controls_AC_male,Number=A,Type=Integer,Description="Alternate allele count for male samples in the controls subset"> +##INFO=<ID=controls_AN_male,Number=1,Type=Integer,Description="Total number of alleles in male samples in the controls subset"> +##INFO=<ID=controls_AF_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples in the controls subset"> +##INFO=<ID=controls_nhomalt_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples in the controls subset"> +##INFO=<ID=non_topmed_AC_male,Number=A,Type=Integer,Description="Alternate allele count for male samples in the non_topmed subset"> +##INFO=<ID=non_topmed_AN_male,Number=1,Type=Integer,Description="Total number of alleles in male samples in the non_topmed subset"> +##INFO=<ID=non_topmed_AF_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples in the non_topmed subset"> +##INFO=<ID=non_topmed_nhomalt_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples in the non_topmed subset"> +##INFO=<ID=controls_AC_nfe_female,Number=A,Type=Integer,Description="Alternate allele count for female samples of Non-Finnish European ancestry in the controls subset"> +##INFO=<ID=controls_AN_nfe_female,Number=1,Type=Integer,Description="Total number of alleles in female samples of Non-Finnish European ancestry in the controls subset"> +##INFO=<ID=controls_AF_nfe_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples of Non-Finnish European ancestry in the controls subset"> +##INFO=<ID=controls_nhomalt_nfe_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples of Non-Finnish European ancestry in the controls subset"> +##INFO=<ID=non_neuro_AC_amr,Number=A,Type=Integer,Description="Alternate allele count for samples of Latino ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AN_amr,Number=1,Type=Integer,Description="Total number of alleles in samples of Latino ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AF_amr,Number=A,Type=Float,Description="Alternate allele frequency in samples of Latino ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_nhomalt_amr,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Latino ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AC_eas_female,Number=A,Type=Integer,Description="Alternate allele count for female samples of East Asian ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AN_eas_female,Number=1,Type=Integer,Description="Total number of alleles in female samples of East Asian ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AF_eas_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples of East Asian ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_nhomalt_eas_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples of East Asian ancestry in the non_neuro subset"> +##INFO=<ID=AC_asj_male,Number=A,Type=Integer,Description="Alternate allele count for male samples of Ashkenazi Jewish ancestry"> +##INFO=<ID=AN_asj_male,Number=1,Type=Integer,Description="Total number of alleles in male samples of Ashkenazi Jewish ancestry"> +##INFO=<ID=AF_asj_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples of Ashkenazi Jewish ancestry"> +##INFO=<ID=nhomalt_asj_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples of Ashkenazi Jewish ancestry"> +##INFO=<ID=controls_AC_nfe_male,Number=A,Type=Integer,Description="Alternate allele count for male samples of Non-Finnish European ancestry in the controls subset"> +##INFO=<ID=controls_AN_nfe_male,Number=1,Type=Integer,Description="Total number of alleles in male samples of Non-Finnish European ancestry in the controls subset"> +##INFO=<ID=controls_AF_nfe_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples of Non-Finnish European ancestry in the controls subset"> +##INFO=<ID=controls_nhomalt_nfe_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples of Non-Finnish European ancestry in the controls subset"> +##INFO=<ID=non_neuro_AC_fin,Number=A,Type=Integer,Description="Alternate allele count for samples of Finnish ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AN_fin,Number=1,Type=Integer,Description="Total number of alleles in samples of Finnish ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AF_fin,Number=A,Type=Float,Description="Alternate allele frequency in samples of Finnish ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_nhomalt_fin,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Finnish ancestry in the non_neuro subset"> +##INFO=<ID=AC_oth_female,Number=A,Type=Integer,Description="Alternate allele count for female samples of Other ancestry"> +##INFO=<ID=AN_oth_female,Number=1,Type=Integer,Description="Total number of alleles in female samples of Other ancestry"> +##INFO=<ID=AF_oth_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples of Other ancestry"> +##INFO=<ID=nhomalt_oth_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples of Other ancestry"> +##INFO=<ID=controls_AC_nfe,Number=A,Type=Integer,Description="Alternate allele count for samples of Non-Finnish European ancestry in the controls subset"> +##INFO=<ID=controls_AN_nfe,Number=1,Type=Integer,Description="Total number of alleles in samples of Non-Finnish European ancestry in the controls subset"> +##INFO=<ID=controls_AF_nfe,Number=A,Type=Float,Description="Alternate allele frequency in samples of Non-Finnish European ancestry in the controls subset"> +##INFO=<ID=controls_nhomalt_nfe,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Non-Finnish European ancestry in the controls subset"> +##INFO=<ID=controls_AC_oth_female,Number=A,Type=Integer,Description="Alternate allele count for female samples of Other ancestry in the controls subset"> +##INFO=<ID=controls_AN_oth_female,Number=1,Type=Integer,Description="Total number of alleles in female samples of Other ancestry in the controls subset"> +##INFO=<ID=controls_AF_oth_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples of Other ancestry in the controls subset"> +##INFO=<ID=controls_nhomalt_oth_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples of Other ancestry in the controls subset"> +##INFO=<ID=controls_AC_asj,Number=A,Type=Integer,Description="Alternate allele count for samples of Ashkenazi Jewish ancestry in the controls subset"> +##INFO=<ID=controls_AN_asj,Number=1,Type=Integer,Description="Total number of alleles in samples of Ashkenazi Jewish ancestry in the controls subset"> +##INFO=<ID=controls_AF_asj,Number=A,Type=Float,Description="Alternate allele frequency in samples of Ashkenazi Jewish ancestry in the controls subset"> +##INFO=<ID=controls_nhomalt_asj,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Ashkenazi Jewish ancestry in the controls subset"> +##INFO=<ID=non_neuro_AC_amr_male,Number=A,Type=Integer,Description="Alternate allele count for male samples of Latino ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AN_amr_male,Number=1,Type=Integer,Description="Total number of alleles in male samples of Latino ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AF_amr_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples of Latino ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_nhomalt_amr_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples of Latino ancestry in the non_neuro subset"> +##INFO=<ID=controls_AC_nfe_nwe,Number=A,Type=Integer,Description="Alternate allele count for samples of North-Western European ancestry in the controls subset"> +##INFO=<ID=controls_AN_nfe_nwe,Number=1,Type=Integer,Description="Total number of alleles in samples of North-Western European ancestry in the controls subset"> +##INFO=<ID=controls_AF_nfe_nwe,Number=A,Type=Float,Description="Alternate allele frequency in samples of North-Western European ancestry in the controls subset"> +##INFO=<ID=controls_nhomalt_nfe_nwe,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of North-Western European ancestry in the controls subset"> +##INFO=<ID=AC_nfe_nwe,Number=A,Type=Integer,Description="Alternate allele count for samples of North-Western European ancestry"> +##INFO=<ID=AN_nfe_nwe,Number=1,Type=Integer,Description="Total number of alleles in samples of North-Western European ancestry"> +##INFO=<ID=AF_nfe_nwe,Number=A,Type=Float,Description="Alternate allele frequency in samples of North-Western European ancestry"> +##INFO=<ID=nhomalt_nfe_nwe,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of North-Western European ancestry"> +##INFO=<ID=controls_AC_nfe_seu,Number=A,Type=Integer,Description="Alternate allele count for samples of Southern European ancestry in the controls subset"> +##INFO=<ID=controls_AN_nfe_seu,Number=1,Type=Integer,Description="Total number of alleles in samples of Southern European ancestry in the controls subset"> +##INFO=<ID=controls_AF_nfe_seu,Number=A,Type=Float,Description="Alternate allele frequency in samples of Southern European ancestry in the controls subset"> +##INFO=<ID=controls_nhomalt_nfe_seu,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Southern European ancestry in the controls subset"> +##INFO=<ID=non_neuro_AC_amr_female,Number=A,Type=Integer,Description="Alternate allele count for female samples of Latino ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AN_amr_female,Number=1,Type=Integer,Description="Total number of alleles in female samples of Latino ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AF_amr_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples of Latino ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_nhomalt_amr_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples of Latino ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AC_nfe_onf,Number=A,Type=Integer,Description="Alternate allele count for samples of Other Non-Finnish European ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AN_nfe_onf,Number=1,Type=Integer,Description="Total number of alleles in samples of Other Non-Finnish European ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AF_nfe_onf,Number=A,Type=Float,Description="Alternate allele frequency in samples of Other Non-Finnish European ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_nhomalt_nfe_onf,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Other Non-Finnish European ancestry in the non_neuro subset"> +##INFO=<ID=non_topmed_AC_eas_male,Number=A,Type=Integer,Description="Alternate allele count for male samples of East Asian ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AN_eas_male,Number=1,Type=Integer,Description="Total number of alleles in male samples of East Asian ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AF_eas_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples of East Asian ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_nhomalt_eas_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples of East Asian ancestry in the non_topmed subset"> +##INFO=<ID=controls_AC_amr_female,Number=A,Type=Integer,Description="Alternate allele count for female samples of Latino ancestry in the controls subset"> +##INFO=<ID=controls_AN_amr_female,Number=1,Type=Integer,Description="Total number of alleles in female samples of Latino ancestry in the controls subset"> +##INFO=<ID=controls_AF_amr_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples of Latino ancestry in the controls subset"> +##INFO=<ID=controls_nhomalt_amr_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples of Latino ancestry in the controls subset"> +##INFO=<ID=non_neuro_AC_fin_male,Number=A,Type=Integer,Description="Alternate allele count for male samples of Finnish ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AN_fin_male,Number=1,Type=Integer,Description="Total number of alleles in male samples of Finnish ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AF_fin_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples of Finnish ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_nhomalt_fin_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples of Finnish ancestry in the non_neuro subset"> +##INFO=<ID=AC_female,Number=A,Type=Integer,Description="Alternate allele count for female samples"> +##INFO=<ID=AN_female,Number=1,Type=Integer,Description="Total number of alleles in female samples"> +##INFO=<ID=AF_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples"> +##INFO=<ID=nhomalt_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples"> +##INFO=<ID=non_neuro_AC_oth_male,Number=A,Type=Integer,Description="Alternate allele count for male samples of Other ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AN_oth_male,Number=1,Type=Integer,Description="Total number of alleles in male samples of Other ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AF_oth_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples of Other ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_nhomalt_oth_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples of Other ancestry in the non_neuro subset"> +##INFO=<ID=non_topmed_AC_nfe_est,Number=A,Type=Integer,Description="Alternate allele count for samples of Estonian ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AN_nfe_est,Number=1,Type=Integer,Description="Total number of alleles in samples of Estonian ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AF_nfe_est,Number=A,Type=Float,Description="Alternate allele frequency in samples of Estonian ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_nhomalt_nfe_est,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Estonian ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AC_nfe_nwe,Number=A,Type=Integer,Description="Alternate allele count for samples of North-Western European ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AN_nfe_nwe,Number=1,Type=Integer,Description="Total number of alleles in samples of North-Western European ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AF_nfe_nwe,Number=A,Type=Float,Description="Alternate allele frequency in samples of North-Western European ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_nhomalt_nfe_nwe,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of North-Western European ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AC_amr_male,Number=A,Type=Integer,Description="Alternate allele count for male samples of Latino ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AN_amr_male,Number=1,Type=Integer,Description="Total number of alleles in male samples of Latino ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AF_amr_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples of Latino ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_nhomalt_amr_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples of Latino ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AC_nfe_onf,Number=A,Type=Integer,Description="Alternate allele count for samples of Other Non-Finnish European ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AN_nfe_onf,Number=1,Type=Integer,Description="Total number of alleles in samples of Other Non-Finnish European ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AF_nfe_onf,Number=A,Type=Float,Description="Alternate allele frequency in samples of Other Non-Finnish European ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_nhomalt_nfe_onf,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Other Non-Finnish European ancestry in the non_topmed subset"> +##INFO=<ID=controls_AC_eas_male,Number=A,Type=Integer,Description="Alternate allele count for male samples of East Asian ancestry in the controls subset"> +##INFO=<ID=controls_AN_eas_male,Number=1,Type=Integer,Description="Total number of alleles in male samples of East Asian ancestry in the controls subset"> +##INFO=<ID=controls_AF_eas_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples of East Asian ancestry in the controls subset"> +##INFO=<ID=controls_nhomalt_eas_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples of East Asian ancestry in the controls subset"> +##INFO=<ID=controls_AC_oth_male,Number=A,Type=Integer,Description="Alternate allele count for male samples of Other ancestry in the controls subset"> +##INFO=<ID=controls_AN_oth_male,Number=1,Type=Integer,Description="Total number of alleles in male samples of Other ancestry in the controls subset"> +##INFO=<ID=controls_AF_oth_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples of Other ancestry in the controls subset"> +##INFO=<ID=controls_nhomalt_oth_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples of Other ancestry in the controls subset"> +##INFO=<ID=non_topmed_AC,Number=A,Type=Integer,Description="Alternate allele count for samples in the non_topmed subset"> +##INFO=<ID=non_topmed_AN,Number=1,Type=Integer,Description="Total number of alleles in samples in the non_topmed subset"> +##INFO=<ID=non_topmed_AF,Number=A,Type=Float,Description="Alternate allele frequency in samples in the non_topmed subset"> +##INFO=<ID=non_topmed_nhomalt,Number=A,Type=Integer,Description="Count of homozygous individuals in samples in the non_topmed subset"> +##INFO=<ID=controls_AC_fin,Number=A,Type=Integer,Description="Alternate allele count for samples of Finnish ancestry in the controls subset"> +##INFO=<ID=controls_AN_fin,Number=1,Type=Integer,Description="Total number of alleles in samples of Finnish ancestry in the controls subset"> +##INFO=<ID=controls_AF_fin,Number=A,Type=Float,Description="Alternate allele frequency in samples of Finnish ancestry in the controls subset"> +##INFO=<ID=controls_nhomalt_fin,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Finnish ancestry in the controls subset"> +##INFO=<ID=non_neuro_AC_nfe,Number=A,Type=Integer,Description="Alternate allele count for samples of Non-Finnish European ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AN_nfe,Number=1,Type=Integer,Description="Total number of alleles in samples of Non-Finnish European ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AF_nfe,Number=A,Type=Float,Description="Alternate allele frequency in samples of Non-Finnish European ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_nhomalt_nfe,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Non-Finnish European ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AC_fin_female,Number=A,Type=Integer,Description="Alternate allele count for female samples of Finnish ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AN_fin_female,Number=1,Type=Integer,Description="Total number of alleles in female samples of Finnish ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AF_fin_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples of Finnish ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_nhomalt_fin_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples of Finnish ancestry in the non_neuro subset"> +##INFO=<ID=non_topmed_AC_nfe_seu,Number=A,Type=Integer,Description="Alternate allele count for samples of Southern European ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AN_nfe_seu,Number=1,Type=Integer,Description="Total number of alleles in samples of Southern European ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AF_nfe_seu,Number=A,Type=Float,Description="Alternate allele frequency in samples of Southern European ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_nhomalt_nfe_seu,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Southern European ancestry in the non_topmed subset"> +##INFO=<ID=controls_AC_eas_female,Number=A,Type=Integer,Description="Alternate allele count for female samples of East Asian ancestry in the controls subset"> +##INFO=<ID=controls_AN_eas_female,Number=1,Type=Integer,Description="Total number of alleles in female samples of East Asian ancestry in the controls subset"> +##INFO=<ID=controls_AF_eas_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples of East Asian ancestry in the controls subset"> +##INFO=<ID=controls_nhomalt_eas_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples of East Asian ancestry in the controls subset"> +##INFO=<ID=non_topmed_AC_asj,Number=A,Type=Integer,Description="Alternate allele count for samples of Ashkenazi Jewish ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AN_asj,Number=1,Type=Integer,Description="Total number of alleles in samples of Ashkenazi Jewish ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AF_asj,Number=A,Type=Float,Description="Alternate allele frequency in samples of Ashkenazi Jewish ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_nhomalt_asj,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Ashkenazi Jewish ancestry in the non_topmed subset"> +##INFO=<ID=controls_AC_nfe_onf,Number=A,Type=Integer,Description="Alternate allele count for samples of Other Non-Finnish European ancestry in the controls subset"> +##INFO=<ID=controls_AN_nfe_onf,Number=1,Type=Integer,Description="Total number of alleles in samples of Other Non-Finnish European ancestry in the controls subset"> +##INFO=<ID=controls_AF_nfe_onf,Number=A,Type=Float,Description="Alternate allele frequency in samples of Other Non-Finnish European ancestry in the controls subset"> +##INFO=<ID=controls_nhomalt_nfe_onf,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Other Non-Finnish European ancestry in the controls subset"> +##INFO=<ID=non_neuro_AC,Number=A,Type=Integer,Description="Alternate allele count for samples in the non_neuro subset"> +##INFO=<ID=non_neuro_AN,Number=1,Type=Integer,Description="Total number of alleles in samples in the non_neuro subset"> +##INFO=<ID=non_neuro_AF,Number=A,Type=Float,Description="Alternate allele frequency in samples in the non_neuro subset"> +##INFO=<ID=non_neuro_nhomalt,Number=A,Type=Integer,Description="Count of homozygous individuals in samples in the non_neuro subset"> +##INFO=<ID=non_topmed_AC_nfe,Number=A,Type=Integer,Description="Alternate allele count for samples of Non-Finnish European ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AN_nfe,Number=1,Type=Integer,Description="Total number of alleles in samples of Non-Finnish European ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AF_nfe,Number=A,Type=Float,Description="Alternate allele frequency in samples of Non-Finnish European ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_nhomalt_nfe,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Non-Finnish European ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AC_raw,Number=A,Type=Integer,Description="Alternate allele count for samples in the non_topmed subset, before removing low-confidence genotypes"> +##INFO=<ID=non_topmed_AN_raw,Number=1,Type=Integer,Description="Total number of alleles in samples in the non_topmed subset, before removing low-confidence genotypes"> +##INFO=<ID=non_topmed_AF_raw,Number=A,Type=Float,Description="Alternate allele frequency in samples in the non_topmed subset, before removing low-confidence genotypes"> +##INFO=<ID=non_topmed_nhomalt_raw,Number=A,Type=Integer,Description="Count of homozygous individuals in samples in the non_topmed subset, before removing low-confidence genotypes"> +##INFO=<ID=non_neuro_AC_nfe_est,Number=A,Type=Integer,Description="Alternate allele count for samples of Estonian ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AN_nfe_est,Number=1,Type=Integer,Description="Total number of alleles in samples of Estonian ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AF_nfe_est,Number=A,Type=Float,Description="Alternate allele frequency in samples of Estonian ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_nhomalt_nfe_est,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Estonian ancestry in the non_neuro subset"> +##INFO=<ID=non_topmed_AC_oth_male,Number=A,Type=Integer,Description="Alternate allele count for male samples of Other ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AN_oth_male,Number=1,Type=Integer,Description="Total number of alleles in male samples of Other ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AF_oth_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples of Other ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_nhomalt_oth_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples of Other ancestry in the non_topmed subset"> +##INFO=<ID=AC_nfe_est,Number=A,Type=Integer,Description="Alternate allele count for samples of Estonian ancestry"> +##INFO=<ID=AN_nfe_est,Number=1,Type=Integer,Description="Total number of alleles in samples of Estonian ancestry"> +##INFO=<ID=AF_nfe_est,Number=A,Type=Float,Description="Alternate allele frequency in samples of Estonian ancestry"> +##INFO=<ID=nhomalt_nfe_est,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Estonian ancestry"> +##INFO=<ID=non_topmed_AC_afr_male,Number=A,Type=Integer,Description="Alternate allele count for male samples of African-American/African ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AN_afr_male,Number=1,Type=Integer,Description="Total number of alleles in male samples of African-American/African ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AF_afr_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples of African-American/African ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_nhomalt_afr_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples of African-American/African ancestry in the non_topmed subset"> +##INFO=<ID=AC_eas_male,Number=A,Type=Integer,Description="Alternate allele count for male samples of East Asian ancestry"> +##INFO=<ID=AN_eas_male,Number=1,Type=Integer,Description="Total number of alleles in male samples of East Asian ancestry"> +##INFO=<ID=AF_eas_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples of East Asian ancestry"> +##INFO=<ID=nhomalt_eas_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples of East Asian ancestry"> +##INFO=<ID=controls_AC_eas,Number=A,Type=Integer,Description="Alternate allele count for samples of East Asian ancestry in the controls subset"> +##INFO=<ID=controls_AN_eas,Number=1,Type=Integer,Description="Total number of alleles in samples of East Asian ancestry in the controls subset"> +##INFO=<ID=controls_AF_eas,Number=A,Type=Float,Description="Alternate allele frequency in samples of East Asian ancestry in the controls subset"> +##INFO=<ID=controls_nhomalt_eas,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of East Asian ancestry in the controls subset"> +##INFO=<ID=non_neuro_AC_eas_male,Number=A,Type=Integer,Description="Alternate allele count for male samples of East Asian ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AN_eas_male,Number=1,Type=Integer,Description="Total number of alleles in male samples of East Asian ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AF_eas_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples of East Asian ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_nhomalt_eas_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples of East Asian ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AC_asj_male,Number=A,Type=Integer,Description="Alternate allele count for male samples of Ashkenazi Jewish ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AN_asj_male,Number=1,Type=Integer,Description="Total number of alleles in male samples of Ashkenazi Jewish ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AF_asj_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples of Ashkenazi Jewish ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_nhomalt_asj_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples of Ashkenazi Jewish ancestry in the non_neuro subset"> +##INFO=<ID=controls_AC_oth,Number=A,Type=Integer,Description="Alternate allele count for samples of Other ancestry in the controls subset"> +##INFO=<ID=controls_AN_oth,Number=1,Type=Integer,Description="Total number of alleles in samples of Other ancestry in the controls subset"> +##INFO=<ID=controls_AF_oth,Number=A,Type=Float,Description="Alternate allele frequency in samples of Other ancestry in the controls subset"> +##INFO=<ID=controls_nhomalt_oth,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Other ancestry in the controls subset"> +##INFO=<ID=AC_nfe,Number=A,Type=Integer,Description="Alternate allele count for samples of Non-Finnish European ancestry"> +##INFO=<ID=AN_nfe,Number=1,Type=Integer,Description="Total number of alleles in samples of Non-Finnish European ancestry"> +##INFO=<ID=AF_nfe,Number=A,Type=Float,Description="Alternate allele frequency in samples of Non-Finnish European ancestry"> +##INFO=<ID=nhomalt_nfe,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Non-Finnish European ancestry"> +##INFO=<ID=non_topmed_AC_female,Number=A,Type=Integer,Description="Alternate allele count for female samples in the non_topmed subset"> +##INFO=<ID=non_topmed_AN_female,Number=1,Type=Integer,Description="Total number of alleles in female samples in the non_topmed subset"> +##INFO=<ID=non_topmed_AF_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples in the non_topmed subset"> +##INFO=<ID=non_topmed_nhomalt_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples in the non_topmed subset"> +##INFO=<ID=non_neuro_AC_asj,Number=A,Type=Integer,Description="Alternate allele count for samples of Ashkenazi Jewish ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AN_asj,Number=1,Type=Integer,Description="Total number of alleles in samples of Ashkenazi Jewish ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AF_asj,Number=A,Type=Float,Description="Alternate allele frequency in samples of Ashkenazi Jewish ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_nhomalt_asj,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Ashkenazi Jewish ancestry in the non_neuro subset"> +##INFO=<ID=non_topmed_AC_eas_female,Number=A,Type=Integer,Description="Alternate allele count for female samples of East Asian ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AN_eas_female,Number=1,Type=Integer,Description="Total number of alleles in female samples of East Asian ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AF_eas_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples of East Asian ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_nhomalt_eas_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples of East Asian ancestry in the non_topmed subset"> +##INFO=<ID=non_neuro_AC_raw,Number=A,Type=Integer,Description="Alternate allele count for samples in the non_neuro subset, before removing low-confidence genotypes"> +##INFO=<ID=non_neuro_AN_raw,Number=1,Type=Integer,Description="Total number of alleles in samples in the non_neuro subset, before removing low-confidence genotypes"> +##INFO=<ID=non_neuro_AF_raw,Number=A,Type=Float,Description="Alternate allele frequency in samples in the non_neuro subset, before removing low-confidence genotypes"> +##INFO=<ID=non_neuro_nhomalt_raw,Number=A,Type=Integer,Description="Count of homozygous individuals in samples in the non_neuro subset, before removing low-confidence genotypes"> +##INFO=<ID=non_topmed_AC_eas,Number=A,Type=Integer,Description="Alternate allele count for samples of East Asian ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AN_eas,Number=1,Type=Integer,Description="Total number of alleles in samples of East Asian ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AF_eas,Number=A,Type=Float,Description="Alternate allele frequency in samples of East Asian ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_nhomalt_eas,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of East Asian ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AC_fin_male,Number=A,Type=Integer,Description="Alternate allele count for male samples of Finnish ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AN_fin_male,Number=1,Type=Integer,Description="Total number of alleles in male samples of Finnish ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AF_fin_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples of Finnish ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_nhomalt_fin_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples of Finnish ancestry in the non_topmed subset"> +##INFO=<ID=AC_fin,Number=A,Type=Integer,Description="Alternate allele count for samples of Finnish ancestry"> +##INFO=<ID=AN_fin,Number=1,Type=Integer,Description="Total number of alleles in samples of Finnish ancestry"> +##INFO=<ID=AF_fin,Number=A,Type=Float,Description="Alternate allele frequency in samples of Finnish ancestry"> +##INFO=<ID=nhomalt_fin,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Finnish ancestry"> +##INFO=<ID=AC_nfe_male,Number=A,Type=Integer,Description="Alternate allele count for male samples of Non-Finnish European ancestry"> +##INFO=<ID=AN_nfe_male,Number=1,Type=Integer,Description="Total number of alleles in male samples of Non-Finnish European ancestry"> +##INFO=<ID=AF_nfe_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples of Non-Finnish European ancestry"> +##INFO=<ID=nhomalt_nfe_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples of Non-Finnish European ancestry"> +##INFO=<ID=controls_AC_amr_male,Number=A,Type=Integer,Description="Alternate allele count for male samples of Latino ancestry in the controls subset"> +##INFO=<ID=controls_AN_amr_male,Number=1,Type=Integer,Description="Total number of alleles in male samples of Latino ancestry in the controls subset"> +##INFO=<ID=controls_AF_amr_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples of Latino ancestry in the controls subset"> +##INFO=<ID=controls_nhomalt_amr_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples of Latino ancestry in the controls subset"> +##INFO=<ID=controls_AC_afr_female,Number=A,Type=Integer,Description="Alternate allele count for female samples of African-American/African ancestry in the controls subset"> +##INFO=<ID=controls_AN_afr_female,Number=1,Type=Integer,Description="Total number of alleles in female samples of African-American/African ancestry in the controls subset"> +##INFO=<ID=controls_AF_afr_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples of African-American/African ancestry in the controls subset"> +##INFO=<ID=controls_nhomalt_afr_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples of African-American/African ancestry in the controls subset"> +##INFO=<ID=controls_AC_amr,Number=A,Type=Integer,Description="Alternate allele count for samples of Latino ancestry in the controls subset"> +##INFO=<ID=controls_AN_amr,Number=1,Type=Integer,Description="Total number of alleles in samples of Latino ancestry in the controls subset"> +##INFO=<ID=controls_AF_amr,Number=A,Type=Float,Description="Alternate allele frequency in samples of Latino ancestry in the controls subset"> +##INFO=<ID=controls_nhomalt_amr,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Latino ancestry in the controls subset"> +##INFO=<ID=AC_asj_female,Number=A,Type=Integer,Description="Alternate allele count for female samples of Ashkenazi Jewish ancestry"> +##INFO=<ID=AN_asj_female,Number=1,Type=Integer,Description="Total number of alleles in female samples of Ashkenazi Jewish ancestry"> +##INFO=<ID=AF_asj_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples of Ashkenazi Jewish ancestry"> +##INFO=<ID=nhomalt_asj_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples of Ashkenazi Jewish ancestry"> +##INFO=<ID=non_neuro_AC_eas,Number=A,Type=Integer,Description="Alternate allele count for samples of East Asian ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AN_eas,Number=1,Type=Integer,Description="Total number of alleles in samples of East Asian ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AF_eas,Number=A,Type=Float,Description="Alternate allele frequency in samples of East Asian ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_nhomalt_eas,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of East Asian ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AC_male,Number=A,Type=Integer,Description="Alternate allele count for male samples in the non_neuro subset"> +##INFO=<ID=non_neuro_AN_male,Number=1,Type=Integer,Description="Total number of alleles in male samples in the non_neuro subset"> +##INFO=<ID=non_neuro_AF_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples in the non_neuro subset"> +##INFO=<ID=non_neuro_nhomalt_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples in the non_neuro subset"> +##INFO=<ID=AC_asj,Number=A,Type=Integer,Description="Alternate allele count for samples of Ashkenazi Jewish ancestry"> +##INFO=<ID=AN_asj,Number=1,Type=Integer,Description="Total number of alleles in samples of Ashkenazi Jewish ancestry"> +##INFO=<ID=AF_asj,Number=A,Type=Float,Description="Alternate allele frequency in samples of Ashkenazi Jewish ancestry"> +##INFO=<ID=nhomalt_asj,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Ashkenazi Jewish ancestry"> +##INFO=<ID=controls_AC_nfe_est,Number=A,Type=Integer,Description="Alternate allele count for samples of Estonian ancestry in the controls subset"> +##INFO=<ID=controls_AN_nfe_est,Number=1,Type=Integer,Description="Total number of alleles in samples of Estonian ancestry in the controls subset"> +##INFO=<ID=controls_AF_nfe_est,Number=A,Type=Float,Description="Alternate allele frequency in samples of Estonian ancestry in the controls subset"> +##INFO=<ID=controls_nhomalt_nfe_est,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Estonian ancestry in the controls subset"> +##INFO=<ID=non_topmed_AC_asj_female,Number=A,Type=Integer,Description="Alternate allele count for female samples of Ashkenazi Jewish ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AN_asj_female,Number=1,Type=Integer,Description="Total number of alleles in female samples of Ashkenazi Jewish ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AF_asj_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples of Ashkenazi Jewish ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_nhomalt_asj_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples of Ashkenazi Jewish ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AC_oth,Number=A,Type=Integer,Description="Alternate allele count for samples of Other ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AN_oth,Number=1,Type=Integer,Description="Total number of alleles in samples of Other ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AF_oth,Number=A,Type=Float,Description="Alternate allele frequency in samples of Other ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_nhomalt_oth,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Other ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AC_fin_female,Number=A,Type=Integer,Description="Alternate allele count for female samples of Finnish ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AN_fin_female,Number=1,Type=Integer,Description="Total number of alleles in female samples of Finnish ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AF_fin_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples of Finnish ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_nhomalt_fin_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples of Finnish ancestry in the non_topmed subset"> +##INFO=<ID=AC_oth,Number=A,Type=Integer,Description="Alternate allele count for samples of Other ancestry"> +##INFO=<ID=AN_oth,Number=1,Type=Integer,Description="Total number of alleles in samples of Other ancestry"> +##INFO=<ID=AF_oth,Number=A,Type=Float,Description="Alternate allele frequency in samples of Other ancestry"> +##INFO=<ID=nhomalt_oth,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Other ancestry"> +##INFO=<ID=non_neuro_AC_nfe_male,Number=A,Type=Integer,Description="Alternate allele count for male samples of Non-Finnish European ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AN_nfe_male,Number=1,Type=Integer,Description="Total number of alleles in male samples of Non-Finnish European ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AF_nfe_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples of Non-Finnish European ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_nhomalt_nfe_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples of Non-Finnish European ancestry in the non_neuro subset"> +##INFO=<ID=controls_AC_female,Number=A,Type=Integer,Description="Alternate allele count for female samples in the controls subset"> +##INFO=<ID=controls_AN_female,Number=1,Type=Integer,Description="Total number of alleles in female samples in the controls subset"> +##INFO=<ID=controls_AF_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples in the controls subset"> +##INFO=<ID=controls_nhomalt_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples in the controls subset"> +##INFO=<ID=non_topmed_AC_fin,Number=A,Type=Integer,Description="Alternate allele count for samples of Finnish ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AN_fin,Number=1,Type=Integer,Description="Total number of alleles in samples of Finnish ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AF_fin,Number=A,Type=Float,Description="Alternate allele frequency in samples of Finnish ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_nhomalt_fin,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Finnish ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AC_nfe_female,Number=A,Type=Integer,Description="Alternate allele count for female samples of Non-Finnish European ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AN_nfe_female,Number=1,Type=Integer,Description="Total number of alleles in female samples of Non-Finnish European ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AF_nfe_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples of Non-Finnish European ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_nhomalt_nfe_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples of Non-Finnish European ancestry in the non_topmed subset"> +##INFO=<ID=controls_AC_asj_male,Number=A,Type=Integer,Description="Alternate allele count for male samples of Ashkenazi Jewish ancestry in the controls subset"> +##INFO=<ID=controls_AN_asj_male,Number=1,Type=Integer,Description="Total number of alleles in male samples of Ashkenazi Jewish ancestry in the controls subset"> +##INFO=<ID=controls_AF_asj_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples of Ashkenazi Jewish ancestry in the controls subset"> +##INFO=<ID=controls_nhomalt_asj_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples of Ashkenazi Jewish ancestry in the controls subset"> +##INFO=<ID=non_topmed_AC_asj_male,Number=A,Type=Integer,Description="Alternate allele count for male samples of Ashkenazi Jewish ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AN_asj_male,Number=1,Type=Integer,Description="Total number of alleles in male samples of Ashkenazi Jewish ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AF_asj_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples of Ashkenazi Jewish ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_nhomalt_asj_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples of Ashkenazi Jewish ancestry in the non_topmed subset"> +##INFO=<ID=non_neuro_AC_oth,Number=A,Type=Integer,Description="Alternate allele count for samples of Other ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AN_oth,Number=1,Type=Integer,Description="Total number of alleles in samples of Other ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AF_oth,Number=A,Type=Float,Description="Alternate allele frequency in samples of Other ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_nhomalt_oth,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Other ancestry in the non_neuro subset"> +##INFO=<ID=AC_male,Number=A,Type=Integer,Description="Alternate allele count for male samples"> +##INFO=<ID=AN_male,Number=1,Type=Integer,Description="Total number of alleles in male samples"> +##INFO=<ID=AF_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples"> +##INFO=<ID=nhomalt_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples"> +##INFO=<ID=controls_AC_fin_female,Number=A,Type=Integer,Description="Alternate allele count for female samples of Finnish ancestry in the controls subset"> +##INFO=<ID=controls_AN_fin_female,Number=1,Type=Integer,Description="Total number of alleles in female samples of Finnish ancestry in the controls subset"> +##INFO=<ID=controls_AF_fin_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples of Finnish ancestry in the controls subset"> +##INFO=<ID=controls_nhomalt_fin_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples of Finnish ancestry in the controls subset"> +##INFO=<ID=controls_AC_asj_female,Number=A,Type=Integer,Description="Alternate allele count for female samples of Ashkenazi Jewish ancestry in the controls subset"> +##INFO=<ID=controls_AN_asj_female,Number=1,Type=Integer,Description="Total number of alleles in female samples of Ashkenazi Jewish ancestry in the controls subset"> +##INFO=<ID=controls_AF_asj_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples of Ashkenazi Jewish ancestry in the controls subset"> +##INFO=<ID=controls_nhomalt_asj_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples of Ashkenazi Jewish ancestry in the controls subset"> +##INFO=<ID=AC_amr_male,Number=A,Type=Integer,Description="Alternate allele count for male samples of Latino ancestry"> +##INFO=<ID=AN_amr_male,Number=1,Type=Integer,Description="Total number of alleles in male samples of Latino ancestry"> +##INFO=<ID=AF_amr_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples of Latino ancestry"> +##INFO=<ID=nhomalt_amr_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples of Latino ancestry"> +##INFO=<ID=AC_amr_female,Number=A,Type=Integer,Description="Alternate allele count for female samples of Latino ancestry"> +##INFO=<ID=AN_amr_female,Number=1,Type=Integer,Description="Total number of alleles in female samples of Latino ancestry"> +##INFO=<ID=AF_amr_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples of Latino ancestry"> +##INFO=<ID=nhomalt_amr_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples of Latino ancestry"> +##INFO=<ID=AC_oth_male,Number=A,Type=Integer,Description="Alternate allele count for male samples of Other ancestry"> +##INFO=<ID=AN_oth_male,Number=1,Type=Integer,Description="Total number of alleles in male samples of Other ancestry"> +##INFO=<ID=AF_oth_male,Number=A,Type=Float,Description="Alternate allele frequency in male samples of Other ancestry"> +##INFO=<ID=nhomalt_oth_male,Number=A,Type=Integer,Description="Count of homozygous individuals in male samples of Other ancestry"> +##INFO=<ID=non_neuro_AC_nfe_seu,Number=A,Type=Integer,Description="Alternate allele count for samples of Southern European ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AN_nfe_seu,Number=1,Type=Integer,Description="Total number of alleles in samples of Southern European ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AF_nfe_seu,Number=A,Type=Float,Description="Alternate allele frequency in samples of Southern European ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_nhomalt_nfe_seu,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of Southern European ancestry in the non_neuro subset"> +##INFO=<ID=non_topmed_AC_afr_female,Number=A,Type=Integer,Description="Alternate allele count for female samples of African-American/African ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AN_afr_female,Number=1,Type=Integer,Description="Total number of alleles in female samples of African-American/African ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AF_afr_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples of African-American/African ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_nhomalt_afr_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples of African-American/African ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AC_afr,Number=A,Type=Integer,Description="Alternate allele count for samples of African-American/African ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AN_afr,Number=1,Type=Integer,Description="Total number of alleles in samples of African-American/African ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_AF_afr,Number=A,Type=Float,Description="Alternate allele frequency in samples of African-American/African ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_nhomalt_afr,Number=A,Type=Integer,Description="Count of homozygous individuals in samples of African-American/African ancestry in the non_topmed subset"> +##INFO=<ID=controls_AC,Number=A,Type=Integer,Description="Alternate allele count for samples in the controls subset"> +##INFO=<ID=controls_AN,Number=1,Type=Integer,Description="Total number of alleles in samples in the controls subset"> +##INFO=<ID=controls_AF,Number=A,Type=Float,Description="Alternate allele frequency in samples in the controls subset"> +##INFO=<ID=controls_nhomalt,Number=A,Type=Integer,Description="Count of homozygous individuals in samples in the controls subset"> +##INFO=<ID=non_neuro_AC_oth_female,Number=A,Type=Integer,Description="Alternate allele count for female samples of Other ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AN_oth_female,Number=1,Type=Integer,Description="Total number of alleles in female samples of Other ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_AF_oth_female,Number=A,Type=Float,Description="Alternate allele frequency in female samples of Other ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_nhomalt_oth_female,Number=A,Type=Integer,Description="Count of homozygous individuals in female samples of Other ancestry in the non_neuro subset"> +##INFO=<ID=non_topmed_faf95_amr,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 95% CI) for samples of Latino ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_faf99_amr,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 99% CI) for samples of Latino ancestry in the non_topmed subset"> +##INFO=<ID=faf95_afr,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 95% CI) for samples of African-American/African ancestry"> +##INFO=<ID=faf99_afr,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 99% CI) for samples of African-American/African ancestry"> +##INFO=<ID=controls_faf95_afr,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 95% CI) for samples of African-American/African ancestry in the controls subset"> +##INFO=<ID=controls_faf99_afr,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 99% CI) for samples of African-American/African ancestry in the controls subset"> +##INFO=<ID=faf95_amr,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 95% CI) for samples of Latino ancestry"> +##INFO=<ID=faf99_amr,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 99% CI) for samples of Latino ancestry"> +##INFO=<ID=faf95_eas,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 95% CI) for samples of East Asian ancestry"> +##INFO=<ID=faf99_eas,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 99% CI) for samples of East Asian ancestry"> +##INFO=<ID=faf95,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 95% CI) for samples"> +##INFO=<ID=faf99,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 99% CI) for samples"> +##INFO=<ID=non_neuro_faf95_afr,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 95% CI) for samples of African-American/African ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_faf99_afr,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 99% CI) for samples of African-American/African ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_faf95_amr,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 95% CI) for samples of Latino ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_faf99_amr,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 99% CI) for samples of Latino ancestry in the non_neuro subset"> +##INFO=<ID=controls_faf95_nfe,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 95% CI) for samples of Non-Finnish European ancestry in the controls subset"> +##INFO=<ID=controls_faf99_nfe,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 99% CI) for samples of Non-Finnish European ancestry in the controls subset"> +##INFO=<ID=non_topmed_faf95,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 95% CI) for samples in the non_topmed subset"> +##INFO=<ID=non_topmed_faf99,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 99% CI) for samples in the non_topmed subset"> +##INFO=<ID=non_neuro_faf95_nfe,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 95% CI) for samples of Non-Finnish European ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_faf99_nfe,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 99% CI) for samples of Non-Finnish European ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_faf95,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 95% CI) for samples in the non_neuro subset"> +##INFO=<ID=non_neuro_faf99,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 99% CI) for samples in the non_neuro subset"> +##INFO=<ID=non_topmed_faf95_nfe,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 95% CI) for samples of Non-Finnish European ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_faf99_nfe,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 99% CI) for samples of Non-Finnish European ancestry in the non_topmed subset"> +##INFO=<ID=controls_faf95_eas,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 95% CI) for samples of East Asian ancestry in the controls subset"> +##INFO=<ID=controls_faf99_eas,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 99% CI) for samples of East Asian ancestry in the controls subset"> +##INFO=<ID=faf95_nfe,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 95% CI) for samples of Non-Finnish European ancestry"> +##INFO=<ID=faf99_nfe,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 99% CI) for samples of Non-Finnish European ancestry"> +##INFO=<ID=non_topmed_faf95_eas,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 95% CI) for samples of East Asian ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_faf99_eas,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 99% CI) for samples of East Asian ancestry in the non_topmed subset"> +##INFO=<ID=controls_faf95_amr,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 95% CI) for samples of Latino ancestry in the controls subset"> +##INFO=<ID=controls_faf99_amr,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 99% CI) for samples of Latino ancestry in the controls subset"> +##INFO=<ID=non_neuro_faf95_eas,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 95% CI) for samples of East Asian ancestry in the non_neuro subset"> +##INFO=<ID=non_neuro_faf99_eas,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 99% CI) for samples of East Asian ancestry in the non_neuro subset"> +##INFO=<ID=non_topmed_faf95_afr,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 95% CI) for samples of African-American/African ancestry in the non_topmed subset"> +##INFO=<ID=non_topmed_faf99_afr,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 99% CI) for samples of African-American/African ancestry in the non_topmed subset"> +##INFO=<ID=controls_faf95,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 95% CI) for samples in the controls subset"> +##INFO=<ID=controls_faf99,Number=A,Type=Float,Description="Filtering allele frequency (using Poisson 99% CI) for samples in the controls subset"> +##INFO=<ID=controls_popmax,Number=A,Type=String,Description="Population with maximum AF in the controls subset"> +##INFO=<ID=controls_AC_popmax,Number=A,Type=Integer,Description="Allele count in the population with the maximum AF in the controls subset"> +##INFO=<ID=controls_AN_popmax,Number=A,Type=Integer,Description="Total number of alleles in the population with the maximum AF in the controls subset"> +##INFO=<ID=controls_AF_popmax,Number=A,Type=Float,Description="Maximum allele frequency across populations (excluding samples of Ashkenazi, Finnish, and indeterminate ancestry) in the controls subset"> +##INFO=<ID=controls_nhomalt_popmax,Number=A,Type=Integer,Description="Count of homozygous individuals in the population with the maximum allele frequency in the controls subset"> +##INFO=<ID=popmax,Number=A,Type=String,Description="Population with maximum AF"> +##INFO=<ID=AC_popmax,Number=A,Type=Integer,Description="Allele count in the population with the maximum AF"> +##INFO=<ID=AN_popmax,Number=A,Type=Integer,Description="Total number of alleles in the population with the maximum AF"> +##INFO=<ID=AF_popmax,Number=A,Type=Float,Description="Maximum allele frequency across populations (excluding samples of Ashkenazi, Finnish, and indeterminate ancestry)"> +##INFO=<ID=nhomalt_popmax,Number=A,Type=Integer,Description="Count of homozygous individuals in the population with the maximum allele frequency"> +##INFO=<ID=age_hist_het_bin_freq,Number=A,Type=String,Description="Histogram of ages of heterozygous individuals; bin edges are: 30.0|35.0|40.0|45.0|50.0|55.0|60.0|65.0|70.0|75.0|80.0; total number of individuals of any genotype bin: 2522|623|663|923|1363|1666|1254|1001|640|362|154|70"> +##INFO=<ID=age_hist_het_n_smaller,Number=A,Type=Integer,Description="Count of age values falling below lowest histogram bin edge for heterozygous individuals"> +##INFO=<ID=age_hist_het_n_larger,Number=A,Type=Integer,Description="Count of age values falling above highest histogram bin edge for heterozygous individuals"> +##INFO=<ID=age_hist_hom_bin_freq,Number=A,Type=String,Description="Histogram of ages of homozygous alternate individuals; bin edges are: 30.0|35.0|40.0|45.0|50.0|55.0|60.0|65.0|70.0|75.0|80.0; total number of individuals of any genotype bin: 2522|623|663|923|1363|1666|1254|1001|640|362|154|70"> +##INFO=<ID=age_hist_hom_n_smaller,Number=A,Type=Integer,Description="Count of age values falling below lowest histogram bin edge for homozygous alternate individuals"> +##INFO=<ID=age_hist_hom_n_larger,Number=A,Type=Integer,Description="Count of age values falling above highest histogram bin edge for homozygous alternate individuals"> +##INFO=<ID=non_neuro_popmax,Number=A,Type=String,Description="Population with maximum AF in the non_neuro subset"> +##INFO=<ID=non_neuro_AC_popmax,Number=A,Type=Integer,Description="Allele count in the population with the maximum AF in the non_neuro subset"> +##INFO=<ID=non_neuro_AN_popmax,Number=A,Type=Integer,Description="Total number of alleles in the population with the maximum AF in the non_neuro subset"> +##INFO=<ID=non_neuro_AF_popmax,Number=A,Type=Float,Description="Maximum allele frequency across populations (excluding samples of Ashkenazi, Finnish, and indeterminate ancestry) in the non_neuro subset"> +##INFO=<ID=non_neuro_nhomalt_popmax,Number=A,Type=Integer,Description="Count of homozygous individuals in the population with the maximum allele frequency in the non_neuro subset"> +##INFO=<ID=non_topmed_popmax,Number=A,Type=String,Description="Population with maximum AF in the non_topmed subset"> +##INFO=<ID=non_topmed_AC_popmax,Number=A,Type=Integer,Description="Allele count in the population with the maximum AF in the non_topmed subset"> +##INFO=<ID=non_topmed_AN_popmax,Number=A,Type=Integer,Description="Total number of alleles in the population with the maximum AF in the non_topmed subset"> +##INFO=<ID=non_topmed_AF_popmax,Number=A,Type=Float,Description="Maximum allele frequency across populations (excluding samples of Ashkenazi, Finnish, and indeterminate ancestry) in the non_topmed subset"> +##INFO=<ID=non_topmed_nhomalt_popmax,Number=A,Type=Integer,Description="Count of homozygous individuals in the population with the maximum allele frequency in the non_topmed subset"> +##INFO=<ID=vep,Number=.,Type=String,Description="Consequence annotations from Ensembl VEP. Format: Allele|Consequence|IMPACT|SYMBOL|Gene|Feature_type|Feature|BIOTYPE|EXON|INTRON|HGVSc|HGVSp|cDNA_position|CDS_position|Protein_position|Amino_acids|Codons|Existing_variation|ALLELE_NUM|DISTANCE|STRAND|FLAGS|VARIANT_CLASS|MINIMISED|SYMBOL_SOURCE|HGNC_ID|CANONICAL|TSL|APPRIS|CCDS|ENSP|SWISSPROT|TREMBL|UNIPARC|GENE_PHENO|SIFT|PolyPhen|DOMAINS|HGVS_OFFSET|GMAF|AFR_MAF|AMR_MAF|EAS_MAF|EUR_MAF|SAS_MAF|AA_MAF|EA_MAF|ExAC_MAF|ExAC_Adj_MAF|ExAC_AFR_MAF|ExAC_AMR_MAF|ExAC_EAS_MAF|ExAC_FIN_MAF|ExAC_NFE_MAF|ExAC_OTH_MAF|ExAC_SAS_MAF|CLIN_SIG|SOMATIC|PHENO|PUBMED|MOTIF_NAME|MOTIF_POS|HIGH_INF_POS|MOTIF_SCORE_CHANGE|LoF|LoF_filter|LoF_flags|LoF_info"> +##contig=<ID=1,length=249250621,assembly=gnomAD_GRCh37> +##contig=<ID=2,length=243199373,assembly=gnomAD_GRCh37> +##contig=<ID=3,length=198022430,assembly=gnomAD_GRCh37> +##contig=<ID=4,length=191154276,assembly=gnomAD_GRCh37> +##contig=<ID=5,length=180915260,assembly=gnomAD_GRCh37> +##contig=<ID=6,length=171115067,assembly=gnomAD_GRCh37> +##contig=<ID=7,length=159138663,assembly=gnomAD_GRCh37> +##contig=<ID=8,length=146364022,assembly=gnomAD_GRCh37> +##contig=<ID=9,length=141213431,assembly=gnomAD_GRCh37> +##contig=<ID=10,length=135534747,assembly=gnomAD_GRCh37> +##contig=<ID=11,length=135006516,assembly=gnomAD_GRCh37> +##contig=<ID=12,length=133851895,assembly=gnomAD_GRCh37> +##contig=<ID=13,length=115169878,assembly=gnomAD_GRCh37> +##contig=<ID=14,length=107349540,assembly=gnomAD_GRCh37> +##contig=<ID=15,length=102531392,assembly=gnomAD_GRCh37> +##contig=<ID=16,length=90354753,assembly=gnomAD_GRCh37> +##contig=<ID=17,length=81195210,assembly=gnomAD_GRCh37> +##contig=<ID=18,length=78077248,assembly=gnomAD_GRCh37> +##contig=<ID=19,length=59128983,assembly=gnomAD_GRCh37> +##contig=<ID=20,length=63025520,assembly=gnomAD_GRCh37> +##contig=<ID=21,length=48129895,assembly=gnomAD_GRCh37> +##contig=<ID=22,length=51304566,assembly=gnomAD_GRCh37> +##contig=<ID=X,length=155270560,assembly=gnomAD_GRCh37> +##contig=<ID=Y,length=59373566,assembly=gnomAD_GRCh37> +#CHROM POS ID REF ALT QUAL FILTER INFO +3 46414935 rs938517991 AT A 9974.16 PASS AC=2;AN=250946;AF=7.96984e-06;rf_tp_probability=7.30763e-01;FS=6.15000e-01;InbreedingCoeff=3.17000e-02;MQ=5.14700e+01;MQRankSum=2.82000e-01;QD=2.79400e+01;ReadPosRankSum=-6.86000e-01;SOR=6.59000e-01;BaseQRankSum=-1.73300e+00;ClippingRankSum=-2.84000e-01;DP=8634492;VQSLOD=1.82000e+00;VQSR_culprit=FS;segdup;variant_type=indel;allele_type=del;n_alt_alleles=1;gq_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|1;gq_hist_all_bin_freq=31|39|36|114|142|101|239|274|152|334|372|207|850|196|647|369|1084|164|1324|119070;dp_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;dp_hist_alt_n_larger=1;dp_hist_all_bin_freq=26|124|288|371|677|862|7327|47694|38309|14081|5588|3216|1941|1338|875|614|486|350|301|238;dp_hist_all_n_larger=1042;ab_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;AC_nfe_seu=0;AN_nfe_seu=11470;AF_nfe_seu=0.00000e+00;nhomalt_nfe_seu=0;controls_AC_afr_male=0;controls_AN_afr_male=2924;controls_AF_afr_male=0.00000e+00;controls_nhomalt_afr_male=0;non_neuro_AC_eas_kor=0;non_neuro_AN_eas_kor=3816;non_neuro_AF_eas_kor=0.00000e+00;non_neuro_nhomalt_eas_kor=0;non_topmed_AC_amr=0;non_topmed_AN_amr=34444;non_topmed_AF_amr=0.00000e+00;non_topmed_nhomalt_amr=0;non_cancer_AC_asj_female=0;non_cancer_AN_asj_female=4594;non_cancer_AF_asj_female=0.00000e+00;non_cancer_nhomalt_asj_female=0;AC_raw=2;AN_raw=251490;AF_raw=7.95260e-06;nhomalt_raw=1;AC_fin_female=0;AN_fin_female=10346;AF_fin_female=0.00000e+00;nhomalt_fin_female=0;non_cancer_AC_oth_female=0;non_cancer_AN_oth_female=2672;non_cancer_AF_oth_female=0.00000e+00;non_cancer_nhomalt_oth_female=0;AC_nfe_bgr=0;AN_nfe_bgr=2670;AF_nfe_bgr=0.00000e+00;nhomalt_nfe_bgr=0;non_neuro_AC_asj_female=0;non_neuro_AN_asj_female=3084;non_neuro_AF_asj_female=0.00000e+00;non_neuro_nhomalt_asj_female=0;AC_sas_male=0;AN_sas_male=23072;AF_sas_male=0.00000e+00;nhomalt_sas_male=0;non_neuro_AC_afr_male=0;non_neuro_AN_afr_male=6164;non_neuro_AF_afr_male=0.00000e+00;non_neuro_nhomalt_afr_male=0;AC_afr_male=0;AN_afr_male=6186;AF_afr_male=0.00000e+00;nhomalt_afr_male=0;AC_afr=0;AN_afr=16192;AF_afr=0.00000e+00;nhomalt_afr=0;controls_AC_nfe_swe=0;controls_AN_nfe_swe=12810;controls_AF_nfe_swe=0.00000e+00;controls_nhomalt_nfe_swe=0;non_neuro_AC_afr_female=0;non_neuro_AN_afr_female=9990;non_neuro_AF_afr_female=0.00000e+00;non_neuro_nhomalt_afr_female=0;non_topmed_AC_amr_female=0;non_topmed_AN_amr_female=20188;non_topmed_AF_amr_female=0.00000e+00;non_topmed_nhomalt_amr_female=0;non_cancer_AC_female=2;non_cancer_AN_female=107412;non_cancer_AF_female=1.86199e-05;non_cancer_nhomalt_female=1;non_cancer_AC_nfe_onf=0;non_cancer_AN_nfe_onf=24540;non_cancer_AF_nfe_onf=0.00000e+00;non_cancer_nhomalt_nfe_onf=0;non_cancer_AC_male=0;non_cancer_AN_male=129014;non_cancer_AF_male=0.00000e+00;non_cancer_nhomalt_male=0;non_topmed_AC_oth_female=0;non_topmed_AN_oth_female=2870;non_topmed_AF_oth_female=0.00000e+00;non_topmed_nhomalt_oth_female=0;AC_eas_female=0;AN_eas_female=9328;AF_eas_female=0.00000e+00;nhomalt_eas_female=0;non_cancer_AC_sas_female=0;non_cancer_AN_sas_female=7494;non_cancer_AF_sas_female=0.00000e+00;non_cancer_nhomalt_sas_female=0;AC_afr_female=0;AN_afr_female=10006;AF_afr_female=0.00000e+00;nhomalt_afr_female=0;AC_sas=0;AN_sas=30616;AF_sas=0.00000e+00;nhomalt_sas=0;non_neuro_AC_female=2;non_neuro_AN_female=95468;non_neuro_AF_female=2.09494e-05;non_neuro_nhomalt_female=1;controls_AC_afr=0;controls_AN_afr=7164;controls_AF_afr=0.00000e+00;controls_nhomalt_afr=0;non_neuro_AC_eas_jpn=0;non_neuro_AN_eas_jpn=150;non_neuro_AF_eas_jpn=0.00000e+00;non_neuro_nhomalt_eas_jpn=0;AC_nfe_onf=0;AN_nfe_onf=30864;AF_nfe_onf=0.00000e+00;nhomalt_nfe_onf=0;non_cancer_AC_amr_male=0;non_cancer_AN_amr_male=14166;non_cancer_AF_amr_male=0.00000e+00;non_cancer_nhomalt_amr_male=0;controls_AC_fin_male=0;controls_AN_fin_male=6904;controls_AF_fin_male=0.00000e+00;controls_nhomalt_fin_male=0;non_neuro_AC_nfe_nwe=2;non_neuro_AN_nfe_nwe=35284;non_neuro_AF_nfe_nwe=5.66829e-05;non_neuro_nhomalt_nfe_nwe=1;AC_fin_male=0;AN_fin_male=11254;AF_fin_male=0.00000e+00;nhomalt_fin_male=0;AC_nfe_female=2;AN_nfe_female=49966;AF_nfe_female=4.00272e-05;nhomalt_nfe_female=1;AC_amr=0;AN_amr=34578;AF_amr=0.00000e+00;nhomalt_amr=0;non_topmed_AC_nfe_male=0;non_topmed_AN_nfe_male=62670;non_topmed_AF_nfe_male=0.00000e+00;non_topmed_nhomalt_nfe_male=0;non_neuro_AC_sas=0;non_neuro_AN_sas=30608;non_neuro_AF_sas=0.00000e+00;non_neuro_nhomalt_sas=0;non_cancer_AC_fin_male=0;non_cancer_AN_fin_male=11250;non_cancer_AF_fin_male=0.00000e+00;non_cancer_nhomalt_fin_male=0;non_cancer_AC_nfe_seu=0;non_cancer_AN_nfe_seu=10580;non_cancer_AF_nfe_seu=0.00000e+00;non_cancer_nhomalt_nfe_seu=0;AC_eas=0;AN_eas=18394;AF_eas=0.00000e+00;nhomalt_eas=0;nhomalt=1;non_neuro_AC_nfe_female=2;non_neuro_AN_nfe_female=39740;non_neuro_AF_nfe_female=5.03271e-05;non_neuro_nhomalt_nfe_female=1;non_neuro_AC_afr=0;non_neuro_AN_afr=16154;non_neuro_AF_afr=0.00000e+00;non_neuro_nhomalt_afr=0;controls_AC_raw=2;controls_AN_raw=109408;controls_AF_raw=1.82802e-05;controls_nhomalt_raw=1;non_cancer_AC_eas=0;non_cancer_AN_eas=17692;non_cancer_AF_eas=0.00000e+00;non_cancer_nhomalt_eas=0;non_cancer_AC_amr_female=0;non_cancer_AN_amr_female=20080;non_cancer_AF_amr_female=0.00000e+00;non_cancer_nhomalt_amr_female=0;non_neuro_AC_nfe_swe=0;non_neuro_AN_nfe_swe=14778;non_neuro_AF_nfe_swe=0.00000e+00;non_neuro_nhomalt_nfe_swe=0;controls_AC_male=0;controls_AN_male=58088;controls_AF_male=0.00000e+00;controls_nhomalt_male=0;non_topmed_AC_male=0;non_topmed_AN_male=133312;non_topmed_AF_male=0.00000e+00;non_topmed_nhomalt_male=0;controls_AC_eas_jpn=0;controls_AN_eas_jpn=114;controls_AF_eas_jpn=0.00000e+00;controls_nhomalt_eas_jpn=0;controls_AC_nfe_female=2;controls_AN_nfe_female=19140;controls_AF_nfe_female=1.04493e-04;controls_nhomalt_nfe_female=1;non_neuro_AC_amr=0;non_neuro_AN_amr=30514;non_neuro_AF_amr=0.00000e+00;non_neuro_nhomalt_amr=0;non_neuro_AC_eas_female=0;non_neuro_AN_eas_female=6842;non_neuro_AF_eas_female=0.00000e+00;non_neuro_nhomalt_eas_female=0;AC_asj_male=0;AN_asj_male=5170;AF_asj_male=0.00000e+00;nhomalt_asj_male=0;controls_AC_nfe_male=0;controls_AN_nfe_male=23610;controls_AF_nfe_male=0.00000e+00;controls_nhomalt_nfe_male=0;non_neuro_AC_fin=0;non_neuro_AN_fin=16688;non_neuro_AF_fin=0.00000e+00;non_neuro_nhomalt_fin=0;non_topmed_AC_sas=0;non_topmed_AN_sas=30616;non_topmed_AF_sas=0.00000e+00;non_topmed_nhomalt_sas=0;non_cancer_AC_nfe_female=2;non_cancer_AN_nfe_female=44124;non_cancer_AF_nfe_female=4.53268e-05;non_cancer_nhomalt_nfe_female=1;AC_oth_female=0;AN_oth_female=2918;AF_oth_female=0.00000e+00;nhomalt_oth_female=0;non_cancer_AC_asj=0;non_cancer_AN_asj=9560;non_cancer_AF_asj=0.00000e+00;non_cancer_nhomalt_asj=0;AC_nfe_swe=0;AN_nfe_swe=26130;AF_nfe_swe=0.00000e+00;nhomalt_nfe_swe=0;controls_AC_nfe=2;controls_AN_nfe=42750;controls_AF_nfe=4.67836e-05;controls_nhomalt_nfe=1;controls_AC_oth_female=0;controls_AN_oth_female=986;controls_AF_oth_female=0.00000e+00;controls_nhomalt_oth_female=0;controls_AC_asj=0;controls_AN_asj=2320;controls_AF_asj=0.00000e+00;controls_nhomalt_asj=0;non_neuro_AC_amr_male=0;non_neuro_AN_amr_male=12252;non_neuro_AF_amr_male=0.00000e+00;non_neuro_nhomalt_amr_male=0;controls_AC_nfe_nwe=2;controls_AN_nfe_nwe=14436;controls_AF_nfe_nwe=1.38543e-04;controls_nhomalt_nfe_nwe=1;AC_nfe_nwe=2;AN_nfe_nwe=42006;AF_nfe_nwe=4.76122e-05;nhomalt_nfe_nwe=1;controls_AC_nfe_seu=0;controls_AN_nfe_seu=4760;controls_AF_nfe_seu=0.00000e+00;controls_nhomalt_nfe_seu=0;controls_AC_sas_female=0;controls_AN_sas_female=4214;controls_AF_sas_female=0.00000e+00;controls_nhomalt_sas_female=0;non_neuro_AC_amr_female=0;non_neuro_AN_amr_female=18262;non_neuro_AF_amr_female=0.00000e+00;non_neuro_nhomalt_amr_female=0;non_cancer_AC_eas_jpn=0;non_cancer_AN_eas_jpn=124;non_cancer_AF_eas_jpn=0.00000e+00;non_cancer_nhomalt_eas_jpn=0;non_neuro_AC_nfe_onf=0;non_neuro_AN_nfe_onf=27760;non_neuro_AF_nfe_onf=0.00000e+00;non_neuro_nhomalt_nfe_onf=0;non_topmed_AC_eas_male=0;non_topmed_AN_eas_male=9062;non_topmed_AF_eas_male=0.00000e+00;non_topmed_nhomalt_eas_male=0;AC_eas_jpn=0;AN_eas_jpn=152;AF_eas_jpn=0.00000e+00;nhomalt_eas_jpn=0;non_cancer_AC_afr_male=0;non_cancer_AN_afr_male=5672;non_cancer_AF_afr_male=0.00000e+00;non_cancer_nhomalt_afr_male=0;non_cancer_AC_afr=0;non_cancer_AN_afr=14838;non_cancer_AF_afr=0.00000e+00;non_cancer_nhomalt_afr=0;controls_AC_amr_female=0;controls_AN_amr_female=10224;controls_AF_amr_female=0.00000e+00;controls_nhomalt_amr_female=0;non_neuro_AC_fin_male=0;non_neuro_AN_fin_male=9064;non_neuro_AF_fin_male=0.00000e+00;non_neuro_nhomalt_fin_male=0;AC_female=2;AN_female=115268;AF_female=1.73509e-05;nhomalt_female=1;non_neuro_AC_nfe_bgr=0;non_neuro_AN_nfe_bgr=452;non_neuro_AF_nfe_bgr=0.00000e+00;non_neuro_nhomalt_nfe_bgr=0;non_neuro_AC_oth_male=0;non_neuro_AN_oth_male=2470;non_neuro_AF_oth_male=0.00000e+00;non_neuro_nhomalt_oth_male=0;non_topmed_AC_nfe_est=0;non_topmed_AN_nfe_est=236;non_topmed_AF_nfe_est=0.00000e+00;non_topmed_nhomalt_nfe_est=0;non_topmed_AC_nfe_nwe=2;non_topmed_AN_nfe_nwe=40890;non_topmed_AF_nfe_nwe=4.89117e-05;non_topmed_nhomalt_nfe_nwe=1;non_topmed_AC_amr_male=0;non_topmed_AN_amr_male=14256;non_topmed_AF_amr_male=0.00000e+00;non_topmed_nhomalt_amr_male=0;non_cancer_AC_amr=0;non_cancer_AN_amr=34246;non_cancer_AF_amr=0.00000e+00;non_cancer_nhomalt_amr=0;non_topmed_AC_nfe_swe=0;non_topmed_AN_nfe_swe=26068;non_topmed_AF_nfe_swe=0.00000e+00;non_topmed_nhomalt_nfe_swe=0;non_topmed_AC_nfe_onf=0;non_topmed_AN_nfe_onf=30070;non_topmed_AF_nfe_onf=0.00000e+00;non_topmed_nhomalt_nfe_onf=0;controls_AC_eas_kor=0;controls_AN_eas_kor=1888;controls_AF_eas_kor=0.00000e+00;controls_nhomalt_eas_kor=0;non_topmed_AC_eas_oea=0;non_topmed_AN_eas_oea=14420;non_topmed_AF_eas_oea=0.00000e+00;non_topmed_nhomalt_eas_oea=0;controls_AC_eas_male=0;controls_AN_eas_male=4258;controls_AF_eas_male=0.00000e+00;controls_nhomalt_eas_male=0;controls_AC_oth_male=0;controls_AN_oth_male=928;controls_AF_oth_male=0.00000e+00;controls_nhomalt_oth_male=0;non_topmed_AC=2;non_topmed_AN=244352;non_topmed_AF=8.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r=0.00000e+00;non_neuro_faf99_afr=0.00000e+00;non_cancer_faf95_eas=0.00000e+00;non_cancer_faf99_eas=0.00000e+00;non_neuro_faf95_amr=0.00000e+00;non_neuro_faf99_amr=0.00000e+00;non_topmed_faf95_sas=0.00000e+00;non_topmed_faf99_sas=0.00000e+00;controls_faf95_nfe=7.75000e-06;controls_faf99_nfe=7.90000e-06;non_cancer_faf95_afr=0.00000e+00;non_cancer_faf99_afr=0.00000e+00;non_cancer_faf95_amr=0.00000e+00;non_cancer_faf99_amr=0.00000e+00;non_topmed_faf95=1.36000e-06;non_topmed_faf99=5.10000e-07;non_neuro_faf95_nfe=3.71000e-06;non_neuro_faf99_nfe=3.39000e-06;non_neuro_faf95=1.60000e-06;non_neuro_faf99=1.60000e-06;non_topmed_faf95_nfe=2.98000e-06;non_topmed_faf99_nfe=3.12000e-06;controls_faf95_eas=0.00000e+00;controls_faf99_eas=0.00000e+00;controls_faf95_sas=0.00000e+00;controls_faf99_sas=0.00000e+00;faf95_nfe=2.93000e-06;faf99_nfe=3.10000e-06;non_topmed_faf95_eas=0.00000e+00;non_topmed_faf99_eas=0.00000e+00;controls_faf95_amr=0.00000e+00;controls_faf99_amr=0.00000e+00;non_neuro_faf95_eas=0.00000e+00;non_neuro_faf99_eas=0.00000e+00;non_cancer_faf95_nfe=3.24000e-06;non_cancer_faf99_nfe=3.21000e-06;non_cancer_faf95=1.41000e-06;non_cancer_faf99=5.30000e-07;non_cancer_faf95_sas=0.00000e+00;non_cancer_faf99_sas=0.00000e+00;non_topmed_faf95_afr=0.00000e+00;non_topmed_faf99_afr=0.00000e+00;controls_faf95=3.04000e-06;controls_faf99=3.14000e-06;popmax=nfe;AC_popmax=2;AN_popmax=113380;AF_popmax=1.76398e-05;nhomalt_popmax=1;age_hist_het_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_het_n_smaller=0;age_hist_het_n_larger=0;age_hist_hom_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_hom_n_smaller=0;age_hist_hom_n_larger=0;non_topmed_popmax=nfe;non_topmed_AC_popmax=2;non_topmed_AN_popmax=111300;non_topmed_AF_popmax=1.79695e-05;non_topmed_nhomalt_popmax=1;non_neuro_popmax=nfe;non_neuro_AC_popmax=2;non_neuro_AN_popmax=89416;non_neuro_AF_popmax=2.23674e-05;non_neuro_nhomalt_popmax=1;non_cancer_popmax=nfe;non_cancer_AC_popmax=2;non_cancer_AN_popmax=102380;non_cancer_AF_popmax=1.95351e-05;non_cancer_nhomalt_popmax=1;controls_popmax=nfe;controls_AC_popmax=2;controls_AN_popmax=42750;controls_AF_popmax=4.67836e-05;controls_nhomalt_popmax=1;vep=-|frameshift_variant|HIGH|CCR5|ENSG00000160791|Transcript|ENST00000292303|protein_coding|2/2||ENST00000292303.4:c.546delT|ENSP00000292303.4:p.Pro183HisfsTer14|689|543|181|H/X|caT/ca||1||1||deletion|1|HGNC|1606||||CCDS2739.1|ENSP00000292303|P51681|Q9UBT9&Q9P1T4&Q5KSY4&Q5EKN0&Q38L21&J7HJP8&E7BJ57&B8LFP0&B8LFN8&A1A490|UPI000000D955|1|||Prints_domain:PR01110&Superfamily_domains:SSF81321&Gene3D:1.20.1070.10&Pfam_domain:PF00001&hmmpanther:PTHR24227&hmmpanther:PTHR24227:SF45&PROSITE_profiles:PS50262|3||||||||||||||||||||||||||HC|||GERP_DIST:922.109800000004&BP_DIST:516&PERCENTILE:0.512747875354108&DIST_FROM_LAST_EXON:-553&50_BP_RULE:FAIL&PHYLOCSF_TOO_SHORT,-|frameshift_variant|HIGH|CCR5|ENSG00000160791|Transcript|ENST00000343801|protein_coding|3/3||ENST00000343801.4:c.546delT|ENSP00000343985.4:p.Pro183HisfsTer14|900|543|181|H/X|caT/ca||1||1||deletion|1|HGNC|1606|YES|||CCDS2739.1|ENSP00000343985|P51681|Q9UBT9&Q9P1T4&Q5KSY4&Q5EKN0&Q38L21&J7HJP8&E7BJ57&B8LFP0&B8LFN8&A1A490|UPI000000D955|1|||PROSITE_profiles:PS50262&hmmpanther:PTHR24227:SF45&hmmpanther:PTHR24227&Gene3D:1.20.1070.10&Pfam_domain:PF00001&Superfamily_domains:SSF81321&Prints_domain:PR01110|3||||||||||||||||||||||||||HC|||GERP_DIST:922.109800000004&BP_DIST:516&PERCENTILE:0.512747875354108&DIST_FROM_LAST_EXON:-553&50_BP_RULE:FAIL&PHYLOCSF_TOO_SHORT,-|frameshift_variant|HIGH|CCR5|ENSG00000160791|Transcript|ENST00000445772|protein_coding|1/1||ENST00000445772.1:c.546delT|ENSP00000404881.1:p.Pro183HisfsTer14|776|543|181|H/X|caT/ca||1||1||deletion|1|HGNC|1606||||CCDS2739.1|ENSP00000404881|P51681|Q9UBT9&Q9P1T4&Q5KSY4&Q5EKN0&Q38L21&J7HJP8&E7BJ57&B8LFP0&B8LFN8&A1A490|UPI000000D955|1|||PROSITE_profiles:PS50262&hmmpanther:PTHR24227:SF45&hmmpanther:PTHR24227&Pfam_domain:PF00001&Gene3D:1.20.1070.10&Superfamily_domains:SSF81321&Prints_domain:PR01110|3||||||||||||||||||||||||||HC||SINGLE_EXON|GERP_DIST:922.109800000004&BP_DIST:516&PERCENTILE:0.512747875354108&DIST_FROM_LAST_EXON:-775&50_BP_RULE:FAIL&PHYLOCSF_TOO_SHORT,-|intron_variant&non_coding_transcript_variant|MODIFIER|RP11-24F11.2|ENSG00000223552|Transcript|ENST00000451485|antisense||2/3|ENST00000451485.1:n.392-2028delA||||||||1||-1||deletion|1|Clone_based_vega_gene||YES||||||||||||||||||||||||||||||||||||||||| +3 46414943 rs775750898 TACAGTCAGTATCAATTCTGGAAGAATTTCCAG T 74264261.52 PASS AC=18640;AN=251006;AF=7.42612e-02;rf_tp_probability=7.40136e-01;FS=1.76900e+00;InbreedingCoeff=2.78000e-02;MQ=5.34100e+01;MQRankSum=-6.57200e+00;QD=1.49000e+01;ReadPosRankSum=-3.87000e-01;SOR=6.17000e-01;VQSR_POSITIVE_TRAIN_SITE;BaseQRankSum=1.27000e+00;ClippingRankSum=-4.00000e-03;DP=12360054;VQSLOD=1.54000e+00;VQSR_culprit=MQRankSum;segdup;rf_positive_label;rf_label=TP;rf_train;variant_type=mixed;allele_type=del;n_alt_alleles=2;was_mixed;pab_max=1.00000e+00;gq_hist_alt_bin_freq=0|2|3|3|0|1|1|4|4|8|6|4|9|5|14|9|10|13|11|17651;gq_hist_all_bin_freq=35|21|18|41|68|50|96|142|88|187|181|97|371|113|317|193|524|127|739|122337;dp_hist_alt_bin_freq=4|21|30|42|78|135|195|326|396|549|644|740|684|801|667|616|514|449|410|378;dp_hist_alt_n_larger=10079;dp_hist_all_bin_freq=24|119|259|384|577|783|6619|44130|35571|12320|4446|2614|1673|1467|1079|894|716|585|532|480;dp_hist_all_n_larger=10476;ab_hist_alt_bin_freq=0|1|9|46|240|959|2896|6505|4575|1107|318|50|13|6|0|4|0|2|11|42;AC_nfe_seu=765;AN_nfe_seu=11476;AF_nfe_seu=6.66609e-02;nhomalt_nfe_seu=31;controls_AC_afr_male=40;controls_AN_afr_male=2924;controls_AF_afr_male=1.36799e-02;controls_nhomalt_afr_male=1;non_neuro_AC_eas_kor=0;non_neuro_AN_eas_kor=3814;non_neuro_AF_eas_kor=0.00000e+00;non_neuro_nhomalt_eas_kor=0;non_topmed_AC_amr=1012;non_topmed_AN_amr=34446;non_topmed_AF_amr=2.93793e-02;non_topmed_nhomalt_amr=10;non_cancer_AC_asj_female=577;non_cancer_AN_asj_female=4592;non_cancer_AF_asj_female=1.25653e-01;non_cancer_nhomalt_asj_female=43;AC_raw=18732;AN_raw=251490;AF_raw=7.44841e-02;nhomalt_raw=974;AC_fin_female=1378;AN_fin_female=10336;AF_fin_female=1.33320e-01;nhomalt_fin_female=87;non_cancer_AC_oth_female=195;non_cancer_AN_oth_female=2672;non_cancer_AF_oth_female=7.29790e-02;non_cancer_nhomalt_oth_female=10;AC_nfe_bgr=173;AN_nfe_bgr=2670;AF_nfe_bgr=6.47940e-02;nhomalt_nfe_bgr=7;non_neuro_AC_asj_female=393;non_neuro_AN_asj_female=3086;non_neuro_AF_asj_female=1.27349e-01;non_neuro_nhomalt_asj_female=28;AC_sas_male=391;AN_sas_male=23066;AF_sas_male=1.69514e-02;nhomalt_sas_male=5;non_neuro_AC_afr_male=106;non_neuro_AN_afr_male=6162;non_neuro_AF_afr_male=1.72022e-02;non_neuro_nhomalt_afr_male=2;AC_afr_male=107;AN_afr_male=6184;AF_afr_male=1.73027e-02;nhomalt_afr_male=2;AC_afr=311;AN_afr=16196;AF_afr=1.92023e-02;nhomalt_afr=2;controls_AC_nfe_swe=1578;controls_AN_nfe_swe=12810;controls_AF_nfe_swe=1.23185e-01;controls_nhomalt_nfe_swe=78;non_neuro_AC_afr_female=203;non_neuro_AN_afr_female=9996;non_neuro_AF_afr_female=2.03081e-02;non_neuro_nhomalt_afr_female=0;non_topmed_AC_amr_female=568;non_topmed_AN_amr_female=20190;non_topmed_AF_amr_female=2.81327e-02;non_topmed_nhomalt_amr_female=5;non_cancer_AC_female=7819;non_cancer_AN_female=107454;non_cancer_AF_female=7.27660e-02;non_cancer_nhomalt_female=408;non_cancer_AC_nfe_onf=2601;non_cancer_AN_nfe_onf=24572;non_cancer_AF_nfe_onf=1.05852e-01;non_cancer_nhomalt_nfe_onf=132;non_cancer_AC_male=9543;non_cancer_AN_male=129014;non_cancer_AF_male=7.39687e-02;non_cancer_nhomalt_male=504;non_topmed_AC_oth_female=210;non_topmed_AN_oth_female=2870;non_topmed_AF_oth_female=7.31707e-02;non_topmed_nhomalt_oth_female=11;AC_eas_female=0;AN_eas_female=9326;AF_eas_female=0.00000e+00;nhomalt_eas_female=0;non_cancer_AC_sas_female=98;non_cancer_AN_sas_female=7494;non_cancer_AF_sas_female=1.30771e-02;non_cancer_nhomalt_sas_female=0;AC_afr_female=204;AN_afr_female=10012;AF_afr_female=2.03755e-02;nhomalt_afr_female=0;AC_sas=489;AN_sas=30610;AF_sas=1.59752e-02;nhomalt_sas=5;non_neuro_AC_female=6734;non_neuro_AN_female=95514;non_neuro_AF_female=7.05028e-02;non_neuro_nhomalt_female=351;controls_AC_afr=111;controls_AN_afr=7164;controls_AF_afr=1.54941e-02;controls_nhomalt_afr=1;non_neuro_AC_eas_jpn=0;non_neuro_AN_eas_jpn=150;non_neuro_AF_eas_jpn=0.00000e+00;non_neuro_nhomalt_eas_jpn=0;AC_nfe_onf=3264;AN_nfe_onf=30904;AF_nfe_onf=1.05617e-01;nhomalt_nfe_onf=163;non_cancer_AC_amr_male=434;non_cancer_AN_amr_male=14166;non_cancer_AF_amr_male=3.06367e-02;non_cancer_nhomalt_amr_male=5;controls_AC_fin_male=899;controls_AN_fin_male=6890;controls_AF_fin_male=1.30479e-01;controls_nhomalt_fin_male=59;non_neuro_AC_nfe_nwe=4096;non_neuro_AN_nfe_nwe=35318;non_neuro_AF_nfe_nwe=1.15975e-01;non_neuro_nhomalt_nfe_nwe=236;AC_fin_male=1503;AN_fin_male=11244;AF_fin_male=1.33671e-01;nhomalt_fin_male=105;AC_nfe_female=5454;AN_nfe_female=50030;AF_nfe_female=1.09015e-01;nhomalt_nfe_female=293;AC_amr=1014;AN_amr=34580;AF_amr=2.93233e-02;nhomalt_amr=10;non_topmed_AC_nfe_male=6681;non_topmed_AN_nfe_male=62690;non_topmed_AF_nfe_male=1.06572e-01;non_topmed_nhomalt_nfe_male=350;non_neuro_AC_sas=489;non_neuro_AN_sas=30602;non_neuro_AF_sas=1.59793e-02;non_neuro_nhomalt_sas=5;non_cancer_AC_fin_male=1503;non_cancer_AN_fin_male=11240;non_cancer_AF_fin_male=1.33719e-01;non_cancer_nhomalt_fin_male=105;non_cancer_AC_nfe_seu=709;non_cancer_AN_nfe_seu=10584;non_cancer_AF_nfe_seu=6.69879e-02;non_cancer_nhomalt_nfe_seu=28;AC_eas=2;AN_eas=18392;AF_eas=1.08743e-04;nhomalt_eas=0;nhomalt=966;non_neuro_AC_nfe_female=4371;non_neuro_AN_nfe_female=39790;non_neuro_AF_nfe_female=1.09852e-01;non_neuro_nhomalt_nfe_female=241;non_neuro_AC_afr=309;non_neuro_AN_afr=16158;non_neuro_AF_afr=1.91237e-02;non_neuro_nhomalt_afr=2;controls_AC_raw=7712;controls_AN_raw=109408;controls_AF_raw=7.04884e-02;controls_nhomalt_raw=398;non_cancer_AC_eas=0;non_cancer_AN_eas=17690;non_cancer_AF_eas=0.00000e+00;non_cancer_nhomalt_eas=0;non_cancer_AC_amr_female=559;non_cancer_AN_amr_female=20082;non_cancer_AF_amr_female=2.78359e-02;non_cancer_nhomalt_amr_female=5;non_neuro_AC_nfe_swe=1812;non_neuro_AN_nfe_swe=14776;non_neuro_AF_nfe_swe=1.22631e-01;non_neuro_nhomalt_nfe_swe=97;controls_AC_male=4146;controls_AN_male=58070;controls_AF_male=7.13966e-02;controls_nhomalt_male=212;non_topmed_AC_male=10003;non_topmed_AN_male=133316;non_topmed_AF_male=7.50323e-02;non_topmed_nhomalt_male=520;controls_AC_eas_jpn=0;controls_AN_eas_jpn=114;controls_AF_eas_jpn=0.00000e+00;controls_nhomalt_eas_jpn=0;controls_AC_nfe_female=2070;controls_AN_nfe_female=19146;controls_AF_nfe_female=1.08117e-01;controls_nhomalt_nfe_female=111;non_neuro_AC_amr=848;non_neuro_AN_amr=30516;non_neuro_AF_amr=2.77887e-02;non_neuro_nhomalt_amr=9;non_neuro_AC_eas_female=0;non_neuro_AN_eas_female=6840;non_neuro_AF_eas_female=0.00000e+00;non_neuro_nhomalt_eas_female=0;AC_asj_male=682;AN_asj_male=5172;AF_asj_male=1.31864e-01;nhomalt_asj_male=41;controls_AC_nfe_male=2576;controls_AN_nfe_male=23610;controls_AF_nfe_male=1.09106e-01;controls_nhomalt_nfe_male=138;non_neuro_AC_fin=2261;non_neuro_AN_fin=16666;non_neuro_AF_fin=1.35665e-01;non_neuro_nhomalt_fin=155;non_topmed_AC_sas=489;non_topmed_AN_sas=30610;non_topmed_AF_sas=1.59752e-02;non_topmed_nhomalt_sas=5;non_cancer_AC_nfe_female=4823;non_cancer_AN_nfe_female=44172;non_cancer_AF_nfe_female=1.09187e-01;non_cancer_nhomalt_nfe_female=263;AC_oth_female=214;AN_oth_female=2918;AF_oth_female=7.33379e-02;nhomalt_oth_female=11;non_cancer_AC_asj=1236;non_cancer_AN_asj=9560;non_cancer_AF_asj=1.29289e-01;non_cancer_nhomalt_asj=82;AC_nfe_swe=3166;AN_nfe_swe=26128;AF_nfe_swe=1.21173e-01;nhomalt_nfe_swe=167;controls_AC_nfe=4646;controls_AN_nfe=42756;controls_AF_nfe=1.08663e-01;controls_nhomalt_nfe=249;controls_AC_oth_female=75;controls_AN_oth_female=986;controls_AF_oth_female=7.60649e-02;controls_nhomalt_oth_female=5;controls_AC_asj=299;controls_AN_asj=2320;controls_AF_asj=1.28879e-01;controls_nhomalt_asj=13;non_neuro_AC_amr_male=368;non_neuro_AN_amr_male=12252;non_neuro_AF_amr_male=3.00359e-02;non_neuro_nhomalt_amr_male=4;controls_AC_nfe_nwe=1658;controls_AN_nfe_nwe=14442;controls_AF_nfe_nwe=1.14804e-01;controls_nhomalt_nfe_nwe=102;AC_nfe_nwe=4816;AN_nfe_nwe=42042;AF_nfe_nwe=1.14552e-01;nhomalt_nfe_nwe=278;controls_AC_nfe_seu=324;controls_AN_nfe_seu=4760;controls_AF_nfe_seu=6.80672e-02;controls_nhomalt_nfe_seu=13;controls_AC_sas_female=63;controls_AN_sas_female=4214;controls_AF_sas_female=1.49502e-02;controls_nhomalt_sas_female=0;non_neuro_AC_amr_female=480;non_neuro_AN_amr_female=18264;non_neuro_AF_amr_female=2.62812e-02;non_neuro_nhomalt_amr_female=5;non_cancer_AC_eas_jpn=0;non_cancer_AN_eas_jpn=124;non_cancer_AF_eas_jpn=0.00000e+00;non_cancer_nhomalt_eas_jpn=0;non_neuro_AC_nfe_onf=2954;non_neuro_AN_nfe_onf=27774;non_neuro_AF_nfe_onf=1.06358e-01;non_neuro_nhomalt_nfe_onf=153;non_topmed_AC_eas_male=2;non_topmed_AN_eas_male=9062;non_topmed_AF_eas_male=2.20702e-04;non_topmed_nhomalt_eas_male=0;AC_eas_jpn=0;AN_eas_jpn=152;AF_eas_jpn=0.00000e+00;nhomalt_eas_jpn=0;non_cancer_AC_afr_male=90;non_cancer_AN_afr_male=5670;non_cancer_AF_afr_male=1.58730e-02;non_cancer_nhomalt_afr_male=2;non_cancer_AC_afr=282;non_cancer_AN_afr=14842;non_cancer_AF_afr=1.90001e-02;non_cancer_nhomalt_afr=2;controls_AC_amr_female=254;controls_AN_amr_female=10224;controls_AF_amr_female=2.48435e-02;controls_nhomalt_amr_female=1;non_neuro_AC_fin_male=1228;non_neuro_AN_fin_male=9054;non_neuro_AF_fin_male=1.35631e-01;non_neuro_nhomalt_fin_male=85;AC_female=8532;AN_female=115328;AF_female=7.39803e-02;nhomalt_female=441;non_neuro_AC_nfe_bgr=27;non_neuro_AN_nfe_bgr=452;non_neuro_AF_nfe_bgr=5.97345e-02;non_neuro_nhomalt_nfe_bgr=2;non_neuro_AC_oth_male=170;non_neuro_AN_oth_male=2472;non_neuro_AF_oth_male=6.87702e-02;non_neuro_nhomalt_oth_male=9;non_topmed_AC_nfe_est=18;non_topmed_AN_nfe_est=238;non_topmed_AF_nfe_est=7.56303e-02;non_topmed_nhomalt_nfe_est=0;non_topmed_AC_nfe_nwe=4720;non_topmed_AN_nfe_nwe=40928;non_topmed_AF_nfe_nwe=1.15324e-01;non_topmed_nhomalt_nfe_nwe=275;non_topmed_AC_amr_male=444;non_topmed_AN_amr_male=14256;non_topmed_AF_amr_male=3.11448e-02;non_topmed_nhomalt_amr_male=5;non_cancer_AC_amr=993;non_cancer_AN_amr=34248;non_cancer_AF_amr=2.89944e-02;non_cancer_nhomalt_amr=10;non_topmed_AC_nfe_swe=3161;non_topmed_AN_nfe_swe=26066;non_topmed_AF_nfe_swe=1.21269e-01;non_topmed_nhomalt_nfe_swe=167;non_topmed_AC_nfe_onf=3196;non_topmed_AN_nfe_onf=30108;non_topmed_AF_nfe_onf=1.06151e-01;non_topmed_nhomalt_nfe_onf=157;controls_AC_eas_kor=0;controls_AN_eas_kor=1886;controls_AF_eas_kor=0.00000e+00;controls_nhomalt_eas_kor=0;non_topmed_AC_eas_oea=2;non_topmed_AN_eas_oea=14420;non_topmed_AF_eas_oea=1.38696e-04;non_topmed_nhomalt_eas_oea=0;controls_AC_eas_male=0;controls_AN_eas_male=4258;controls_AF_eas_male=0.00000e+00;controls_nhomalt_eas_male=0;controls_AC_oth_male=64;controls_AN_oth_male=928;controls_AF_oth_male=6.89655e-02;controls_nhomalt_oth_male=4;non_topmed_AC=18352;non_topmed_AN=244418;non_topmed_AF=7.50845e-02;non_topmed_nhomalt=954;controls_AC_fin=1741;controls_AN_fin=13326;controls_AF_fin=1.30647e-01;controls_nhomalt_fin=117;AC_eas_kor=0;AN_eas_kor=3816;AF_eas_kor=0.00000e+00;nhomalt_eas_kor=0;non_neuro_AC_nfe=9628;non_neuro_AN_nfe=89466;non_neuro_AF_nfe=1.07616e-01;non_neuro_nhomalt_nfe=515;non_neuro_AC_fin_female=1033;non_neuro_AN_fin_female=7612;non_neuro_AF_fin_female=1.35707e-01;non_neuro_nhomalt_fin_female=70;non_cancer_AC_nfe_male=6256;non_cancer_AN_nfe_male=58274;non_cancer_AF_nfe_male=1.07355e-01;non_cancer_nhomalt_nfe_male=334;controls_AC_eas_oea=0;controls_AN_eas_oea=7044;controls_AF_eas_oea=0.00000e+00;controls_nhomalt_eas_oea=0;non_topmed_AC_nfe_seu=761;non_topmed_AN_nfe_seu=11382;non_topmed_AF_nfe_seu=6.68600e-02;non_topmed_nhomalt_nfe_seu=31;controls_AC_eas_female=0;controls_AN_eas_female=4786;controls_AF_eas_female=0.00000e+00;controls_nhomalt_eas_female=0;non_topmed_AC_asj=1289;non_topmed_AN_asj=9986;non_topmed_AF_asj=1.29081e-01;non_topmed_nhomalt_asj=85;controls_AC_nfe_onf=1032;controls_AN_nfe_onf=9996;controls_AF_nfe_onf=1.03241e-01;controls_nhomalt_nfe_onf=51;non_neuro_AC=14661;non_neuro_AN=207888;non_neuro_AF=7.05236e-02;non_neuro_nhomalt=750;AC_eas_oea=2;AN_eas_oea=14424;AF_eas_oea=1.38658e-04;nhomalt_eas_oea=0;non_topmed_AC_nfe=12028;non_topmed_AN_nfe=111384;non_topmed_AF_nfe=1.07987e-01;non_topmed_nhomalt_nfe=637;non_cancer_AC_oth=406;non_cancer_AN_oth=5598;non_cancer_AF_oth=7.25259e-02;non_cancer_nhomalt_oth=24;non_topmed_AC_raw=18438;non_topmed_AN_raw=244872;non_topmed_AF_raw=7.52965e-02;non_topmed_nhomalt_raw=962;non_neuro_AC_nfe_est=17;non_neuro_AN_nfe_est=216;non_neuro_AF_nfe_est=7.87037e-02;non_neuro_nhomalt_nfe_est=0;non_topmed_AC_oth_male=225;non_topmed_AN_oth_male=3176;non_topmed_AF_oth_male=7.08438e-02;non_topmed_nhomalt_oth_male=13;non_cancer_AC_oth_male=211;non_cancer_AN_oth_male=2926;non_cancer_AF_oth_male=7.21121e-02;non_cancer_nhomalt_oth_male=14;AC_nfe_est=19;AN_nfe_est=242;AF_nfe_est=7.85124e-02;nhomalt_nfe_est=0;non_cancer_AC_afr_female=192;non_cancer_AN_afr_female=9172;non_cancer_AF_afr_female=2.09333e-02;non_cancer_nhomalt_afr_female=0;non_topmed_AC_afr_male=78;non_topmed_AN_afr_male=4686;non_topmed_AF_afr_male=1.66453e-02;non_topmed_nhomalt_afr_male=1;AC_eas_male=2;AN_eas_male=9066;AF_eas_male=2.20604e-04;nhomalt_eas_male=0;controls_AC_eas=0;controls_AN_eas=9044;controls_AF_eas=0.00000e+00;controls_nhomalt_eas=0;non_neuro_AC_eas_male=2;non_neuro_AN_eas_male=6574;non_neuro_AF_eas_male=3.04229e-04;non_neuro_nhomalt_eas_male=0;non_cancer_AC_nfe_nwe=4512;non_cancer_AN_nfe_nwe=39322;non_cancer_AF_nfe_nwe=1.14745e-01;non_cancer_nhomalt_nfe_nwe=266;controls_AC_sas=257;controls_AN_sas=15686;controls_AF_sas=1.63840e-02;controls_nhomalt_sas=4;non_neuro_AC_sas_male=391;non_neuro_AN_sas_male=23060;non_neuro_AF_sas_male=1.69558e-02;non_neuro_nhomalt_sas_male=5;non_neuro_AC_asj_male=405;non_neuro_AN_asj_male=3124;non_neuro_AF_asj_male=1.29641e-01;non_neuro_nhomalt_asj_male=20;non_cancer_AC_nfe_bgr=166;non_cancer_AN_nfe_bgr=2526;non_cancer_AF_nfe_bgr=6.57165e-02;non_cancer_nhomalt_nfe_bgr=7;controls_AC_oth=139;controls_AN_oth=1914;controls_AF_oth=7.26228e-02;controls_nhomalt_oth=9;non_cancer_AC_eas_female=0;non_cancer_AN_eas_female=8946;non_cancer_AF_eas_female=0.00000e+00;non_cancer_nhomalt_eas_female=0;AC_nfe=12203;AN_nfe=113462;AF_nfe=1.07551e-01;nhomalt_nfe=646;non_topmed_AC_female=8349;non_topmed_AN_female=111102;non_topmed_AF_female=7.51472e-02;non_topmed_nhomalt_female=434;non_neuro_AC_asj=798;non_neuro_AN_asj=6210;non_neuro_AF_asj=1.28502e-01;non_neuro_nhomalt_asj=48;non_topmed_AC_eas_female=0;non_topmed_AN_eas_female=9326;non_topmed_AF_eas_female=0.00000e+00;non_topmed_nhomalt_eas_female=0;non_neuro_AC_raw=14725;non_neuro_AN_raw=208132;non_neuro_AF_raw=7.07484e-02;non_neuro_nhomalt_raw=754;non_topmed_AC_eas=2;non_topmed_AN_eas=18388;non_topmed_AF_eas=1.08767e-04;non_topmed_nhomalt_eas=0;non_topmed_AC_fin_male=1503;non_topmed_AN_fin_male=11244;non_topmed_AF_fin_male=1.33671e-01;non_topmed_nhomalt_fin_male=105;non_cancer_AC_asj_male=659;non_cancer_AN_asj_male=4968;non_cancer_AF_asj_male=1.32649e-01;non_cancer_nhomalt_asj_male=39;AC_fin=2881;AN_fin=21580;AF_fin=1.33503e-01;nhomalt_fin=192;AC_nfe_male=6749;AN_nfe_male=63432;AF_nfe_male=1.06397e-01;nhomalt_nfe_male=353;non_topmed_AC_eas_kor=0;non_topmed_AN_eas_kor=3816;non_topmed_AF_eas_kor=0.00000e+00;non_topmed_nhomalt_eas_kor=0;controls_AC_amr_male=222;controls_AN_amr_male=6882;controls_AF_amr_male=3.22581e-02;controls_nhomalt_amr_male=1;non_neuro_AC_eas_oea=2;non_neuro_AN_eas_oea=9450;non_neuro_AF_eas_oea=2.11640e-04;non_neuro_nhomalt_eas_oea=0;AC_sas_female=98;AN_sas_female=7544;AF_sas_female=1.29905e-02;nhomalt_sas_female=0;controls_AC_afr_female=71;controls_AN_afr_female=4240;controls_AF_afr_female=1.67453e-02;controls_nhomalt_afr_female=0;controls_AC_amr=476;controls_AN_amr=17106;controls_AF_amr=2.78265e-02;controls_nhomalt_amr=2;non_topmed_AC_eas_jpn=0;non_topmed_AN_eas_jpn=152;non_topmed_AF_eas_jpn=0.00000e+00;non_topmed_nhomalt_eas_jpn=0;AC_asj_female=614;AN_asj_female=4896;AF_asj_female=1.25408e-01;nhomalt_asj_female=45;non_topmed_AC_nfe_bgr=172;non_topmed_AN_nfe_bgr=2662;non_topmed_AF_nfe_bgr=6.46131e-02;non_topmed_nhomalt_nfe_bgr=7;non_cancer_AC_nfe_est=11;non_cancer_AN_nfe_est=158;non_cancer_AF_nfe_est=6.96203e-02;non_cancer_nhomalt_nfe_est=0;non_neuro_AC_eas=2;non_neuro_AN_eas=13414;non_neuro_AF_eas=1.49098e-04;non_neuro_nhomalt_eas=0;non_cancer_AC_nfe=11079;non_cancer_AN_nfe=102446;non_cancer_AF_nfe=1.08145e-01;non_cancer_nhomalt_nfe=597;non_neuro_AC_male=7927;non_neuro_AN_male=112374;non_neuro_AF_male=7.05412e-02;non_neuro_nhomalt_male=399;non_neuro_AC_sas_female=98;non_neuro_AN_sas_female=7542;non_neuro_AF_sas_female=1.29939e-02;non_neuro_nhomalt_sas_female=0;AC_asj=1296;AN_asj=10068;AF_asj=1.28725e-01;nhomalt_asj=86;controls_AC_nfe_est=7;controls_AN_nfe_est=70;controls_AF_nfe_est=1.00000e-01;controls_nhomalt_nfe_est=0;non_topmed_AC_asj_female=610;non_topmed_AN_asj_female=4850;non_topmed_AF_asj_female=1.25773e-01;non_topmed_nhomalt_asj_female=44;non_cancer_AC_nfe_swe=3080;non_cancer_AN_nfe_swe=25284;non_cancer_AF_nfe_swe=1.21816e-01;non_cancer_nhomalt_nfe_swe=164;non_cancer_AC=17362;non_cancer_AN=236468;non_cancer_AF=7.34222e-02;non_cancer_nhomalt=912;non_topmed_AC_oth=435;non_topmed_AN_oth=6046;non_topmed_AF_oth=7.19484e-02;non_topmed_nhomalt_oth=24;non_topmed_AC_fin_female=1378;non_topmed_AN_fin_female=10334;non_topmed_AF_fin_female=1.33346e-01;non_topmed_nhomalt_fin_female=87;non_cancer_AC_fin_female=1375;non_cancer_AN_fin_female=10324;non_cancer_AF_fin_female=1.33185e-01;non_cancer_nhomalt_fin_female=87;AC_oth=444;AN_oth=6118;AF_oth=7.25727e-02;nhomalt_oth=25;non_neuro_AC_nfe_male=5257;non_neuro_AN_nfe_male=49676;non_neuro_AF_nfe_male=1.05826e-01;non_neuro_nhomalt_nfe_male=274;controls_AC_female=3523;controls_AN_female=51246;controls_AF_female=6.87468e-02;controls_nhomalt_female=183;non_cancer_AC_fin=2878;non_cancer_AN_fin=21564;non_cancer_AF_fin=1.33463e-01;non_cancer_nhomalt_fin=192;non_topmed_AC_fin=2881;non_topmed_AN_fin=21578;non_topmed_AF_fin=1.33516e-01;non_topmed_nhomalt_fin=192;non_cancer_AC_eas_oea=0;non_cancer_AN_eas_oea=13794;non_cancer_AF_eas_oea=0.00000e+00;non_cancer_nhomalt_eas_oea=0;non_topmed_AC_nfe_female=5347;non_topmed_AN_nfe_female=48694;non_topmed_AF_nfe_female=1.09808e-01;non_topmed_nhomalt_nfe_female=287;non_cancer_AC_sas_male=390;non_cancer_AN_sas_male=23026;non_cancer_AF_sas_male=1.69374e-02;non_cancer_nhomalt_sas_male=5;controls_AC_asj_male=151;controls_AN_asj_male=1106;controls_AF_asj_male=1.36528e-01;controls_nhomalt_asj_male=5;non_cancer_AC_raw=17454;non_cancer_AN_raw=236952;non_cancer_AF_raw=7.36605e-02;non_cancer_nhomalt_raw=920;non_cancer_AC_eas_male=0;non_cancer_AN_eas_male=8744;non_cancer_AF_eas_male=0.00000e+00;non_cancer_nhomalt_eas_male=0;non_topmed_AC_asj_male=679;non_topmed_AN_asj_male=5136;non_topmed_AF_asj_male=1.32204e-01;non_topmed_nhomalt_asj_male=41;non_neuro_AC_oth=326;non_neuro_AN_oth=4856;non_neuro_AF_oth=6.71334e-02;non_neuro_nhomalt_oth=16;AC_male=10108;AN_male=135678;AF_male=7.44999e-02;nhomalt_male=525;controls_AC_fin_female=842;controls_AN_fin_female=6436;controls_AF_fin_female=1.30827e-01;controls_nhomalt_fin_female=58;controls_AC_nfe_bgr=47;controls_AN_nfe_bgr=678;controls_AF_nfe_bgr=6.93215e-02;controls_nhomalt_nfe_bgr=5;controls_AC_asj_female=148;controls_AN_asj_female=1214;controls_AF_asj_female=1.21911e-01;controls_nhomalt_asj_female=8;AC_amr_male=444;AN_amr_male=14314;AF_amr_male=3.10186e-02;nhomalt_amr_male=5;AC_amr_female=570;AN_amr_female=20266;AF_amr_female=2.81259e-02;nhomalt_amr_female=5;non_topmed_AC_sas_male=391;non_topmed_AN_sas_male=23066;non_topmed_AF_sas_male=1.69514e-02;non_topmed_nhomalt_sas_male=5;AC_oth_male=230;AN_oth_male=3200;AF_oth_male=7.18750e-02;nhomalt_oth_male=14;non_cancer_AC_sas=488;non_cancer_AN_sas=30520;non_cancer_AF_sas=1.59895e-02;non_cancer_nhomalt_sas=5;non_neuro_AC_nfe_seu=722;non_neuro_AN_nfe_seu=10930;non_neuro_AF_nfe_seu=6.60567e-02;non_neuro_nhomalt_nfe_seu=27;non_cancer_AC_eas_kor=0;non_cancer_AN_eas_kor=3772;non_cancer_AF_eas_kor=0.00000e+00;non_cancer_nhomalt_eas_kor=0;non_topmed_AC_afr_female=138;non_topmed_AN_afr_female=7294;non_topmed_AF_afr_female=1.89197e-02;non_topmed_nhomalt_afr_female=0;controls_AC_sas_male=194;controls_AN_sas_male=11472;controls_AF_sas_male=1.69107e-02;controls_nhomalt_sas_male=4;non_topmed_AC_sas_female=98;non_topmed_AN_sas_female=7544;non_topmed_AF_sas_female=1.29905e-02;non_topmed_nhomalt_sas_female=0;non_topmed_AC_afr=216;non_topmed_AN_afr=11980;non_topmed_AF_afr=1.80301e-02;non_topmed_nhomalt_afr=1;controls_AC=7669;controls_AN=109316;controls_AF=7.01544e-02;controls_nhomalt=395;non_neuro_AC_oth_female=156;non_neuro_AN_oth_female=2384;non_neuro_AF_oth_female=6.54362e-02;non_neuro_nhomalt_oth_female=7;non_topmed_faf95_amr=2.78769e-02;non_topmed_faf99_amr=2.78761e-02;faf95_afr=1.74470e-02;faf99_afr=1.74462e-02;faf95_sas=1.48048e-02;faf99_sas=1.48054e-02;controls_faf95_afr=1.31569e-02;controls_faf99_afr=1.31561e-02;faf95_amr=2.78245e-02;faf99_amr=2.78245e-02;non_neuro_faf95_sas=1.48086e-02;non_neuro_faf99_sas=1.48091e-02;faf95_eas=1.89700e-05;faf99_eas=1.87100e-05;faf95=7.33687e-02;faf99=7.33685e-02;non_neuro_faf95_afr=1.73698e-02;non_neuro_faf99_afr=1.73699e-02;non_cancer_faf95_eas=0.00000e+00;non_cancer_faf99_eas=0.00000e+00;non_neuro_faf95_amr=2.62377e-02;non_neuro_faf99_amr=2.62373e-02;non_topmed_faf95_sas=1.48048e-02;non_topmed_faf99_sas=1.48054e-02;controls_faf95_nfe=1.06054e-01;controls_faf99_nfe=1.06054e-01;non_cancer_faf95_afr=1.71776e-02;non_cancer_faf99_afr=1.71775e-02;non_cancer_faf95_amr=2.74972e-02;non_cancer_faf99_amr=2.74971e-02;non_topmed_faf95=7.41745e-02;non_topmed_faf99=7.41745e-02;non_neuro_faf95_nfe=1.05818e-01;non_neuro_faf99_nfe=1.05818e-01;non_neuro_faf95=6.95677e-02;non_neuro_faf99=6.95678e-02;non_topmed_faf95_nfe=1.06372e-01;non_topmed_faf99_nfe=1.06372e-01;controls_faf95_eas=0.00000e+00;controls_faf99_eas=0.00000e+00;controls_faf95_sas=1.47398e-02;controls_faf99_sas=1.47392e-02;faf95_nfe=1.05955e-01;faf99_nfe=1.05954e-01;non_topmed_faf95_eas=1.89700e-05;non_topmed_faf99_eas=1.87200e-05;controls_faf95_amr=2.57616e-02;controls_faf99_amr=2.57616e-02;non_neuro_faf95_eas=2.56000e-05;non_neuro_faf99_eas=2.61900e-05;non_cancer_faf95_nfe=1.06459e-01;non_cancer_faf99_nfe=1.06460e-01;non_cancer_faf95=7.25077e-02;non_cancer_faf99=7.25074e-02;non_cancer_faf95_sas=1.48178e-02;non_cancer_faf99_sas=1.48178e-02;non_topmed_faf95_afr=1.60601e-02;non_topmed_faf99_afr=1.60602e-02;controls_faf95=6.88418e-02;controls_faf99=6.88419e-02;popmax=nfe;AC_popmax=12203;AN_popmax=113462;AF_popmax=1.07551e-01;nhomalt_popmax=646;age_hist_het_bin_freq=538|568|947|1020|1303|1317|1252|1208|802|575;age_hist_het_n_smaller=340;age_hist_het_n_larger=336;age_hist_hom_bin_freq=24|28|31|65|67|77|76|64|53|34;age_hist_hom_n_smaller=14;age_hist_hom_n_larger=17;non_topmed_popmax=nfe;non_topmed_AC_popmax=12028;non_topmed_AN_popmax=111384;non_topmed_AF_popmax=1.07987e-01;non_topmed_nhomalt_popmax=637;non_neuro_popmax=nfe;non_neuro_AC_popmax=9628;non_neuro_AN_popmax=89466;non_neuro_AF_popmax=1.07616e-01;non_neuro_nhomalt_popmax=515;non_cancer_popmax=nfe;non_cancer_AC_popmax=11079;non_cancer_AN_popmax=102446;non_cancer_AF_popmax=1.08145e-01;non_cancer_nhomalt_popmax=597;controls_popmax=nfe;controls_AC_popmax=4646;controls_AN_popmax=42756;controls_AF_popmax=1.08663e-01;controls_nhomalt_popmax=249;vep=-|frameshift_variant|HIGH|CCR5|ENSG00000160791|Transcript|ENST00000292303|protein_coding|2/2||ENST00000292303.4:c.554_585delGTCAGTATCAATTCTGGAAGAATTTCCAGACA|ENSP00000292303.4:p.Ser185IlefsTer32|697-728|551-582|184-194|YSQYQFWKNFQ/X|tACAGTCAGTATCAATTCTGGAAGAATTTCCAG/t|rs562091107&COSM1423390|1||1||deletion|1|HGNC|1606||||CCDS2739.1|ENSP00000292303|P51681|Q9UBT9&Q9P1T4&Q5KSY4&Q5EKN0&Q38L21&J7HJP8&E7BJ57&B8LFP0&B8LFN8&A1A490|UPI000000D955|1|||Prints_domain:PR01110&Prints_domain:PR01110&Superfamily_domains:SSF81321&Gene3D:1.20.1070.10&Pfam_domain:PF00001&hmmpanther:PTHR24227&hmmpanther:PTHR24227:SF45&PROSITE_profiles:PS50262|3|-:0.0292||-:0.003|-:0.0317|-:0|-:0.1103|-:0.0092|-:0.0136|-:0.0847||||||||||0&1|0&1||||||HC|||GERP_DIST:923.849800000004&BP_DIST:508&PERCENTILE:0.54957507082153&DIST_FROM_LAST_EXON:-561&50_BP_RULE:FAIL&PHYLOCSF_TOO_SHORT,-|frameshift_variant|HIGH|CCR5|ENSG00000160791|Transcript|ENST00000343801|protein_coding|3/3||ENST00000343801.4:c.554_585delGTCAGTATCAATTCTGGAAGAATTTCCAGACA|ENSP00000343985.4:p.Ser185IlefsTer32|908-939|551-582|184-194|YSQYQFWKNFQ/X|tACAGTCAGTATCAATTCTGGAAGAATTTCCAG/t|rs562091107&COSM1423390|1||1||deletion|1|HGNC|1606|YES|||CCDS2739.1|ENSP00000343985|P51681|Q9UBT9&Q9P1T4&Q5KSY4&Q5EKN0&Q38L21&J7HJP8&E7BJ57&B8LFP0&B8LFN8&A1A490|UPI000000D955|1|||PROSITE_profiles:PS50262&hmmpanther:PTHR24227:SF45&hmmpanther:PTHR24227&Gene3D:1.20.1070.10&Pfam_domain:PF00001&Superfamily_domains:SSF81321&Prints_domain:PR01110&Prints_domain:PR01110|3|-:0.0292||-:0.003|-:0.0317|-:0|-:0.1103|-:0.0092|-:0.0136|-:0.0847||||||||||0&1|0&1||||||HC|||GERP_DIST:923.849800000004&BP_DIST:508&PERCENTILE:0.54957507082153&DIST_FROM_LAST_EXON:-561&50_BP_RULE:FAIL&PHYLOCSF_TOO_SHORT,-|frameshift_variant|HIGH|CCR5|ENSG00000160791|Transcript|ENST00000445772|protein_coding|1/1||ENST00000445772.1:c.554_585delGTCAGTATCAATTCTGGAAGAATTTCCAGACA|ENSP00000404881.1:p.Ser185IlefsTer32|784-815|551-582|184-194|YSQYQFWKNFQ/X|tACAGTCAGTATCAATTCTGGAAGAATTTCCAG/t|rs562091107&COSM1423390|1||1||deletion|1|HGNC|1606||||CCDS2739.1|ENSP00000404881|P51681|Q9UBT9&Q9P1T4&Q5KSY4&Q5EKN0&Q38L21&J7HJP8&E7BJ57&B8LFP0&B8LFN8&A1A490|UPI000000D955|1|||PROSITE_profiles:PS50262&hmmpanther:PTHR24227:SF45&hmmpanther:PTHR24227&Pfam_domain:PF00001&Gene3D:1.20.1070.10&Superfamily_domains:SSF81321&Prints_domain:PR01110&Prints_domain:PR01110|3|-:0.0292||-:0.003|-:0.0317|-:0|-:0.1103|-:0.0092|-:0.0136|-:0.0847||||||||||0&1|0&1||||||HC||SINGLE_EXON|GERP_DIST:923.849800000004&BP_DIST:508&PERCENTILE:0.54957507082153&DIST_FROM_LAST_EXON:-783&50_BP_RULE:FAIL&PHYLOCSF_TOO_SHORT,-|intron_variant&non_coding_transcript_variant|MODIFIER|RP11-24F11.2|ENSG00000223552|Transcript|ENST00000451485|antisense||2/3|ENST00000451485.1:n.392-2067_392-2036delCTGGAAATTCTTCCAGAATTGATACTGACTGT|||||||rs562091107&COSM1423390|1||-1||deletion|1|Clone_based_vega_gene||YES|||||||||||||-:0.0292||-:0.003|-:0.0317|-:0|-:0.1103|-:0.0092|-:0.0136|-:0.0847||||||||||0&1|0&1||||||||| +3 46415066 rs146972949 C T 120238.89 PASS AC=34;AN=250848;AF=1.35540e-04;rf_tp_probability=5.71787e-01;FS=0.00000e+00;InbreedingCoeff=2.70000e-02;MQ=5.96200e+01;MQRankSum=4.44000e-01;QD=1.41100e+01;ReadPosRankSum=6.86000e-01;SOR=6.72000e-01;BaseQRankSum=1.19000e+00;ClippingRankSum=5.40000e-02;DP=7944597;VQSLOD=4.98000e+00;VQSR_culprit=FS;segdup;variant_type=snv;allele_type=snv;n_alt_alleles=1;pab_max=1.00000e+00;gq_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|33;gq_hist_all_bin_freq=75|33|37|87|171|158|463|783|639|1574|2076|1396|5239|1099|4118|1503|4855|520|4327|96594;dp_hist_alt_bin_freq=0|0|0|1|0|1|1|0|1|0|2|0|0|0|1|1|1|2|3|1;dp_hist_alt_n_larger=18;dp_hist_all_bin_freq=27|162|825|2720|6977|7997|12060|37575|33207|13569|4666|2275|1179|781|457|305|215|140|119|89;dp_hist_all_n_larger=403;ab_hist_alt_bin_freq=0|0|0|0|0|0|1|1|6|10|12|1|1|0|0|0|0|0|0|0;AC_nfe_seu=0;AN_nfe_seu=11474;AF_nfe_seu=0.00000e+00;nhomalt_nfe_seu=0;controls_AC_afr_male=2;controls_AN_afr_male=2924;controls_AF_afr_male=6.83995e-04;controls_nhomalt_afr_male=0;non_neuro_AC_eas_kor=0;non_neuro_AN_eas_kor=3808;non_neuro_AF_eas_kor=0.00000e+00;non_neuro_nhomalt_eas_kor=0;non_topmed_AC_amr=3;non_topmed_AN_amr=34382;non_topmed_AF_amr=8.72550e-05;non_topmed_nhomalt_amr=0;non_cancer_AC_asj_female=0;non_cancer_AN_asj_female=4572;non_cancer_AF_asj_female=0.00000e+00;non_cancer_nhomalt_asj_female=0;AC_raw=34;AN_raw=251494;AF_raw=1.35192e-04;nhomalt_raw=1;AC_fin_female=0;AN_fin_female=10338;AF_fin_female=0.00000e+00;nhomalt_fin_female=0;non_cancer_AC_oth_female=0;non_cancer_AN_oth_female=2676;non_cancer_AF_oth_female=0.00000e+00;non_cancer_nhomalt_oth_female=0;AC_nfe_bgr=0;AN_nfe_bgr=2668;AF_nfe_bgr=0.00000e+00;nhomalt_nfe_bgr=0;non_neuro_AC_asj_female=0;non_neuro_AN_asj_female=3068;non_neuro_AF_asj_female=0.00000e+00;non_neuro_nhomalt_asj_female=0;AC_sas_male=0;AN_sas_male=23036;AF_sas_male=0.00000e+00;nhomalt_sas_male=0;non_neuro_AC_afr_male=10;non_neuro_AN_afr_male=6164;non_neuro_AF_afr_male=1.62232e-03;non_neuro_nhomalt_afr_male=0;AC_afr_male=10;AN_afr_male=6186;AF_afr_male=1.61655e-03;nhomalt_afr_male=0;AC_afr=23;AN_afr=16252;AF_afr=1.41521e-03;nhomalt_afr=0;controls_AC_nfe_swe=2;controls_AN_nfe_swe=12802;controls_AF_nfe_swe=1.56226e-04;controls_nhomalt_nfe_swe=1;non_neuro_AC_afr_female=13;non_neuro_AN_afr_female=10050;non_neuro_AF_afr_female=1.29353e-03;non_neuro_nhomalt_afr_female=0;non_topmed_AC_amr_female=3;non_topmed_AN_amr_female=20150;non_topmed_AF_amr_female=1.48883e-04;non_topmed_nhomalt_amr_female=0;non_cancer_AC_female=18;non_cancer_AN_female=107406;non_cancer_AF_female=1.67588e-04;non_cancer_nhomalt_female=1;non_cancer_AC_nfe_onf=2;non_cancer_AN_nfe_onf=24546;non_cancer_AF_nfe_onf=8.14797e-05;non_cancer_nhomalt_nfe_onf=0;non_cancer_AC_male=13;non_cancer_AN_male=128906;non_cancer_AF_male=1.00849e-04;non_cancer_nhomalt_male=0;non_topmed_AC_oth_female=0;non_topmed_AN_oth_female=2872;non_topmed_AF_oth_female=0.00000e+00;non_topmed_nhomalt_oth_female=0;AC_eas_female=0;AN_eas_female=9324;AF_eas_female=0.00000e+00;nhomalt_eas_female=0;non_cancer_AC_sas_female=0;non_cancer_AN_sas_female=7480;non_cancer_AF_sas_female=0.00000e+00;non_cancer_nhomalt_sas_female=0;AC_afr_female=13;AN_afr_female=10066;AF_afr_female=1.29148e-03;nhomalt_afr_female=0;AC_sas=0;AN_sas=30566;AF_sas=0.00000e+00;nhomalt_sas=0;non_neuro_AC_female=20;non_neuro_AN_female=95468;non_neuro_AF_female=2.09494e-04;non_neuro_nhomalt_female=1;controls_AC_afr=9;controls_AN_afr=7164;controls_AF_afr=1.25628e-03;controls_nhomalt_afr=0;non_neuro_AC_eas_jpn=0;non_neuro_AN_eas_jpn=150;non_neuro_AF_eas_jpn=0.00000e+00;non_neuro_nhomalt_eas_jpn=0;AC_nfe_onf=2;AN_nfe_onf=30878;AF_nfe_onf=6.47710e-05;nhomalt_nfe_onf=0;non_cancer_AC_amr_male=0;non_cancer_AN_amr_male=14142;non_cancer_AF_amr_male=0.00000e+00;non_cancer_nhomalt_amr_male=0;controls_AC_fin_male=0;controls_AN_fin_male=6914;controls_AF_fin_male=0.00000e+00;controls_nhomalt_fin_male=0;non_neuro_AC_nfe_nwe=3;non_neuro_AN_nfe_nwe=35264;non_neuro_AF_nfe_nwe=8.50726e-05;non_neuro_nhomalt_nfe_nwe=0;AC_fin_male=0;AN_fin_male=11252;AF_fin_male=0.00000e+00;nhomalt_fin_male=0;AC_nfe_female=4;AN_nfe_female=49998;AF_nfe_female=8.00032e-05;nhomalt_nfe_female=1;AC_amr=3;AN_amr=34516;AF_amr=8.69162e-05;nhomalt_amr=0;non_topmed_AC_nfe_male=4;non_topmed_AN_nfe_male=62676;non_topmed_AF_nfe_male=6.38203e-05;non_topmed_nhomalt_nfe_male=0;non_neuro_AC_sas=0;non_neuro_AN_sas=30558;non_neuro_AF_sas=0.00000e+00;non_neuro_nhomalt_sas=0;non_cancer_AC_fin_male=0;non_cancer_AN_fin_male=11248;non_cancer_AF_fin_male=0.00000e+00;non_cancer_nhomalt_fin_male=0;non_cancer_AC_nfe_seu=0;non_cancer_AN_nfe_seu=10582;non_cancer_AF_nfe_seu=0.00000e+00;non_cancer_nhomalt_nfe_seu=0;AC_eas=0;AN_eas=18382;AF_eas=0.00000e+00;nhomalt_eas=0;nhomalt=1;non_neuro_AC_nfe_female=4;non_neuro_AN_nfe_female=39730;non_neuro_AF_nfe_female=1.00680e-04;non_neuro_nhomalt_nfe_female=1;non_neuro_AC_afr=23;non_neuro_AN_afr=16214;non_neuro_AF_afr=1.41853e-03;non_neuro_nhomalt_afr=0;controls_AC_raw=14;controls_AN_raw=109408;controls_AF_raw=1.27961e-04;controls_nhomalt_raw=1;non_cancer_AC_eas=0;non_cancer_AN_eas=17682;non_cancer_AF_eas=0.00000e+00;non_cancer_nhomalt_eas=0;non_cancer_AC_amr_female=3;non_cancer_AN_amr_female=20042;non_cancer_AF_amr_female=1.49686e-04;non_cancer_nhomalt_amr_female=0;non_neuro_AC_nfe_swe=2;non_neuro_AN_nfe_swe=14768;non_neuro_AF_nfe_swe=1.35428e-04;non_neuro_nhomalt_nfe_swe=1;controls_AC_male=3;controls_AN_male=58020;controls_AF_male=5.17063e-05;controls_nhomalt_male=0;non_topmed_AC_male=13;non_topmed_AN_male=133200;non_topmed_AF_male=9.75976e-05;non_topmed_nhomalt_male=0;controls_AC_eas_jpn=0;controls_AN_eas_jpn=114;controls_AF_eas_jpn=0.00000e+00;controls_nhomalt_eas_jpn=0;controls_AC_nfe_female=2;controls_AN_nfe_female=19108;controls_AF_nfe_female=1.04668e-04;controls_nhomalt_nfe_female=1;non_neuro_AC_amr=3;non_neuro_AN_amr=30450;non_neuro_AF_amr=9.85222e-05;non_neuro_nhomalt_amr=0;non_neuro_AC_eas_female=0;non_neuro_AN_eas_female=6840;non_neuro_AF_eas_female=0.00000e+00;non_neuro_nhomalt_eas_female=0;AC_asj_male=0;AN_asj_male=5140;AF_asj_male=0.00000e+00;nhomalt_asj_male=0;controls_AC_nfe_male=1;controls_AN_nfe_male=23584;controls_AF_nfe_male=4.24016e-05;controls_nhomalt_nfe_male=0;non_neuro_AC_fin=0;non_neuro_AN_fin=16722;non_neuro_AF_fin=0.00000e+00;non_neuro_nhomalt_fin=0;non_topmed_AC_sas=0;non_topmed_AN_sas=30566;non_topmed_AF_sas=0.00000e+00;non_topmed_nhomalt_sas=0;non_cancer_AC_nfe_female=4;non_cancer_AN_nfe_female=44140;non_cancer_AF_nfe_female=9.06208e-05;non_cancer_nhomalt_nfe_female=1;AC_oth_female=0;AN_oth_female=2922;AF_oth_female=0.00000e+00;nhomalt_oth_female=0;non_cancer_AC_asj=0;non_cancer_AN_asj=9508;non_cancer_AF_asj=0.00000e+00;non_cancer_nhomalt_asj=0;AC_nfe_swe=2;AN_nfe_swe=26120;AF_nfe_swe=7.65697e-05;nhomalt_nfe_swe=1;controls_AC_nfe=3;controls_AN_nfe=42692;controls_AF_nfe=7.02708e-05;controls_nhomalt_nfe=1;controls_AC_oth_female=0;controls_AN_oth_female=986;controls_AF_oth_female=0.00000e+00;controls_nhomalt_oth_female=0;controls_AC_asj=0;controls_AN_asj=2302;controls_AF_asj=0.00000e+00;controls_nhomalt_asj=0;non_neuro_AC_amr_male=0;non_neuro_AN_amr_male=12228;non_neuro_AF_amr_male=0.00000e+00;non_neuro_nhomalt_amr_male=0;controls_AC_nfe_nwe=0;controls_AN_nfe_nwe=14410;controls_AF_nfe_nwe=0.00000e+00;controls_nhomalt_nfe_nwe=0;AC_nfe_nwe=4;AN_nfe_nwe=42036;AF_nfe_nwe=9.51565e-05;nhomalt_nfe_nwe=0;controls_AC_nfe_seu=0;controls_AN_nfe_seu=4758;controls_AF_nfe_seu=0.00000e+00;controls_nhomalt_nfe_seu=0;controls_AC_sas_female=0;controls_AN_sas_female=4208;controls_AF_sas_female=0.00000e+00;controls_nhomalt_sas_female=0;non_neuro_AC_amr_female=3;non_neuro_AN_amr_female=18222;non_neuro_AF_amr_female=1.64636e-04;non_neuro_nhomalt_amr_female=0;non_cancer_AC_eas_jpn=0;non_cancer_AN_eas_jpn=124;non_cancer_AF_eas_jpn=0.00000e+00;non_cancer_nhomalt_eas_jpn=0;non_neuro_AC_nfe_onf=2;non_neuro_AN_nfe_onf=27730;non_neuro_AF_nfe_onf=7.21241e-05;non_neuro_nhomalt_nfe_onf=0;non_topmed_AC_eas_male=0;non_topmed_AN_eas_male=9054;non_topmed_AF_eas_male=0.00000e+00;non_topmed_nhomalt_eas_male=0;AC_eas_jpn=0;AN_eas_jpn=152;AF_eas_jpn=0.00000e+00;nhomalt_eas_jpn=0;non_cancer_AC_afr_male=9;non_cancer_AN_afr_male=5672;non_cancer_AF_afr_male=1.58674e-03;non_cancer_nhomalt_afr_male=0;non_cancer_AC_afr=20;non_cancer_AN_afr=14898;non_cancer_AF_afr=1.34246e-03;non_cancer_nhomalt_afr=0;controls_AC_amr_female=2;controls_AN_amr_female=10196;controls_AF_amr_female=1.96155e-04;controls_nhomalt_amr_female=0;non_neuro_AC_fin_male=0;non_neuro_AN_fin_male=9078;non_neuro_AF_fin_male=0.00000e+00;non_neuro_nhomalt_fin_male=0;AC_female=20;AN_female=115280;AF_female=1.73491e-04;nhomalt_female=1;non_neuro_AC_nfe_bgr=0;non_neuro_AN_nfe_bgr=450;non_neuro_AF_nfe_bgr=0.00000e+00;non_neuro_nhomalt_nfe_bgr=0;non_neuro_AC_oth_male=0;non_neuro_AN_oth_male=2460;non_neuro_AF_oth_male=0.00000e+00;non_neuro_nhomalt_oth_male=0;non_topmed_AC_nfe_est=0;non_topmed_AN_nfe_est=238;non_topmed_AF_nfe_est=0.00000e+00;non_topmed_nhomalt_nfe_est=0;non_topmed_AC_nfe_nwe=4;non_topmed_AN_nfe_nwe=40918;non_topmed_AF_nfe_nwe=9.77565e-05;non_topmed_nhomalt_nfe_nwe=0;non_topmed_AC_amr_male=0;non_topmed_AN_amr_male=14232;non_topmed_AF_amr_male=0.00000e+00;non_topmed_nhomalt_amr_male=0;non_cancer_AC_amr=3;non_cancer_AN_amr=34184;non_cancer_AF_amr=8.77604e-05;non_cancer_nhomalt_amr=0;non_topmed_AC_nfe_swe=2;non_topmed_AN_nfe_swe=26058;non_topmed_AF_nfe_swe=7.67519e-05;non_topmed_nhomalt_nfe_swe=1;non_topmed_AC_nfe_onf=2;non_topmed_AN_nfe_onf=30078;non_topmed_AF_nfe_onf=6.64938e-05;non_topmed_nhomalt_nfe_onf=0;controls_AC_eas_kor=0;controls_AN_eas_kor=1882;controls_AF_eas_kor=0.00000e+00;controls_nhomalt_eas_kor=0;non_topmed_AC_eas_oea=0;non_topmed_AN_eas_oea=14416;non_topmed_AF_eas_oea=0.00000e+00;non_topmed_nhomalt_eas_oea=0;controls_AC_eas_male=0;controls_AN_eas_male=4254;controls_AF_eas_male=0.00000e+00;controls_nhomalt_eas_male=0;controls_AC_oth_male=0;controls_AN_oth_male=928;controls_AF_oth_male=0.00000e+00;controls_nhomalt_oth_male=0;non_topmed_AC=28;non_topmed_AN=244232;non_topmed_AF=1.14645e-04;non_topmed_nhomalt=1;controls_AC_fin=0;controls_AN_fin=13384;controls_AF_fin=0.00000e+00;controls_nhomalt_fin=0;AC_eas_kor=0;AN_eas_kor=3810;AF_eas_kor=0.00000e+00;nhomalt_eas_kor=0;non_neuro_AC_nfe=7;non_neuro_AN_nfe=89354;non_neuro_AF_nfe=7.83401e-05;non_neuro_nhomalt_nfe=1;non_neuro_AC_fin_female=0;non_neuro_AN_fin_female=7644;non_neuro_AF_fin_female=0.00000e+00;non_neuro_nhomalt_fin_female=0;non_cancer_AC_nfe_male=4;non_cancer_AN_nfe_male=58262;non_cancer_AF_nfe_male=6.86554e-05;non_cancer_nhomalt_nfe_male=0;controls_AC_eas_oea=0;controls_AN_eas_oea=7044;controls_AF_eas_oea=0.00000e+00;controls_nhomalt_eas_oea=0;non_topmed_AC_nfe_seu=0;non_topmed_AN_nfe_seu=11378;non_topmed_AF_nfe_seu=0.00000e+00;non_topmed_nhomalt_nfe_seu=0;controls_AC_eas_female=0;controls_AN_eas_female=4786;controls_AF_eas_female=0.00000e+00;controls_nhomalt_eas_female=0;non_topmed_AC_asj=0;non_topmed_AN_asj=9934;non_topmed_AF_asj=0.00000e+00;non_topmed_nhomalt_asj=0;controls_AC_nfe_onf=1;controls_AN_nfe_onf=9974;controls_AF_nfe_onf=1.00261e-04;controls_nhomalt_nfe_onf=0;non_neuro_AC=33;non_neuro_AN=207724;non_neuro_AF=1.58865e-04;non_neuro_nhomalt=1;AC_eas_oea=0;AN_eas_oea=14420;AF_eas_oea=0.00000e+00;nhomalt_eas_oea=0;non_topmed_AC_nfe=8;non_topmed_AN_nfe=111330;non_topmed_AF_nfe=7.18584e-05;non_topmed_nhomalt_nfe=1;non_cancer_AC_oth=0;non_cancer_AN_oth=5588;non_cancer_AF_oth=0.00000e+00;non_cancer_nhomalt_oth=0;non_topmed_AC_raw=28;non_topmed_AN_raw=244876;non_topmed_AF_raw=1.14344e-04;non_topmed_nhomalt_raw=1;non_neuro_AC_nfe_est=0;non_neuro_AN_nfe_est=216;non_neuro_AF_nfe_est=0.00000e+00;non_neuro_nhomalt_nfe_est=0;non_topmed_AC_oth_male=0;non_topmed_AN_oth_male=3160;non_topmed_AF_oth_male=0.00000e+00;non_topmed_nhomalt_oth_male=0;non_cancer_AC_oth_male=0;non_cancer_AN_oth_male=2912;non_cancer_AF_oth_male=0.00000e+00;non_cancer_nhomalt_oth_male=0;AC_nfe_est=0;AN_nfe_est=242;AF_nfe_est=0.00000e+00;nhomalt_nfe_est=0;non_cancer_AC_afr_female=11;non_cancer_AN_afr_female=9226;non_cancer_AF_afr_female=1.19228e-03;non_cancer_nhomalt_afr_female=0;non_topmed_AC_afr_male=9;non_topmed_AN_afr_male=4686;non_topmed_AF_afr_male=1.92061e-03;non_topmed_nhomalt_afr_male=0;AC_eas_male=0;AN_eas_male=9058;AF_eas_male=0.00000e+00;nhomalt_eas_male=0;controls_AC_eas=0;controls_AN_eas=9040;controls_AF_eas=0.00000e+00;controls_nhomalt_eas=0;non_neuro_AC_eas_male=0;non_neuro_AN_eas_male=6566;non_neuro_AF_eas_male=0.00000e+00;non_neuro_nhomalt_eas_male=0;non_cancer_AC_nfe_nwe=4;non_cancer_AN_nfe_nwe=39316;non_cancer_AF_nfe_nwe=1.01740e-04;non_cancer_nhomalt_nfe_nwe=0;controls_AC_sas=0;controls_AN_sas=15664;controls_AF_sas=0.00000e+00;controls_nhomalt_sas=0;non_neuro_AC_sas_male=0;non_neuro_AN_sas_male=23030;non_neuro_AF_sas_male=0.00000e+00;non_neuro_nhomalt_sas_male=0;non_neuro_AC_asj_male=0;non_neuro_AN_asj_male=3106;non_neuro_AF_asj_male=0.00000e+00;non_neuro_nhomalt_asj_male=0;non_cancer_AC_nfe_bgr=0;non_cancer_AN_nfe_bgr=2524;non_cancer_AF_nfe_bgr=0.00000e+00;non_cancer_nhomalt_nfe_bgr=0;controls_AC_oth=0;controls_AN_oth=1914;controls_AF_oth=0.00000e+00;controls_nhomalt_oth=0;non_cancer_AC_eas_female=0;non_cancer_AN_eas_female=8944;non_cancer_AF_eas_female=0.00000e+00;non_cancer_nhomalt_eas_female=0;AC_nfe=8;AN_nfe=113418;AF_nfe=7.05355e-05;nhomalt_nfe=1;non_topmed_AC_female=15;non_topmed_AN_female=111032;non_topmed_AF_female=1.35096e-04;non_topmed_nhomalt_female=1;non_neuro_AC_asj=0;non_neuro_AN_asj=6174;non_neuro_AF_asj=0.00000e+00;non_neuro_nhomalt_asj=0;non_topmed_AC_eas_female=0;non_topmed_AN_eas_female=9324;non_topmed_AF_eas_female=0.00000e+00;non_topmed_nhomalt_eas_female=0;non_neuro_AC_raw=33;non_neuro_AN_raw=208134;non_neuro_AF_raw=1.58552e-04;non_neuro_nhomalt_raw=1;non_topmed_AC_eas=0;non_topmed_AN_eas=18378;non_topmed_AF_eas=0.00000e+00;non_topmed_nhomalt_eas=0;non_topmed_AC_fin_male=0;non_topmed_AN_fin_male=11252;non_topmed_AF_fin_male=0.00000e+00;non_topmed_nhomalt_fin_male=0;non_cancer_AC_asj_male=0;non_cancer_AN_asj_male=4936;non_cancer_AF_asj_male=0.00000e+00;non_cancer_nhomalt_asj_male=0;AC_fin=0;AN_fin=21590;AF_fin=0.00000e+00;nhomalt_fin=0;AC_nfe_male=4;AN_nfe_male=63420;AF_nfe_male=6.30716e-05;nhomalt_nfe_male=0;non_topmed_AC_eas_kor=0;non_topmed_AN_eas_kor=3810;non_topmed_AF_eas_kor=0.00000e+00;non_topmed_nhomalt_eas_kor=0;controls_AC_amr_male=0;controls_AN_amr_male=6866;controls_AF_amr_male=0.00000e+00;controls_nhomalt_amr_male=0;non_neuro_AC_eas_oea=0;non_neuro_AN_eas_oea=9448;non_neuro_AF_eas_oea=0.00000e+00;non_neuro_nhomalt_eas_oea=0;AC_sas_female=0;AN_sas_female=7530;AF_sas_female=0.00000e+00;nhomalt_sas_female=0;controls_AC_afr_female=7;controls_AN_afr_female=4240;controls_AF_afr_female=1.65094e-03;controls_nhomalt_afr_female=0;controls_AC_amr=2;controls_AN_amr=17062;controls_AF_amr=1.17220e-04;controls_nhomalt_amr=0;non_topmed_AC_eas_jpn=0;non_topmed_AN_eas_jpn=152;non_topmed_AF_eas_jpn=0.00000e+00;non_topmed_nhomalt_eas_jpn=0;AC_asj_female=0;AN_asj_female=4876;AF_asj_female=0.00000e+00;nhomalt_asj_female=0;non_topmed_AC_nfe_bgr=0;non_topmed_AN_nfe_bgr=2660;non_topmed_AF_nfe_bgr=0.00000e+00;non_topmed_nhomalt_nfe_bgr=0;non_cancer_AC_nfe_est=0;non_cancer_AN_nfe_est=158;non_cancer_AF_nfe_est=0.00000e+00;non_cancer_nhomalt_nfe_est=0;non_neuro_AC_eas=0;non_neuro_AN_eas=13406;non_neuro_AF_eas=0.00000e+00;non_neuro_nhomalt_eas=0;non_cancer_AC_nfe=8;non_cancer_AN_nfe=102402;non_cancer_AF_nfe=7.81235e-05;non_cancer_nhomalt_nfe=1;non_neuro_AC_male=13;non_neuro_AN_male=112256;non_neuro_AF_male=1.15807e-04;non_neuro_nhomalt_male=0;non_neuro_AC_sas_female=0;non_neuro_AN_sas_female=7528;non_neuro_AF_sas_female=0.00000e+00;non_neuro_nhomalt_sas_female=0;AC_asj=0;AN_asj=10016;AF_asj=0.00000e+00;nhomalt_asj=0;controls_AC_nfe_est=0;controls_AN_nfe_est=70;controls_AF_nfe_est=0.00000e+00;controls_nhomalt_nfe_est=0;non_topmed_AC_asj_female=0;non_topmed_AN_asj_female=4830;non_topmed_AF_asj_female=0.00000e+00;non_topmed_nhomalt_asj_female=0;non_cancer_AC_nfe_swe=2;non_cancer_AN_nfe_swe=25276;non_cancer_AF_nfe_swe=7.91264e-05;non_cancer_nhomalt_nfe_swe=1;non_cancer_AC=31;non_cancer_AN=236312;non_cancer_AF=1.31183e-04;non_cancer_nhomalt=1;non_topmed_AC_oth=0;non_topmed_AN_oth=6032;non_topmed_AF_oth=0.00000e+00;non_topmed_nhomalt_oth=0;non_topmed_AC_fin_female=0;non_topmed_AN_fin_female=10336;non_topmed_AF_fin_female=0.00000e+00;non_topmed_nhomalt_fin_female=0;non_cancer_AC_fin_female=0;non_cancer_AN_fin_female=10326;non_cancer_AF_fin_female=0.00000e+00;non_cancer_nhomalt_fin_female=0;AC_oth=0;AN_oth=6108;AF_oth=0.00000e+00;nhomalt_oth=0;non_neuro_AC_nfe_male=3;non_neuro_AN_nfe_male=49624;non_neuro_AF_nfe_male=6.04546e-05;non_neuro_nhomalt_nfe_male=0;controls_AC_female=11;controls_AN_female=51202;controls_AF_female=2.14835e-04;controls_nhomalt_female=1;non_cancer_AC_fin=0;non_cancer_AN_fin=21574;non_cancer_AF_fin=0.00000e+00;non_cancer_nhomalt_fin=0;non_topmed_AC_fin=0;non_topmed_AN_fin=21588;non_topmed_AF_fin=0.00000e+00;non_topmed_nhomalt_fin=0;non_cancer_AC_eas_oea=0;non_cancer_AN_eas_oea=13792;non_cancer_AF_eas_oea=0.00000e+00;non_cancer_nhomalt_eas_oea=0;non_topmed_AC_nfe_female=4;non_topmed_AN_nfe_female=48654;non_topmed_AF_nfe_female=8.22132e-05;non_topmed_nhomalt_nfe_female=1;non_cancer_AC_sas_male=0;non_cancer_AN_sas_male=22996;non_cancer_AF_sas_male=0.00000e+00;non_cancer_nhomalt_sas_male=0;controls_AC_asj_male=0;controls_AN_asj_male=1094;controls_AF_asj_male=0.00000e+00;controls_nhomalt_asj_male=0;non_cancer_AC_raw=31;non_cancer_AN_raw=236956;non_cancer_AF_raw=1.30826e-04;non_cancer_nhomalt_raw=1;non_cancer_AC_eas_male=0;non_cancer_AN_eas_male=8738;non_cancer_AF_eas_male=0.00000e+00;non_cancer_nhomalt_eas_male=0;non_topmed_AC_asj_male=0;non_topmed_AN_asj_male=5104;non_topmed_AF_asj_male=0.00000e+00;non_topmed_nhomalt_asj_male=0;non_neuro_AC_oth=0;non_neuro_AN_oth=4846;non_neuro_AF_oth=0.00000e+00;non_neuro_nhomalt_oth=0;AC_male=14;AN_male=135568;AF_male=1.03269e-04;nhomalt_male=0;controls_AC_fin_female=0;controls_AN_fin_female=6470;controls_AF_fin_female=0.00000e+00;controls_nhomalt_fin_female=0;controls_AC_nfe_bgr=0;controls_AN_nfe_bgr=678;controls_AF_nfe_bgr=0.00000e+00;controls_nhomalt_nfe_bgr=0;controls_AC_asj_female=0;controls_AN_asj_female=1208;controls_AF_asj_female=0.00000e+00;controls_nhomalt_asj_female=0;AC_amr_male=0;AN_amr_male=14290;AF_amr_male=0.00000e+00;nhomalt_amr_male=0;AC_amr_female=3;AN_amr_female=20226;AF_amr_female=1.48324e-04;nhomalt_amr_female=0;non_topmed_AC_sas_male=0;non_topmed_AN_sas_male=23036;non_topmed_AF_sas_male=0.00000e+00;non_topmed_nhomalt_sas_male=0;AC_oth_male=0;AN_oth_male=3186;AF_oth_male=0.00000e+00;nhomalt_oth_male=0;non_cancer_AC_sas=0;non_cancer_AN_sas=30476;non_cancer_AF_sas=0.00000e+00;non_cancer_nhomalt_sas=0;non_neuro_AC_nfe_seu=0;non_neuro_AN_nfe_seu=10926;non_neuro_AF_nfe_seu=0.00000e+00;non_neuro_nhomalt_nfe_seu=0;non_cancer_AC_eas_kor=0;non_cancer_AN_eas_kor=3766;non_cancer_AF_eas_kor=0.00000e+00;non_cancer_nhomalt_eas_kor=0;non_topmed_AC_afr_female=8;non_topmed_AN_afr_female=7336;non_topmed_AF_afr_female=1.09051e-03;non_topmed_nhomalt_afr_female=0;controls_AC_sas_male=0;controls_AN_sas_male=11456;controls_AF_sas_male=0.00000e+00;controls_nhomalt_sas_male=0;non_topmed_AC_sas_female=0;non_topmed_AN_sas_female=7530;non_topmed_AF_sas_female=0.00000e+00;non_topmed_nhomalt_sas_female=0;non_topmed_AC_afr=17;non_topmed_AN_afr=12022;non_topmed_AF_afr=1.41407e-03;non_topmed_nhomalt_afr=0;controls_AC=14;controls_AN=109222;controls_AF=1.28179e-04;controls_nhomalt=1;non_neuro_AC_oth_female=0;non_neuro_AN_oth_female=2386;non_neuro_AF_oth_female=0.00000e+00;non_neuro_nhomalt_oth_female=0;non_topmed_faf95_amr=2.31200e-05;non_topmed_faf99_amr=2.34100e-05;faf95_afr=9.66830e-04;faf99_afr=9.67200e-04;faf95_sas=0.00000e+00;faf99_sas=0.00000e+00;controls_faf95_afr=6.54730e-04;controls_faf99_afr=6.54620e-04;faf95_amr=2.30300e-05;faf99_amr=2.33800e-05;non_neuro_faf95_sas=0.00000e+00;non_neuro_faf99_sas=0.00000e+00;faf95_eas=0.00000e+00;faf99_eas=0.00000e+00;faf95=9.94300e-05;faf99=9.89300e-05;non_neuro_faf95_afr=9.69030e-04;non_neuro_faf99_afr=9.69050e-04;non_cancer_faf95_eas=0.00000e+00;non_cancer_faf99_eas=0.00000e+00;non_neuro_faf95_amr=2.61000e-05;non_neuro_faf99_amr=2.62300e-05;non_topmed_faf95_sas=0.00000e+00;non_topmed_faf99_sas=0.00000e+00;controls_faf95_nfe=1.86300e-05;controls_faf99_nfe=1.81600e-05;non_cancer_faf95_afr=8.89330e-04;non_cancer_faf99_afr=8.89190e-04;non_cancer_faf95_amr=2.32600e-05;non_cancer_faf99_amr=2.34400e-05;non_topmed_faf95=8.13900e-05;non_topmed_faf99=8.13100e-05;non_neuro_faf95_nfe=3.64900e-05;non_neuro_faf99_nfe=3.58700e-05;non_neuro_faf95=1.15840e-04;non_neuro_faf99=1.15450e-04;non_topmed_faf95_nfe=3.48400e-05;non_topmed_faf99_nfe=3.52700e-05;controls_faf95_eas=0.00000e+00;controls_faf99_eas=0.00000e+00;controls_faf95_sas=0.00000e+00;controls_faf99_sas=0.00000e+00;faf95_nfe=3.42700e-05;faf99_nfe=3.48600e-05;non_topmed_faf95_eas=0.00000e+00;non_topmed_faf99_eas=0.00000e+00;controls_faf95_amr=2.03600e-05;controls_faf99_amr=2.02400e-05;non_neuro_faf95_eas=0.00000e+00;non_neuro_faf99_eas=0.00000e+00;non_cancer_faf95_nfe=3.85200e-05;non_cancer_faf99_nfe=3.82000e-05;non_cancer_faf95=9.48900e-05;non_cancer_faf99=9.47500e-05;non_cancer_faf95_sas=0.00000e+00;non_cancer_faf99_sas=0.00000e+00;non_topmed_faf95_afr=9.00250e-04;non_topmed_faf99_afr=9.00830e-04;controls_faf95=7.72000e-05;controls_faf99=7.69900e-05;popmax=afr;AC_popmax=23;AN_popmax=16252;AF_popmax=1.41521e-03;nhomalt_popmax=0;age_hist_het_bin_freq=2|0|2|3|5|4|1|3|3|1;age_hist_het_n_smaller=3;age_hist_het_n_larger=0;age_hist_hom_bin_freq=0|0|0|0|0|0|1|0|0|0;age_hist_hom_n_smaller=0;age_hist_hom_n_larger=0;non_topmed_popmax=afr;non_topmed_AC_popmax=17;non_topmed_AN_popmax=12022;non_topmed_AF_popmax=1.41407e-03;non_topmed_nhomalt_popmax=0;non_neuro_popmax=afr;non_neuro_AC_popmax=23;non_neuro_AN_popmax=16214;non_neuro_AF_popmax=1.41853e-03;non_neuro_nhomalt_popmax=0;non_cancer_popmax=afr;non_cancer_AC_popmax=20;non_cancer_AN_popmax=14898;non_cancer_AF_popmax=1.34246e-03;non_cancer_nhomalt_popmax=0;controls_popmax=afr;controls_AC_popmax=9;controls_AN_popmax=7164;controls_AF_popmax=1.25628e-03;controls_nhomalt_popmax=0;vep=T|stop_gained|HIGH|CCR5|ENSG00000160791|Transcript|ENST00000292303|protein_coding|2/2||ENST00000292303.4:c.673C>T|ENSP00000292303.4:p.Arg225Ter|819|673|225|R/*|Cga/Tga|CM104769&rs146972949&COSM3781819|1||1||SNV|1|HGNC|1606||||CCDS2739.1|ENSP00000292303|P51681|Q9UBT9&Q9P1T4&Q5KSY4&Q5EKN0&Q38L21&J7HJP8&E7BJ57&B8LFP0&B8LFN8&A1A490|UPI000000D955|1|||Superfamily_domains:SSF81321&Gene3D:1.20.1070.10&Pfam_domain:PF00001&hmmpanther:PTHR24227&hmmpanther:PTHR24227:SF45&PROSITE_profiles:PS50262||T:0.0004|T:0|T:0.0015|T:0|T:0|T:0|T:0|T:0.0016|T:0|T:0.0001728|T:1.812e-04|T:0.00154|T:0.0001815|T:0|T:0|T:5.999e-05|T:0||0&0&1|1&0&1||||||HC|||GERP_DIST:708.009800000002&BP_DIST:386&PERCENTILE:0.635505193578848&DIST_FROM_LAST_EXON:-683&50_BP_RULE:FAIL&PHYLOCSF_TOO_SHORT,T|stop_gained|HIGH|CCR5|ENSG00000160791|Transcript|ENST00000343801|protein_coding|3/3||ENST00000343801.4:c.673C>T|ENSP00000343985.4:p.Arg225Ter|1030|673|225|R/*|Cga/Tga|CM104769&rs146972949&COSM3781819|1||1||SNV|1|HGNC|1606|YES|||CCDS2739.1|ENSP00000343985|P51681|Q9UBT9&Q9P1T4&Q5KSY4&Q5EKN0&Q38L21&J7HJP8&E7BJ57&B8LFP0&B8LFN8&A1A490|UPI000000D955|1|||PROSITE_profiles:PS50262&hmmpanther:PTHR24227:SF45&hmmpanther:PTHR24227&Gene3D:1.20.1070.10&Pfam_domain:PF00001&Superfamily_domains:SSF81321||T:0.0004|T:0|T:0.0015|T:0|T:0|T:0|T:0|T:0.0016|T:0|T:0.0001728|T:1.812e-04|T:0.00154|T:0.0001815|T:0|T:0|T:5.999e-05|T:0||0&0&1|1&0&1||||||HC|||GERP_DIST:708.009800000002&BP_DIST:386&PERCENTILE:0.635505193578848&DIST_FROM_LAST_EXON:-683&50_BP_RULE:FAIL&PHYLOCSF_TOO_SHORT,T|stop_gained|HIGH|CCR5|ENSG00000160791|Transcript|ENST00000445772|protein_coding|1/1||ENST00000445772.1:c.673C>T|ENSP00000404881.1:p.Arg225Ter|906|673|225|R/*|Cga/Tga|CM104769&rs146972949&COSM3781819|1||1||SNV|1|HGNC|1606||||CCDS2739.1|ENSP00000404881|P51681|Q9UBT9&Q9P1T4&Q5KSY4&Q5EKN0&Q38L21&J7HJP8&E7BJ57&B8LFP0&B8LFN8&A1A490|UPI000000D955|1|||PROSITE_profiles:PS50262&hmmpanther:PTHR24227:SF45&hmmpanther:PTHR24227&Pfam_domain:PF00001&Gene3D:1.20.1070.10&Superfamily_domains:SSF81321||T:0.0004|T:0|T:0.0015|T:0|T:0|T:0|T:0|T:0.0016|T:0|T:0.0001728|T:1.812e-04|T:0.00154|T:0.0001815|T:0|T:0|T:5.999e-05|T:0||0&0&1|1&0&1||||||HC||SINGLE_EXON|GERP_DIST:708.009800000002&BP_DIST:386&PERCENTILE:0.635505193578848&DIST_FROM_LAST_EXON:-905&50_BP_RULE:FAIL&PHYLOCSF_TOO_SHORT,T|intron_variant&non_coding_transcript_variant|MODIFIER|RP11-24F11.2|ENSG00000223552|Transcript|ENST00000451485|antisense||2/3|ENST00000451485.1:n.392-2158G>A|||||||CM104769&rs146972949&COSM3781819|1||-1||SNV|1|Clone_based_vega_gene||YES|||||||||||||T:0.0004|T:0|T:0.0015|T:0|T:0|T:0|T:0|T:0.0016|T:0|T:0.0001728|T:1.812e-04|T:0.00154|T:0.0001815|T:0|T:0|T:5.999e-05|T:0||0&0&1|1&0&1||||||||| +3 46414943 rs775750898 TACAGTCAGTATCAATTCTGGAAGAATTTCCAG T 1947603.90 PASS AC=2427;AN=31348;AF=7.74212e-02;rf_tp_probability=9.53514e-01;FS=0.00000e+00;InbreedingCoeff=6.00000e-03;MQ=6.03900e+01;MQRankSum=4.52000e-01;QD=1.69200e+01;ReadPosRankSum=-2.90000e-02;SOR=6.82000e-01;VQSR_POSITIVE_TRAIN_SITE;BaseQRankSum=3.50000e-01;ClippingRankSum=-2.60000e-02;DP=651449;VQSLOD=8.95000e-01;VQSR_culprit=MQRankSum;segdup;rf_positive_label;rf_label=TP;rf_train;variant_type=indel;allele_type=del;n_alt_alleles=1;pab_max=1.00000e+00;gq_hist_alt_bin_freq=0|2|0|0|1|1|0|0|2|1|1|4|2|8|10|10|6|10|13|2273;gq_hist_all_bin_freq=0|4|2|7|11|13|42|105|122|293|508|378|1311|490|1227|629|1675|339|1590|6962;dp_hist_alt_bin_freq=0|1|7|103|272|429|467|464|288|169|81|42|9|2|5|1|1|0|0|1;dp_hist_alt_n_larger=2;dp_hist_all_bin_freq=0|6|133|855|2413|3283|3682|4026|918|231|85|47|12|5|7|1|1|0|0|1;dp_hist_all_n_larger=2;ab_hist_alt_bin_freq=0|0|3|13|33|112|269|379|528|329|325|143|68|17|3|0|1|3|4|11;AC_nfe_seu=4;AN_nfe_seu=106;AF_nfe_seu=3.77358e-02;nhomalt_nfe_seu=0;controls_AC_afr_male=26;controls_AN_afr_male=1408;controls_AF_afr_male=1.84659e-02;controls_nhomalt_afr_male=0;non_topmed_AC_amr=22;non_topmed_AN_amr=810;non_topmed_AF_amr=2.71605e-02;non_topmed_nhomalt_amr=1;AC_raw=2447;AN_raw=31416;AF_raw=7.78902e-02;nhomalt_raw=103;AC_fin_female=271;AN_fin_female=1838;AF_fin_female=1.47443e-01;nhomalt_fin_female=20;non_neuro_AC_asj_female=5;non_neuro_AN_asj_female=60;non_neuro_AF_asj_female=8.33333e-02;non_neuro_nhomalt_asj_female=0;non_neuro_AC_afr_male=26;non_neuro_AN_afr_male=1608;non_neuro_AF_afr_male=1.61692e-02;non_neuro_nhomalt_afr_male=0;AC_afr_male=101;AN_afr_male=5026;AF_afr_male=2.00955e-02;nhomalt_afr_male=1;AC_afr=168;AN_afr=8706;AF_afr=1.92970e-02;nhomalt_afr=1;non_neuro_AC_afr_female=29;non_neuro_AN_afr_female=1780;non_neuro_AF_afr_female=1.62921e-02;non_neuro_nhomalt_afr_female=0;non_topmed_AC_amr_female=8;non_topmed_AN_amr_female=394;non_topmed_AF_amr_female=2.03046e-02;non_topmed_nhomalt_amr_female=0;non_topmed_AC_oth_female=53;non_topmed_AN_oth_female=546;non_topmed_AF_oth_female=9.70696e-02;non_topmed_nhomalt_oth_female=3;AC_eas_female=0;AN_eas_female=538;AF_eas_female=0.00000e+00;nhomalt_eas_female=0;AC_afr_female=67;AN_afr_female=3680;AF_afr_female=1.82065e-02;nhomalt_afr_female=0;non_neuro_AC_female=807;non_neuro_AN_female=9576;non_neuro_AF_female=8.42732e-02;non_neuro_nhomalt_female=31;controls_AC_afr=45;controls_AN_afr=2574;controls_AF_afr=1.74825e-02;controls_nhomalt_afr=0;AC_nfe_onf=190;AN_nfe_onf=2136;AF_nfe_onf=8.89513e-02;nhomalt_nfe_onf=8;controls_AC_fin_male=74;controls_AN_fin_male=606;controls_AF_fin_male=1.22112e-01;controls_nhomalt_fin_male=6;non_neuro_AC_nfe_nwe=800;non_neuro_AN_nfe_nwe=7682;non_neuro_AF_nfe_nwe=1.04140e-01;non_neuro_nhomalt_nfe_nwe=21;AC_fin_male=207;AN_fin_male=1630;AF_fin_male=1.26994e-01;nhomalt_fin_male=16;AC_nfe_female=730;AN_nfe_female=6792;AF_nfe_female=1.07479e-01;nhomalt_nfe_female=27;AC_amr=23;AN_amr=848;AF_amr=2.71226e-02;nhomalt_amr=1;non_topmed_AC_nfe_male=572;non_topmed_AN_nfe_male=5458;non_topmed_AF_nfe_male=1.04800e-01;non_topmed_nhomalt_nfe_male=23;AC_eas=0;AN_eas=1558;AF_eas=0.00000e+00;nhomalt_eas=0;nhomalt=102;non_neuro_AC_nfe_female=641;non_neuro_AN_nfe_female=5970;non_neuro_AF_nfe_female=1.07370e-01;non_neuro_nhomalt_nfe_female=22;non_neuro_AC_afr=55;non_neuro_AN_afr=3388;non_neuro_AF_afr=1.62338e-02;non_neuro_nhomalt_afr=0;controls_AC_raw=885;controls_AN_raw=10884;controls_AF_raw=8.13120e-02;controls_nhomalt_raw=41;controls_AC_male=464;controls_AN_male=5854;controls_AF_male=7.92620e-02;controls_nhomalt_male=24;non_topmed_AC_male=946;non_topmed_AN_male=13976;non_topmed_AF_male=6.76875e-02;non_topmed_nhomalt_male=43;controls_AC_nfe_female=281;controls_AN_nfe_female=2572;controls_AF_nfe_female=1.09253e-01;controls_nhomalt_nfe_female=9;non_neuro_AC_amr=15;non_neuro_AN_amr=554;non_neuro_AF_amr=2.70758e-02;non_neuro_nhomalt_amr=0;non_neuro_AC_eas_female=0;non_neuro_AN_eas_female=538;non_neuro_AF_eas_female=0.00000e+00;non_neuro_nhomalt_eas_female=0;AC_asj_male=30;AN_asj_male=210;AF_asj_male=1.42857e-01;nhomalt_asj_male=2;controls_AC_nfe_male=332;controls_AN_nfe_male=2932;controls_AF_nfe_male=1.13233e-01;controls_nhomalt_nfe_male=16;non_neuro_AC_fin=163;non_neuro_AN_fin=1160;non_neuro_AF_fin=1.40517e-01;non_neuro_nhomalt_fin=13;AC_oth_female=56;AN_oth_female=562;AF_oth_female=9.96441e-02;nhomalt_oth_female=3;controls_AC_nfe=613;controls_AN_nfe=5504;controls_AF_nfe=1.11374e-01;controls_nhomalt_nfe=25;controls_AC_oth_female=23;controls_AN_oth_female=226;controls_AF_oth_female=1.01770e-01;controls_nhomalt_oth_female=2;controls_AC_asj=3;controls_AN_asj=38;controls_AF_asj=7.89474e-02;controls_nhomalt_asj=0;non_neuro_AC_amr_male=7;non_neuro_AN_amr_male=244;non_neuro_AF_amr_male=2.86885e-02;non_neuro_nhomalt_amr_male=0;controls_AC_nfe_nwe=88;controls_AN_nfe_nwe=922;controls_AF_nfe_nwe=9.54447e-02;controls_nhomalt_nfe_nwe=1;AC_nfe_nwe=891;AN_nfe_nwe=8576;AF_nfe_nwe=1.03895e-01;nhomalt_nfe_nwe=24;controls_AC_nfe_seu=2;controls_AN_nfe_seu=56;controls_AF_nfe_seu=3.57143e-02;controls_nhomalt_nfe_seu=0;non_neuro_AC_amr_female=8;non_neuro_AN_amr_female=310;non_neuro_AF_amr_female=2.58065e-02;non_neuro_nhomalt_amr_female=0;non_neuro_AC_nfe_onf=156;non_neuro_AN_nfe_onf=1722;non_neuro_AF_nfe_onf=9.05923e-02;non_neuro_nhomalt_nfe_onf=6;non_topmed_AC_eas_male=0;non_topmed_AN_eas_male=1000;non_topmed_AF_eas_male=0.00000e+00;non_topmed_nhomalt_eas_male=0;controls_AC_amr_female=3;controls_AN_amr_female=120;controls_AF_amr_female=2.50000e-02;controls_nhomalt_amr_female=0;non_neuro_AC_fin_male=74;non_neuro_AN_fin_male=606;non_neuro_AF_fin_male=1.22112e-01;non_neuro_nhomalt_fin_male=6;AC_female=1138;AN_female=13904;AF_female=8.18470e-02;nhomalt_female=50;non_neuro_AC_oth_male=36;non_neuro_AN_oth_male=368;non_neuro_AF_oth_male=9.78261e-02;non_neuro_nhomalt_oth_male=2;non_topmed_AC_nfe_est=533;non_topmed_AN_nfe_est=4552;non_topmed_AF_nfe_est=1.17091e-01;non_topmed_nhomalt_nfe_est=25;non_topmed_AC_nfe_nwe=521;non_topmed_AN_nfe_nwe=4884;non_topmed_AF_nfe_nwe=1.06675e-01;non_topmed_nhomalt_nfe_nwe=14;non_topmed_AC_amr_male=14;non_topmed_AN_amr_male=416;non_topmed_AF_amr_male=3.36538e-02;non_topmed_nhomalt_amr_male=1;non_topmed_AC_nfe_onf=132;non_topmed_AN_nfe_onf=1514;non_topmed_AF_nfe_onf=8.71863e-02;non_topmed_nhomalt_nfe_onf=7;controls_AC_eas_male=0;controls_AN_eas_male=572;controls_AF_eas_male=0.00000e+00;controls_nhomalt_eas_male=0;controls_AC_oth_male=26;controls_AN_oth_male=196;controls_AF_oth_male=1.32653e-01;controls_nhomalt_oth_male=2;non_topmed_AC=1966;non_topmed_AN=26546;non_topmed_AF=7.40601e-02;non_topmed_nhomalt=89;controls_AC_fin=161;controls_AN_fin=1158;controls_AF_fin=1.39033e-01;controls_nhomalt_fin=12;non_neuro_AC_nfe=1440;non_neuro_AN_nfe=13586;non_neuro_AF_nfe=1.05991e-01;non_neuro_nhomalt_nfe=49;non_neuro_AC_fin_female=89;non_neuro_AN_fin_female=554;non_neuro_AF_fin_female=1.60650e-01;non_neuro_nhomalt_fin_female=7;non_topmed_AC_nfe_seu=4;non_topmed_AN_nfe_seu=106;non_topmed_AF_nfe_seu=3.77358e-02;non_topmed_nhomalt_nfe_seu=0;controls_AC_eas_female=0;controls_AN_eas_female=342;controls_AF_eas_female=0.00000e+00;controls_nhomalt_eas_female=0;non_topmed_AC_asj=15;non_topmed_AN_asj=138;non_topmed_AF_asj=1.08696e-01;non_topmed_nhomalt_asj=0;controls_AC_nfe_onf=46;controls_AN_nfe_onf=440;controls_AF_nfe_onf=1.04545e-01;controls_nhomalt_nfe_onf=2;non_neuro_AC=1774;non_neuro_AN=21224;non_neuro_AF=8.35846e-02;non_neuro_nhomalt=68;non_topmed_AC_nfe=1190;non_topmed_AN_nfe=11056;non_topmed_AF_nfe=1.07634e-01;non_topmed_nhomalt_nfe=46;non_topmed_AC_raw=1983;non_topmed_AN_raw=26608;non_topmed_AF_raw=7.45265e-02;non_topmed_nhomalt_raw=90;non_neuro_AC_nfe_est=482;non_neuro_AN_nfe_est=4128;non_neuro_AF_nfe_est=1.16764e-01;non_neuro_nhomalt_nfe_est=22;non_topmed_AC_oth_male=41;non_topmed_AN_oth_male=464;non_topmed_AF_oth_male=8.83621e-02;non_topmed_nhomalt_oth_male=2;AC_nfe_est=536;AN_nfe_est=4574;AF_nfe_est=1.17184e-01;nhomalt_nfe_est=25;non_topmed_AC_afr_male=100;non_topmed_AN_afr_male=4932;non_topmed_AF_afr_male=2.02758e-02;non_topmed_nhomalt_afr_male=1;AC_eas_male=0;AN_eas_male=1020;AF_eas_male=0.00000e+00;nhomalt_eas_male=0;controls_AC_eas=0;controls_AN_eas=914;controls_AF_eas=0.00000e+00;controls_nhomalt_eas=0;non_neuro_AC_eas_male=0;non_neuro_AN_eas_male=1020;non_neuro_AF_eas_male=0.00000e+00;non_neuro_nhomalt_eas_male=0;non_neuro_AC_asj_male=25;non_neuro_AN_asj_male=186;non_neuro_AF_asj_male=1.34409e-01;non_neuro_nhomalt_asj_male=2;controls_AC_oth=49;controls_AN_oth=422;controls_AF_oth=1.16114e-01;controls_nhomalt_oth=4;AC_nfe=1621;AN_nfe=15392;AF_nfe=1.05314e-01;nhomalt_nfe=57;non_topmed_AC_female=1020;non_topmed_AN_female=12570;non_topmed_AF_female=8.11456e-02;non_topmed_nhomalt_female=46;non_neuro_AC_asj=30;non_neuro_AN_asj=246;non_neuro_AF_asj=1.21951e-01;non_neuro_nhomalt_asj=2;non_topmed_AC_eas_female=0;non_topmed_AN_eas_female=520;non_topmed_AF_eas_female=0.00000e+00;non_topmed_nhomalt_eas_female=0;non_neuro_AC_raw=1791;non_neuro_AN_raw=21272;non_neuro_AF_raw=8.41952e-02;non_neuro_nhomalt_raw=69;non_topmed_AC_eas=0;non_topmed_AN_eas=1520;non_topmed_AF_eas=0.00000e+00;non_topmed_nhomalt_eas=0;non_topmed_AC_fin_male=207;non_topmed_AN_fin_male=1630;non_topmed_AF_fin_male=1.26994e-01;non_topmed_nhomalt_fin_male=16;AC_fin=478;AN_fin=3468;AF_fin=1.37832e-01;nhomalt_fin=36;AC_nfe_male=891;AN_nfe_male=8600;AF_nfe_male=1.03605e-01;nhomalt_nfe_male=30;controls_AC_amr_male=4;controls_AN_amr_male=126;controls_AF_amr_male=3.17460e-02;controls_nhomalt_amr_male=0;controls_AC_afr_female=19;controls_AN_afr_female=1166;controls_AF_afr_female=1.62950e-02;controls_nhomalt_afr_female=0;controls_AC_amr=7;controls_AN_amr=246;controls_AF_amr=2.84553e-02;controls_nhomalt_amr=0;AC_asj_female=5;AN_asj_female=80;AF_asj_female=6.25000e-02;nhomalt_asj_female=0;non_neuro_AC_eas=0;non_neuro_AN_eas=1558;non_neuro_AF_eas=0.00000e+00;non_neuro_nhomalt_eas=0;non_neuro_AC_male=967;non_neuro_AN_male=11648;non_neuro_AF_male=8.30185e-02;non_neuro_nhomalt_male=37;AC_asj=35;AN_asj=290;AF_asj=1.20690e-01;nhomalt_asj=2;controls_AC_nfe_est=477;controls_AN_nfe_est=4086;controls_AF_nfe_est=1.16740e-01;controls_nhomalt_nfe_est=22;non_topmed_AC_asj_female=3;non_topmed_AN_asj_female=62;non_topmed_AF_asj_female=4.83871e-02;non_topmed_nhomalt_asj_female=0;non_topmed_AC_oth=94;non_topmed_AN_oth=1010;non_topmed_AF_oth=9.30693e-02;non_topmed_nhomalt_oth=5;non_topmed_AC_fin_female=271;non_topmed_AN_fin_female=1838;non_topmed_AF_fin_female=1.47443e-01;non_topmed_nhomalt_fin_female=20;AC_oth=102;AN_oth=1086;AF_oth=9.39227e-02;nhomalt_oth=5;non_neuro_AC_nfe_male=799;non_neuro_AN_nfe_male=7616;non_neuro_AF_nfe_male=1.04911e-01;non_neuro_nhomalt_nfe_male=27;controls_AC_female=414;controls_AN_female=5002;controls_AF_female=8.27669e-02;controls_nhomalt_female=17;non_topmed_AC_fin=478;non_topmed_AN_fin=3468;non_topmed_AF_fin=1.37832e-01;non_topmed_nhomalt_fin=36;non_topmed_AC_nfe_female=618;non_topmed_AN_nfe_female=5598;non_topmed_AF_nfe_female=1.10397e-01;non_topmed_nhomalt_nfe_female=23;controls_AC_asj_male=2;controls_AN_asj_male=14;controls_AF_asj_male=1.42857e-01;controls_nhomalt_asj_male=0;non_topmed_AC_asj_male=12;non_topmed_AN_asj_male=76;non_topmed_AF_asj_male=1.57895e-01;non_topmed_nhomalt_asj_male=0;non_neuro_AC_oth=71;non_neuro_AN_oth=732;non_neuro_AF_oth=9.69945e-02;non_neuro_nhomalt_oth=4;AC_male=1289;AN_male=17444;AF_male=7.38936e-02;nhomalt_male=52;controls_AC_fin_female=87;controls_AN_fin_female=552;controls_AF_fin_female=1.57609e-01;controls_nhomalt_fin_female=6;controls_AC_asj_female=1;controls_AN_asj_female=24;controls_AF_asj_female=4.16667e-02;controls_nhomalt_asj_female=0;AC_amr_male=14;AN_amr_male=434;AF_amr_male=3.22581e-02;nhomalt_amr_male=1;AC_amr_female=9;AN_amr_female=414;AF_amr_female=2.17391e-02;nhomalt_amr_female=0;AC_oth_male=46;AN_oth_male=524;AF_oth_male=8.77863e-02;nhomalt_oth_male=2;non_neuro_AC_nfe_seu=2;non_neuro_AN_nfe_seu=54;non_neuro_AF_nfe_seu=3.70370e-02;non_neuro_nhomalt_nfe_seu=0;non_topmed_AC_afr_female=67;non_topmed_AN_afr_female=3612;non_topmed_AF_afr_female=1.85493e-02;non_topmed_nhomalt_afr_female=0;non_topmed_AC_afr=167;non_topmed_AN_afr=8544;non_topmed_AF_afr=1.95459e-02;non_topmed_nhomalt_afr=1;controls_AC=878;controls_AN=10856;controls_AF=8.08769e-02;controls_nhomalt=41;non_neuro_AC_oth_female=35;non_neuro_AN_oth_female=364;non_neuro_AF_oth_female=9.61538e-02;non_neuro_nhomalt_oth_female=2;non_topmed_faf95_amr=1.83865e-02;non_topmed_faf99_amr=1.83872e-02;faf95_afr=1.69148e-02;faf99_afr=1.69145e-02;controls_faf95_afr=1.34271e-02;controls_faf99_afr=1.34270e-02;faf95_amr=1.85367e-02;faf99_amr=1.85368e-02;faf95_eas=0.00000e+00;faf99_eas=0.00000e+00;faf95=7.48535e-02;faf99=7.48541e-02;non_neuro_faf95_afr=1.28081e-02;non_neuro_faf99_afr=1.28087e-02;non_neuro_faf95_amr=1.66897e-02;non_neuro_faf99_amr=1.66898e-02;controls_faf95_nfe=1.04079e-01;controls_faf99_nfe=1.04079e-01;non_topmed_faf95=7.13334e-02;non_topmed_faf99=7.13338e-02;non_neuro_faf95_nfe=1.01439e-01;non_neuro_faf99_nfe=1.01439e-01;non_neuro_faf95=8.03470e-02;non_neuro_faf99=8.03471e-02;non_topmed_faf95_nfe=1.02553e-01;non_topmed_faf99_nfe=1.02553e-01;controls_faf95_eas=0.00000e+00;controls_faf99_eas=0.00000e+00;faf95_nfe=1.01049e-01;faf99_nfe=1.01049e-01;non_topmed_faf95_eas=0.00000e+00;non_topmed_faf99_eas=0.00000e+00;controls_faf95_amr=1.33541e-02;controls_faf99_amr=1.33544e-02;non_neuro_faf95_eas=0.00000e+00;non_neuro_faf99_eas=0.00000e+00;non_topmed_faf95_afr=1.71260e-02;non_topmed_faf99_afr=1.71258e-02;controls_faf95=7.64398e-02;controls_faf99=7.64402e-02;controls_popmax=nfe;controls_AC_popmax=613;controls_AN_popmax=5504;controls_AF_popmax=1.11374e-01;controls_nhomalt_popmax=25;popmax=nfe;AC_popmax=1621;AN_popmax=15392;AF_popmax=1.05314e-01;nhomalt_popmax=57;age_hist_het_bin_freq=105|106|166|234|289|221|173|108|56|15;age_hist_het_n_smaller=251;age_hist_het_n_larger=7;age_hist_hom_bin_freq=3|3|5|12|10|10|8|8|4|0;age_hist_hom_n_smaller=12;age_hist_hom_n_larger=1;non_neuro_popmax=nfe;non_neuro_AC_popmax=1440;non_neuro_AN_popmax=13586;non_neuro_AF_popmax=1.05991e-01;non_neuro_nhomalt_popmax=49;non_topmed_popmax=nfe;non_topmed_AC_popmax=1190;non_topmed_AN_popmax=11056;non_topmed_AF_popmax=1.07634e-01;non_topmed_nhomalt_popmax=46;vep=-|frameshift_variant|HIGH|CCR5|ENSG00000160791|Transcript|ENST00000292303|protein_coding|2/2||ENST00000292303.4:c.554_585delGTCAGTATCAATTCTGGAAGAATTTCCAGACA|ENSP00000292303.4:p.Ser185IlefsTer32|697-728|551-582|184-194|YSQYQFWKNFQ/X|tACAGTCAGTATCAATTCTGGAAGAATTTCCAG/t|rs562091107&COSM1423390|1||1||deletion|1|HGNC|1606||||CCDS2739.1|ENSP00000292303|P51681|Q9UBT9&Q9P1T4&Q5KSY4&Q5EKN0&Q38L21&J7HJP8&E7BJ57&B8LFP0&B8LFN8&A1A490|UPI000000D955|1|||Prints_domain:PR01110&Prints_domain:PR01110&Superfamily_domains:SSF81321&Gene3D:1.20.1070.10&Pfam_domain:PF00001&hmmpanther:PTHR24227&hmmpanther:PTHR24227:SF45&PROSITE_profiles:PS50262|3|-:0.0292||-:0.003|-:0.0317|-:0|-:0.1103|-:0.0092|-:0.0136|-:0.0847||||||||||0&1|0&1||||||HC|||GERP_DIST:923.849800000004&BP_DIST:508&PERCENTILE:0.54957507082153&DIST_FROM_LAST_EXON:-561&50_BP_RULE:FAIL&PHYLOCSF_TOO_SHORT,-|frameshift_variant|HIGH|CCR5|ENSG00000160791|Transcript|ENST00000343801|protein_coding|3/3||ENST00000343801.4:c.554_585delGTCAGTATCAATTCTGGAAGAATTTCCAGACA|ENSP00000343985.4:p.Ser185IlefsTer32|908-939|551-582|184-194|YSQYQFWKNFQ/X|tACAGTCAGTATCAATTCTGGAAGAATTTCCAG/t|rs562091107&COSM1423390|1||1||deletion|1|HGNC|1606|YES|||CCDS2739.1|ENSP00000343985|P51681|Q9UBT9&Q9P1T4&Q5KSY4&Q5EKN0&Q38L21&J7HJP8&E7BJ57&B8LFP0&B8LFN8&A1A490|UPI000000D955|1|||PROSITE_profiles:PS50262&hmmpanther:PTHR24227:SF45&hmmpanther:PTHR24227&Gene3D:1.20.1070.10&Pfam_domain:PF00001&Superfamily_domains:SSF81321&Prints_domain:PR01110&Prints_domain:PR01110|3|-:0.0292||-:0.003|-:0.0317|-:0|-:0.1103|-:0.0092|-:0.0136|-:0.0847||||||||||0&1|0&1||||||HC|||GERP_DIST:923.849800000004&BP_DIST:508&PERCENTILE:0.54957507082153&DIST_FROM_LAST_EXON:-561&50_BP_RULE:FAIL&PHYLOCSF_TOO_SHORT,-|frameshift_variant|HIGH|CCR5|ENSG00000160791|Transcript|ENST00000445772|protein_coding|1/1||ENST00000445772.1:c.554_585delGTCAGTATCAATTCTGGAAGAATTTCCAGACA|ENSP00000404881.1:p.Ser185IlefsTer32|784-815|551-582|184-194|YSQYQFWKNFQ/X|tACAGTCAGTATCAATTCTGGAAGAATTTCCAG/t|rs562091107&COSM1423390|1||1||deletion|1|HGNC|1606||||CCDS2739.1|ENSP00000404881|P51681|Q9UBT9&Q9P1T4&Q5KSY4&Q5EKN0&Q38L21&J7HJP8&E7BJ57&B8LFP0&B8LFN8&A1A490|UPI000000D955|1|||PROSITE_profiles:PS50262&hmmpanther:PTHR24227:SF45&hmmpanther:PTHR24227&Pfam_domain:PF00001&Gene3D:1.20.1070.10&Superfamily_domains:SSF81321&Prints_domain:PR01110&Prints_domain:PR01110|3|-:0.0292||-:0.003|-:0.0317|-:0|-:0.1103|-:0.0092|-:0.0136|-:0.0847||||||||||0&1|0&1||||||HC||SINGLE_EXON|GERP_DIST:923.849800000004&BP_DIST:508&PERCENTILE:0.54957507082153&DIST_FROM_LAST_EXON:-783&50_BP_RULE:FAIL&PHYLOCSF_TOO_SHORT,-|intron_variant&non_coding_transcript_variant|MODIFIER|RP11-24F11.2|ENSG00000223552|Transcript|ENST00000451485|antisense||2/3|ENST00000451485.1:n.392-2067_392-2036delCTGGAAATTCTTCCAGAATTGATACTGACTGT|||||||rs562091107&COSM1423390|1||-1||deletion|1|Clone_based_vega_gene||YES|||||||||||||-:0.0292||-:0.003|-:0.0317|-:0|-:0.1103|-:0.0092|-:0.0136|-:0.0847||||||||||0&1|0&1|||||||||
--- a/test-data/results/Nonessential_Host_Genes_(Basic).txt Mon Apr 20 17:04:56 2020 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,1 +0,0 @@ -CCR5
--- a/test-data/results/Nonessential_Host_Genes_(Detailed).txt Mon Apr 20 17:04:56 2020 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,5 +0,0 @@ -Chromosome Position_Start RSID Reference_Allele Alternate_Allele Score Quality LoF_Variant LoF_Annotation HGNC_Symbol Ensembl Code -3 46414935 rs938517991 AT A 9974.16 PASS - frameshift_variant CCR5 ENSG00000160791 -3 46414943 rs775750898 TACAGTCAGTATCAATTCTGGAAGAATTTCCAG T 74264261.52 PASS - frameshift_variant CCR5 ENSG00000160791 -3 46415066 rs146972949 C T 120238.89 PASS T stop_gained CCR5 ENSG00000160791 -3 46414943 rs775750898 TACAGTCAGTATCAATTCTGGAAGAATTTCCAG T 1947603.90 PASS - frameshift_variant CCR5 ENSG00000160791
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/results/Nonessential_Host_Genes_Basic.txt Wed Jan 13 18:35:15 2021 +0000 @@ -0,0 +1,2 @@ +HGNC_Symbol +CCR5
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/results/Nonessential_Host_Genes_Detailed.txt Wed Jan 13 18:35:15 2021 +0000 @@ -0,0 +1,5 @@ +Chromosome Position_Start RSID Reference_Allele Alternate_Allele Score Quality LoF_Variant LoF_Annotation HGNC_Symbol Ensembl Code african-AC african-AN african-AF ashkenazi-jewish-AC ashkenazi-jewish-AN ashkenazi-jewish-AF european-non-finnish-AC european-non-finnish-AN european-non-finnish-AF finnish-AC finnish-AN finnish-AF south-asian-AC south-asian-AN south-asian-AF latino-AC latino-AN latino-AF east-asian-AC east-asian-AN east-asian-AF other-AC other-AF other-AN male-AC male-AF male-AN female-AC female-AN female-AF +3 46414935 rs938517991 AT A 9974.16 PASS - frameshift_variant CCR5 ENSG00000160791 0 16192 0.0000000000e+00 0 10066 0.0000000000e+00 2 113380 1.7639800000e-05 0 21600 0.0000000000e+00 0 30616 0.0000000000e+00 0 34578 0.0000000000e+00 0 18394 0.0000000000e+00 0 0.0000000000e+00 6120 0 0.0000000000e+00 135678 2 115268 1.7350900000e-05 +3 46414943 rs775750898 TACAGTCAGTATCAATTCTGGAAGAATTTCCAG T 74264261.52 PASS - frameshift_variant CCR5 ENSG00000160791 311 16196 1.9202300000e-02 1296 10068 1.2872500000e-01 12203 113462 1.0755100000e-01 2881 21580 1.3350300000e-01 489 30610 1.5975200000e-02 1014 34580 2.9323300000e-02 2 18392 1.0874300000e-04 444 7.2572700000e-02 6118 10108 7.4499900000e-02 135678 8532 115328 7.3980300000e-02 +3 46415066 rs146972949 C T 120238.89 PASS T stop_gained CCR5 ENSG00000160791 23 16252 1.4152100000e-03 0 10016 0.0000000000e+00 8 113418 7.0535500000e-05 0 21590 0.0000000000e+00 0 30566 0.0000000000e+00 3 34516 8.6916200000e-05 0 18382 0.0000000000e+00 0 0.0000000000e+00 6108 14 1.0326900000e-04 135568 20 115280 1.7349100000e-04 +3 46414943 rs775750898 TACAGTCAGTATCAATTCTGGAAGAATTTCCAG T 1947603.90 PASS - frameshift_variant CCR5 ENSG00000160791 168 8706 1.9297000000e-02 35 290 1.2069000000e-01 1621 15392 1.0531400000e-01 478 3468 1.3783200000e-01 23 848 2.7122600000e-02 0 1558 0.0000000000e+00 102 9.3922700000e-02 1086 1289 7.3893600000e-02 17444 1138 13904 8.1847000000e-02