17-37829854-G-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37829854
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37829854
    reference: chr 17
allele count: 1
allele frequency: 8.252459232851389e-6
allele num: 121176
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.484C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.544C>G
  hgvsp: ENSP00000415765.2:p.Leu182Val
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.607C>G
  hgvsp: ENSP00000300658.4:p.Leu203Val
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.992C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.454C>G
  hgvsp: ENSP00000367250.4:p.Leu152Val
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-735C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*284C>G
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 10729
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 51
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5346
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1112
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 109
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2654
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 264
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 90
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 738
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3889
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 163
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8789
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5406
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 144
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11432
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7410
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 243
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1760
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 371
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 20535
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 4696
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 10
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2311
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 48
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 16
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4352
  bin: 8.25e1
  variant carriers: 0
hgvs: p.Leu203Val
num of homozygotes: 0
population: South Asian
population: European (Finnish)
population: European (Non-Finnish)
population: Other
population: African
population: East Asian
population: Latino
reference allele: G
site quality: FS
site quality: InbreedingCoeff
site quality: QD
site quality: ClippingRankSum
site quality: BaseQRankSum
site quality: DP
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: MQ

17-37829855-G-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37829855
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37829855
    reference: chr 17
allele count: 8
allele frequency: 6.602076353013023e-5
allele num: 121174
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.543C>G
  hgvsp: ENST00000429199.2:c.543C>G(p.%3D)
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.453C>G
  hgvsp: ENST00000378011.4:c.453C>G(p.%3D)
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.606C>G
  hgvsp: ENST00000300658.4:c.606C>G(p.%3D)
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.483C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*283C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.991C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-736C>G
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 109
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2654
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8790
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 51
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5406
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 738
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3889
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 162
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 372
  bin: 7.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1112
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1760
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10725
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11433
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 243
  bin: 9.75e1
  variant carriers: 5
genotype depth: GenotypeDepth
  all individuals: 263
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5351
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 144
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 89
  bin: 9.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 7409
  bin: 4.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 4695
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 28
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 179
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 11
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 16
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5832
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 48
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3866
  bin: 9.25e1
  variant carriers: 0
hgvs: p.Leu202Leu
num of homozygotes: 0
population: European (Non-Finnish)
population: East Asian
population: African
population: European (Finnish)
population: Other
population: Latino
population: South Asian
reference allele: G
site quality: DP
site quality: ClippingRankSum
site quality: ReadPosRankSum
site quality: FS
site quality: MQRankSum
site quality: QD
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: VQSLOD
site quality: MQ

17-37829859-G-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37829859
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37829859
    reference: chr 17
allele count: 1
allele frequency: 8.253821519363466e-6
allele num: 121156
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.987C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.539C>G
  hgvsp: ENSP00000415765.2:p.Ala180Gly
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.602C>G
  hgvsp: ENSP00000300658.4:p.Ala201Gly
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.449C>G
  hgvsp: ENSP00000367250.4:p.Ala150Gly
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*279C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.479C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-740C>G
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 119
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10721
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7409
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1112
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11409
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8790
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3889
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1760
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 59
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 263
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 238
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 738
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2654
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 88
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 182
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5407
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 144
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 371
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5347
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 52
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 30
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 20528
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 201
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 15849
  bin: 6.25e1
  variant carriers: 0
hgvs: p.Ala201Gly
num of homozygotes: 0
population: African
population: European (Non-Finnish)
population: Latino
population: East Asian
population: European (Finnish)
population: South Asian
population: Other
reference allele: G
site quality: QD
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: ReadPosRankSum
site quality: MQ
site quality: FS
site quality: DP
site quality: MQRankSum

17-37829862-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37829862
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37829862
    reference: chr 17
allele count: 4
allele frequency: 3.302182742792986e-5
allele num: 121132
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*276G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.536G>A
  hgvsp: ENSP00000415765.2:p.Arg179Gln
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.599G>A
  hgvsp: ENSP00000300658.4:p.Arg200Gln
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.446G>A
  hgvsp: ENSP00000367250.4:p.Arg149Gln
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.984G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-743G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.476G>A
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 2654
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 64
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3889
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5407
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 237
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 187
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 264
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 128
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1759
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 370
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5342
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11401
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 86
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10713
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8795
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 146
  bin: 8.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 1113
  bin: 6.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 7407
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 738
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 214
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2311
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 60
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5818
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2843
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4690
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 55
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 17
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 20523
  bin: 9.75e1
  variant carriers: 4
hgvs: p.Arg200Gln
num of homozygotes: 0
population: European (Finnish)
population: Other
population: East Asian
population: Latino
population: African
population: European (Non-Finnish)
population: South Asian
reference allele: C
site quality: VQSLOD
site quality: MQ
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: FS
site quality: ClippingRankSum
site quality: MQRankSum
site quality: BaseQRankSum
site quality: DP
site quality: QD

17-37829863-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37829863
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37829863
    reference: chr 17
allele count: 5
allele frequency: 4.128069219464672e-5
allele num: 121122
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.445C>T
  hgvsp: ENSP00000367250.4:p.Arg149Trp
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.598C>T
  hgvsp: ENSP00000300658.4:p.Arg200Trp
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*275C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.535C>T
  hgvsp: ENSP00000415765.2:p.Arg179Trp
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.983C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.475C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-744C>T
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7409
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2652
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 370
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 738
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8794
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 133
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11395
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 195
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10711
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5406
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 86
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 263
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3889
  bin: 5.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 72
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5336
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1112
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1759
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 237
  bin: 9.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 143
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2313
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 10
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 63
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 57
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 18
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2842
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 29
  bin: 5.25e1
  variant carriers: 0
hgvs: p.Arg200Trp
num of homozygotes: 0
population: East Asian
population: South Asian
population: Latino
population: European (Non-Finnish)
population: European (Finnish)
population: African
population: Other
reference allele: G
site quality: FS
site quality: MQRankSum
site quality: QD
site quality: MQ
site quality: BaseQRankSum
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: DP
site quality: ClippingRankSum

17-37829869-C-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37829869
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37829869
    reference: chr 17
allele count: 1
allele frequency: 8.258865892535638e-6
allele num: 121082
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.469G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.592G>C
  hgvsp: ENSP00000300658.4:p.Ala198Pro
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.529G>C
  hgvsp: ENSP00000415765.2:p.Ala177Pro
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-750G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.977G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.439G>C
  hgvsp: ENSP00000367250.4:p.Ala147Pro
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*269G>C
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 234
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10700
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 86
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 738
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8793
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11344
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3887
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5406
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 263
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2652
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 143
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 86
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1112
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 232
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1759
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 153
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5334
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7407
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 370
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4680
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3863
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 70
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 269
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 15794
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 20515
  bin: 9.75e1
  variant carriers: 1
hgvs: p.Ala198Pro
num of homozygotes: 0
population: Other
population: European (Finnish)
population: European (Non-Finnish)
population: Latino
population: East Asian
population: African
population: South Asian
reference allele: C
site quality: DP
site quality: MQRankSum
site quality: QD
site quality: InbreedingCoeff
site quality: MQ
site quality: ReadPosRankSum
site quality: FS
site quality: BaseQRankSum
site quality: VQSLOD
site quality: ClippingRankSum

17-37829878-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37829878
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37829878
    reference: chr 17
allele count: 2
allele frequency: 1.653220473482343e-5
allele num: 120976
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*260G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.520G>A
  hgvsp: ENSP00000415765.2:p.Val174Met
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.460G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.583G>A
  hgvsp: ENSP00000300658.4:p.Val195Met
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.430G>A
  hgvsp: ENSP00000367250.4:p.Val144Met
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.968G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-759G>A
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 7405
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10668
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 142
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 143
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 201
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1113
  bin: 6.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1759
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5278
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11246
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 263
  bin: 8.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3886
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8787
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 234
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5408
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 315
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2652
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 86
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 738
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 370
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 55
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4344
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 52
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 19
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 26
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 14
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 101
  bin: 3.25e1
  variant carriers: 0
hgvs: p.Val195Met
num of homozygotes: 0
population: East Asian
population: African
population: European (Finnish)
population: Latino
population: European (Non-Finnish)
population: South Asian
population: Other
reference allele: C
site quality: ClippingRankSum
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: FS
site quality: MQ
site quality: QD
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: DP

17-37829885-G-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37829885
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37829885
    reference: chr 17
allele count: 2
allele frequency: 1.654369189028224e-5
allele num: 120892
alternate allele: T
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.576C>A
  hgvsp: ENSP00000300658.4:p.His192Gln
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-766C>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.453C>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.513C>A
  hgvsp: ENSP00000415765.2:p.His171Gln
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.423C>A
  hgvsp: ENSP00000367250.4:p.His141Gln
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*253C>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.961C>A
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 370
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8783
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 374
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 163
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5248
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3886
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5408
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 234
  bin: 9.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 7398
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 234
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1112
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10635
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11207
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2652
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 143
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 262
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 738
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1759
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 86
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 30
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 433
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 116
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 20
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 9
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 24
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 59
  bin: 3.75e1
  variant carriers: 0
hgvs: p.His192Gln
num of homozygotes: 0
population: Latino
population: African
population: South Asian
population: European (Finnish)
population: European (Non-Finnish)
population: East Asian
population: Other
reference allele: G
site quality: DP
site quality: ClippingRankSum
site quality: ReadPosRankSum
site quality: VQSLOD
site quality: BaseQRankSum
site quality: FS
site quality: InbreedingCoeff
site quality: MQ
site quality: MQRankSum
site quality: QD

17-37829889-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37829889
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37829889
    reference: chr 17
allele count: 1
allele frequency: 8.275268532463878e-6
allele num: 120842
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.509A>G
  hgvsp: ENSP00000415765.2:p.Gln170Arg
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-770A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.957A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.572A>G
  hgvsp: ENSP00000300658.4:p.Gln191Arg
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.419A>G
  hgvsp: ENSP00000367250.4:p.Gln140Arg
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.449A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*249A>G
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 5406
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 370
  bin: 7.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1112
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 451
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7400
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5187
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10613
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3887
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 143
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 738
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 218
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8776
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 262
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11136
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 86
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 232
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2652
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 262
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1760
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 9
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2811
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 144
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5695
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 17
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 162
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4334
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 1.25e1
  variant carriers: 0
hgvs: p.Gln191Arg
num of homozygotes: 0
population: Latino
population: European (Finnish)
population: European (Non-Finnish)
population: African
population: East Asian
population: South Asian
population: Other
reference allele: T
site quality: ClippingRankSum
site quality: DP
site quality: BaseQRankSum
site quality: VQSLOD
site quality: FS
site quality: ReadPosRankSum
site quality: QD
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: MQ

17-37829899-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37829899
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37829899
    reference: chr 17
allele count: 3
allele frequency: 2.486283999933699e-5
allele num: 120662
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.947G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-780G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*239G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.499G>A
  hgvsp: ENSP00000415765.2:p.Val167Met
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.562G>A
  hgvsp: ENSP00000300658.4:p.Val188Met
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.409G>A
  hgvsp: ENSP00000367250.4:p.Val137Met
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.439G>A
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 340
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 339
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10929
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1760
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 729
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5036
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 369
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 232
  bin: 9.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 738
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 262
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1111
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7398
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10521
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5405
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8748
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2652
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 143
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 86
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3887
  bin: 5.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 17
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2302
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 682
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 67
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 157
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 76
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5583
  bin: 6.75e1
  variant carriers: 0
hgvs: p.Val188Met
num of homozygotes: 0
population: African
population: European (Finnish)
population: South Asian
population: Latino
population: European (Non-Finnish)
population: East Asian
population: Other
reference allele: C
site quality: FS
site quality: MQ
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: DP
site quality: BaseQRankSum
site quality: MQRankSum
site quality: ClippingRankSum
site quality: ReadPosRankSum
site quality: QD

17-37829900-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37829900
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37829900
    reference: chr 17
allele count: 1
allele frequency: 8.287475966319697e-6
allele num: 120664
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-781C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.498C>T
  hgvsp: ENST00000429199.2:c.498C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.408C>T
  hgvsp: ENST00000378011.4:c.408C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*238C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.946C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.561C>T
  hgvsp: ENST00000300658.4:c.561C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.438C>T
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1111
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 86
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 336
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 143
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 732
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10498
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5061
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8744
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5404
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10937
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 341
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1760
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 738
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3886
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 369
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7394
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 262
  bin: 8.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2654
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 230
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 61
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 152
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 689
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2775
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 240
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 263
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5578
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 65
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7
  bin: 2.5e0
  variant carriers: 0
hgvs: p.Thr187Thr
num of homozygotes: 0
population: African
population: European (Non-Finnish)
population: Latino
population: South Asian
population: European (Finnish)
population: Other
population: East Asian
reference allele: G
site quality: ReadPosRankSum
site quality: FS
site quality: VQSLOD
site quality: QD
site quality: MQ
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: ClippingRankSum
site quality: DP

17-37829901-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37829901
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37829901
    reference: chr 17
allele count: 3
allele frequency: 2.486737400530504e-5
allele num: 120640
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.945C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: missense_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.560C>T
  hgvsp: ENSP00000300658.4:p.Thr187Ile
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-782C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.407C>T
  hgvsp: ENSP00000367250.4:p.Thr136Ile
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.437C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.497C>T
  hgvsp: ENSP00000415765.2:p.Thr166Ile
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: splice_region_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*237C>T
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 86
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 350
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 738
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 767
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5051
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7395
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 261
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 230
  bin: 9.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 2653
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5403
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1760
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 353
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 369
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10909
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8744
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10479
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3884
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1111
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 143
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 30
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 15
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4623
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 73
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 164
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 717
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2299
  bin: 8.75e1
  variant carriers: 0
hgvs: p.Thr187Ile
num of homozygotes: 0
population: African
population: South Asian
population: European (Non-Finnish)
population: Latino
population: Other
population: European (Finnish)
population: East Asian
reference allele: G
site quality: MQRankSum
site quality: QD
site quality: DP
site quality: ClippingRankSum
site quality: FS
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: MQ
site quality: BaseQRankSum
site quality: ReadPosRankSum

17-37829906-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37829906
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37829906
    reference: chr 17
allele count: 1
allele frequency: 8.297653423611802e-6
allele num: 120516
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.435-3C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.405-3C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.558-3C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.940C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.495-3C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*235-3C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-787C>T
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: splice region
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1111
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 143
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10409
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 952
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 369
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10722
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 86
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 227
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 401
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2653
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5400
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4988
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 441
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1761
  bin: 6.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 8737
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 261
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3883
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 738
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7395
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 15
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4314
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 305
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 137
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 12
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 11
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 867
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4599
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3859
  bin: 9.25e1
  variant carriers: 0
hgvs: c.558-3C>T
num of homozygotes: 0
population: European (Finnish)
population: South Asian
population: Other
population: Latino
population: African
population: European (Non-Finnish)
population: East Asian
reference allele: G
site quality: VQSLOD
site quality: QD
site quality: MQRankSum
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: DP
site quality: InbreedingCoeff
site quality: FS
site quality: ClippingRankSum
site quality: MQ

17-37829907-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37829907
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37829907
    reference: chr 17
allele count: 1
allele frequency: 8.300821781356355e-6
allele num: 120470
alternate allele: T
annotation: Annotation
  canonical: true
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.558-4G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.495-4G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.435-4G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.405-4G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.939G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*235-4G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-788G>A
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: splice region
filter: VQSRTrancheSNP99.60to99.80
genotype depth: GenotypeDepth
  all individuals: 261
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 27
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10410
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 998
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4918
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 369
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10698
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 414
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 143
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7397
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8735
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2652
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 86
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 473
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 227
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 5401
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1761
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3884
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1111
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 738
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 104
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 13
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 224
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2302
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 12
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3857
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 20489
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 34
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4593
  bin: 7.75e1
  variant carriers: 0
hgvs: c.558-4G>A
num of homozygotes: 0
population: African
population: European (Non-Finnish)
population: South Asian
population: Latino
population: Other
population: European (Finnish)
population: East Asian
reference allele: C
site quality: MQRankSum
site quality: MQ
site quality: VQSLOD
site quality: QD
site quality: InbreedingCoeff
site quality: FS
site quality: DP
site quality: ReadPosRankSum
site quality: ClippingRankSum
site quality: BaseQRankSum

17-37829913-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37829913
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37829913
    reference: chr 17
allele count: 12
allele frequency: 9.972409666589104e-5
allele num: 120332
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-794G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.558-10G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*235-10G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.435-10G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.405-10G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.933G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.495-10G>A
  variant of: http://identifiers.org/hgnc/23719
canonical: false
consequence: non coding transcript exon
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 478
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7394
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3881
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 85
  bin: 9.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 369
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1229
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1760
  bin: 6.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 261
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 35
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5398
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8710
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2652
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10332
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 573
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 738
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10569
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1112
  bin: 6.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 4757
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 225
  bin: 9.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 145
  bin: 8.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 105
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 15
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 29
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 384
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 14338
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1063
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 428
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2300
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 134
  bin: 4.75e1
  variant carriers: 0
num of homozygotes: 0
population: European (Finnish)
population: East Asian
population: African
population: South Asian
population: Latino
population: Other
population: European (Non-Finnish)
reference allele: C
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: DP
site quality: MQRankSum
site quality: MQ
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: FS
site quality: QD

17-37829914-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37829914
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37829914
    reference: chr 17
allele count: 56
allele frequency: 4.655803126039242e-4
allele num: 120280
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.932C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.495-11C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.435-11C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-795C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.405-11C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*235-11C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.558-11C>T
  variant of: http://identifiers.org/hgnc/23719
canonical: false
consequence: non coding transcript exon
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 372
  bin: 7.75e1
  variant carriers: 5
genotype depth: GenotypeDepth
  all individuals: 488
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10509
  bin: 2.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 4667
  bin: 2.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 261
  bin: 8.25e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 650
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 38
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5396
  bin: 4.75e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 83
  bin: 9.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 7389
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 143
  bin: 8.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 1110
  bin: 6.75e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 10291
  bin: 3.25e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 2651
  bin: 5.75e1
  variant carriers: 5
genotype depth: GenotypeDepth
  all individuals: 8701
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1350
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 735
  bin: 7.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 3882
  bin: 5.25e1
  variant carriers: 7
genotype depth: GenotypeDepth
  all individuals: 221
  bin: 9.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 1765
  bin: 6.25e1
  variant carriers: 8
genotype quality: GenotypeQuality
  all individuals: 293
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4565
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1120
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 414
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 11
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 50
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 36
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 176
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2294
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 19
  bin: 1.25e1
  variant carriers: 0
num of homozygotes: 0
population: South Asian
population: European (Finnish)
population: African
population: East Asian
population: Latino
population: European (Non-Finnish)
population: Other
reference allele: G
site quality: BaseQRankSum
site quality: FS
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: QD
site quality: MQ
site quality: DP
site quality: VQSLOD
site quality: ClippingRankSum

17-37829916-C-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37829916
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37829916
    reference: chr 17
allele count: 3
allele frequency: 2.494802494802495e-5
allele num: 120250
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.495-13G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.435-13G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-797G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.930G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.405-13G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*235-13G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.558-13G>C
  variant of: http://identifiers.org/hgnc/23719
canonical: false
consequence: non coding transcript exon
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 7388
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2646
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 665
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 505
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5392
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 733
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1400
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8714
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 39
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3878
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 258
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4678
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 367
  bin: 7.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1758
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10272
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 10462
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 219
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 141
  bin: 8.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1106
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 306
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 425
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1155
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 133
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2710
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 33
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 120
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 15
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5372
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 502
  bin: 3.25e1
  variant carriers: 0
num of homozygotes: 0
population: Other
population: South Asian
population: Latino
population: African
population: East Asian
population: European (Finnish)
population: European (Non-Finnish)
reference allele: C
site quality: FS
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: MQ
site quality: QD
site quality: DP
site quality: VQSLOD
site quality: ClippingRankSum

17-37829931-G-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37829931
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37829931
    reference: chr 17
allele count: 2
allele frequency: 1.667444807576869e-5
allele num: 119944
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.495-28C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-812C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.435-28C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.558-28C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.405-28C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.915C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*235-28C>G
  variant of: http://identifiers.org/hgnc/23719
canonical: false
consequence: non coding transcript exon
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 366
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3990
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1722
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 617
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2300
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 139
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1105
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1758
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3873
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 9961
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 68
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8667
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7364
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9455
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2643
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 733
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 219
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 258
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5379
  bin: 4.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 703
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2621
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 53
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3840
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 159
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 16
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 20414
  bin: 9.75e1
  variant carriers: 2
genotype quality: GenotypeQuality
  all individuals: 245
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1640
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4283
  bin: 8.25e1
  variant carriers: 0
num of homozygotes: 0
population: African
population: European (Non-Finnish)
population: South Asian
population: European (Finnish)
population: East Asian
population: Other
population: Latino
reference allele: G
site quality: VQSLOD
site quality: MQRankSum
site quality: FS
site quality: DP
site quality: MQ
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: ClippingRankSum
site quality: QD

17-37829932-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37829932
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37829932
    reference: chr 17
allele count: 1
allele frequency: 8.339448929214757e-6
allele num: 119912
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*235-29C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.435-29C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.405-29C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.558-29C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.914C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-813C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.495-29C>T
  variant of: http://identifiers.org/hgnc/23719
canonical: false
consequence: non coding transcript exon
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 1105
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3871
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 258
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8665
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2643
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 625
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2340
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 70
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5373
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7364
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 139
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 733
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9932
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1758
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3941
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 9412
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 366
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1803
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 219
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2617
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3840
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5060
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1103
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 148
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 722
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 56
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 185
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 12362
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4280
  bin: 8.25e1
  variant carriers: 0
num of homozygotes: 0
population: East Asian
population: Latino
population: Other
population: African
population: European (Finnish)
population: South Asian
population: European (Non-Finnish)
reference allele: G
site quality: InbreedingCoeff
site quality: QD
site quality: DP
site quality: ClippingRankSum
site quality: ReadPosRankSum
site quality: FS
site quality: MQRankSum
site quality: VQSLOD
site quality: MQ
site quality: BaseQRankSum

17-37829937-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37829937
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37829937
    reference: chr 17
allele count: 18
allele frequency: 1.502479090499324e-4
allele num: 119802
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-818C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.405-34C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.909C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.495-34C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*235-34C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.435-34C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.558-34C>T
  variant of: http://identifiers.org/hgnc/23719
canonical: false
consequence: non coding transcript exon
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 2452
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 7349
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 8635
  bin: 3.75e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 9748
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1760
  bin: 6.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2472
  bin: 1.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2643
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 732
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3871
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9001
  bin: 2.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 1105
  bin: 6.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 672
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 139
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 82
  bin: 9.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 77
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 219
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3745
  bin: 2.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 5372
  bin: 4.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 258
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 366
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 17
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 170
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1746
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 869
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 972
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 11714
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 74
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4472
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 91
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2583
  bin: 7.25e1
  variant carriers: 0
num of homozygotes: 0
population: European (Non-Finnish)
population: East Asian
population: Other
population: Latino
population: European (Finnish)
population: South Asian
population: African
reference allele: G
site quality: BaseQRankSum
site quality: MQ
site quality: ClippingRankSum
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: FS
site quality: QD
site quality: DP

17-37829941-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37829941
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37829941
    reference: chr 17
allele count: 1
allele frequency: 8.364281173675934e-6
allele num: 119556
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.405-38G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.495-38G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.905G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*235-38G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.558-38G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-822G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.435-38G>A
  variant of: http://identifiers.org/hgnc/23719
canonical: false
consequence: non coding transcript exon
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 89
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 689
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1103
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3429
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1759
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2528
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 732
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 366
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8603
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 219
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3333
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2642
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 258
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7339
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8544
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9603
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5369
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 139
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3873
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 114
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 20381
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 2259
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1506
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 10728
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1768
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 116
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 132
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 40
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 241
  bin: 5.75e1
  variant carriers: 0
num of homozygotes: 0
population: European (Finnish)
population: East Asian
population: African
population: Latino
population: Other
population: European (Non-Finnish)
population: South Asian
reference allele: C
site quality: FS
site quality: MQRankSum
site quality: DP
site quality: InbreedingCoeff
site quality: MQ
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: VQSLOD
site quality: ClippingRankSum
site quality: QD

http://identifiers.org/exac.variant/17-37829948-C-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37829948
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37829948
    reference: chr 17
allele count: 2
allele frequency: 1.674088458834165e-5
allele num: 119468
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.435-45G>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.898G>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.558-45G>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.495-45G>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-829G>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*235-45G>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.405-45G>T
  variant of: http://identifiers.org/hgnc/23719
canonical: false
consequence: non coding transcript exon
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 7307
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 777
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2544
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8533
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 219
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 732
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9093
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5353
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2638
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1103
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7403
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 366
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 139
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4389
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 258
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4036
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1759
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3872
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1447
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1063
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 40
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8622
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3803
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4474
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4321
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 742
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2254
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 143
  bin: 7.5e0
  variant carriers: 1
num of homozygotes: 0
population: Latino
population: East Asian
population: Other
population: South Asian
population: European (Finnish)
population: European (Non-Finnish)
population: African
reference allele: C
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: FS
site quality: ClippingRankSum
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: MQ
site quality: VQSLOD
site quality: DP
site quality: QD

17-37829948-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37829948
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37829948
    reference: chr 17
allele count: 1
allele frequency: 8.370442294170824e-6
allele num: 119468
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.898G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.495-45G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.405-45G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.558-45G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.435-45G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*235-45G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-829G>A
  variant of: http://identifiers.org/hgnc/23719
canonical: false
consequence: non coding transcript exon
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 1759
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 777
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2544
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3872
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9093
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4389
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8533
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 732
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 219
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5353
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4036
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7403
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 366
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 258
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7307
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 139
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1103
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2638
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 742
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 40
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 253
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4192
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2254
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1810
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4474
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1063
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4321
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 143
  bin: 7.5e0
  variant carriers: 0
num of homozygotes: 0
population: African
population: South Asian
population: Latino
population: European (Finnish)
population: East Asian
population: European (Non-Finnish)
population: Other
reference allele: C
site quality: QD
site quality: DP
site quality: VQSLOD
site quality: BaseQRankSum
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: MQ
site quality: FS

17-37829954-C-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37829954
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37829954
    reference: chr 17
allele count: 1
allele frequency: 8.402090440101497e-6
allele num: 119018
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.435-51G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-835G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*235-51G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.558-51G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.405-51G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.892G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.495-51G>C
  variant of: http://identifiers.org/hgnc/23719
canonical: false
consequence: non coding transcript exon
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 139
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7274
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5534
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2519
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2637
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 97
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3978
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1103
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5346
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7045
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 856
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1759
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8443
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 8443
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 732
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 219
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3870
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 366
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 258
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2395
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 706
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1909
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 170
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4270
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 353
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1494
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1780
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1122
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 177
  bin: 7.5e0
  variant carriers: 0
num of homozygotes: 0
population: European (Finnish)
population: Other
population: Latino
population: East Asian
population: South Asian
population: European (Non-Finnish)
population: African
reference allele: C
site quality: MQRankSum
site quality: ClippingRankSum
site quality: VQSLOD
site quality: BaseQRankSum
site quality: QD
site quality: MQ
site quality: FS
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: DP

17-37829955-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37829955
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37829955
    reference: chr 17
allele count: 1
allele frequency: 8.39560070523046e-6
allele num: 119110
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.495-52T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.891T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-836T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.435-52T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.558-52T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.405-52T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*235-52T>C
  variant of: http://identifiers.org/hgnc/23719
canonical: false
consequence: non coding transcript exon
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 95
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1103
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2518
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3870
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7275
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5344
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 139
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3985
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2637
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7101
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5558
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1759
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 859
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8424
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8376
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 258
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 366
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 732
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 219
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 146
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2251
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1059
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 399
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2408
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 157
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2186
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 43
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1463
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1930
  bin: 3.75e1
  variant carriers: 0
num of homozygotes: 0
population: South Asian
population: European (Finnish)
population: Other
population: European (Non-Finnish)
population: Latino
population: East Asian
population: African
reference allele: A
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: FS
site quality: MQRankSum
site quality: ClippingRankSum
site quality: ReadPosRankSum
site quality: MQ
site quality: DP
site quality: QD

17-37830201-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830201
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830201
    reference: chr 17
allele count: 1
allele frequency: 8.510348583877996e-6
allele num: 117504
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1082G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.645G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.434+45G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.404+45G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.539G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*279G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.557+45G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*234+45G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.494+45G>A
  variant of: http://identifiers.org/hgnc/23719
canonical: false
consequence: 3' UTR
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 277
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 457
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1075
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1559
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 82
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6438
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 712
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2028
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 177
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6923
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16422
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 339
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 203
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10327
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 228
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8759
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 697
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3629
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2260
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2339
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1495
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2180
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3531
  bin: 4.75e1
  variant carriers: 0
num of homozygotes: 0
population: European (Non-Finnish)
population: European (Finnish)
population: Latino
population: African
population: Other
population: East Asian
population: South Asian
reference allele: C
site quality: ReadPosRankSum
site quality: QD
site quality: DP
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: MQRankSum
site quality: FS
site quality: VQSLOD
site quality: MQ

http://identifiers.org/exac.variant/17-37830203-C-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830203
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830203
    reference: chr 17
allele count: 2
allele frequency: 1.699379726399864e-5
allele num: 117690
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.643G>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.434+43G>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.494+43G>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1084G>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*277G>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.557+43G>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.537G>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.404+43G>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*234+43G>T
  variant of: http://identifiers.org/hgnc/23719
canonical: false
consequence: 3' UTR
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 2031
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 712
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 339
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17945
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7125
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 177
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3642
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6561
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1537
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 75
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6682
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 228
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 697
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1075
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 458
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 203
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10568
  bin: 2.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 277
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2015
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6516
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2282
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 115
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3359
  bin: 3.75e1
  variant carriers: 0
num of homozygotes: 0
population: Latino
population: European (Finnish)
population: Other
population: African
population: South Asian
population: European (Non-Finnish)
population: East Asian
reference allele: C
site quality: ClippingRankSum
site quality: QD
site quality: VQSLOD
site quality: DP
site quality: FS
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: MQ
site quality: MQRankSum
site quality: ReadPosRankSum

17-37830207-G-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830207
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830207
    reference: chr 17
allele count: 1
allele frequency: 8.472565831836514e-6
allele num: 118028
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.494+39C>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*273C>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.557+39C>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.533C>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*234+39C>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.434+39C>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.639C>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1088C>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.404+39C>A
  variant of: http://identifiers.org/hgnc/23719
canonical: false
consequence: 3' UTR
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 3660
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 457
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1487
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 277
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 339
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5926
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 49
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 712
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 203
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 697
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1084
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11078
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4840
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2045
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6827
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20246
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 177
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 228
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 66
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2402
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1823
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 46
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6738
  bin: 6.75e1
  variant carriers: 0
num of homozygotes: 0
population: Latino
population: South Asian
population: Other
population: African
population: European (Finnish)
population: European (Non-Finnish)
population: East Asian
reference allele: G
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: QD
site quality: DP
site quality: MQ
site quality: ClippingRankSum
site quality: FS
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: MQRankSum

17-37830220-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830220
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830220
    reference: chr 17
allele count: 1
allele frequency: 8.39898540256337e-6
allele num: 119062
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.520G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1101G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.404+26G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.434+26G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.494+26G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.626G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*260G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*234+26G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.557+26G>A
  variant of: http://identifiers.org/hgnc/23719
canonical: false
consequence: 3' UTR
filter: VQSRTrancheSNP99.60to99.80
genotype depth: GenotypeDepth
  all individuals: 203
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1086
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 228
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2076
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1120
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1074
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13335
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 340
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 457
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 712
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3749
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 177
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24544
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7601
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2631
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 277
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 699
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 237
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 814
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 29832
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 387
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 413
  bin: 4.75e1
  variant carriers: 0
num of homozygotes: 0
population: African
population: East Asian
population: South Asian
population: Latino
population: European (Finnish)
population: Other
population: European (Non-Finnish)
reference allele: C
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: FS
site quality: DP
site quality: VQSLOD
site quality: MQRankSum
site quality: QD
site quality: MQ
site quality: InbreedingCoeff
site quality: ClippingRankSum

17-37830221-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830221
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830221
    reference: chr 17
allele count: 28
allele frequency: 2.349584627003441e-4
allele num: 119170
alternate allele: T
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.557+25G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.404+25G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.625G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*234+25G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*259G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1102G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.494+25G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.519G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.434+25G>A
  variant of: http://identifiers.org/hgnc/23719
canonical: false
consequence: 3' UTR
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 342
  bin: 6.25e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 7655
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1031
  bin: 1.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1028
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24595
  bin: 2.25e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 3748
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 699
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1094
  bin: 4.75e1
  variant carriers: 6
genotype depth: GenotypeDepth
  all individuals: 2074
  bin: 4.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 2471
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 278
  bin: 6.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 13511
  bin: 2.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 460
  bin: 5.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 177
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 228
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 214
  bin: 7.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 205
  bin: 8.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 712
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 834
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 390
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 16
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1519
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 415
  bin: 4.75e1
  variant carriers: 0
num of homozygotes: 0
population: European (Finnish)
population: Other
population: Latino
population: East Asian
population: African
population: European (Non-Finnish)
population: South Asian
reference allele: C
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: FS
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: QD
site quality: MQ
site quality: ClippingRankSum
site quality: DP

17-37830222-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830222
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830222
    reference: chr 17
allele count: 1
allele frequency: 8.384338056510439e-6
allele num: 119270
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.434+24G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.404+24G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.518G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.494+24G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*258G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1103G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.557+24G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*234+24G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.624G>A
  variant of: http://identifiers.org/hgnc/23719
canonical: false
consequence: 3' UTR
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 2295
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24752
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 339
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1087
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 984
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 230
  bin: 7.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 13633
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 700
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 942
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 457
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3765
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7678
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 177
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 203
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 712
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2079
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 277
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 317
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 17
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 30317
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1374
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2644
  bin: 7.25e1
  variant carriers: 0
num of homozygotes: 0
population: African
population: Latino
population: European (Non-Finnish)
population: South Asian
population: European (Finnish)
population: Other
population: East Asian
reference allele: C
site quality: MQRankSum
site quality: ClippingRankSum
site quality: QD
site quality: DP
site quality: VQSLOD
site quality: MQ
site quality: BaseQRankSum
site quality: FS
site quality: InbreedingCoeff
site quality: ReadPosRankSum

17-37830233-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830233
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830233
    reference: chr 17
allele count: 1
allele frequency: 8.324869715788949e-6
allele num: 120122
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*247G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.404+13G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*234+13G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.507G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.613G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.494+13G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.434+13G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.557+13G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1114G>A
  variant of: http://identifiers.org/hgnc/23719
canonical: false
consequence: 3' UTR
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 7927
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 712
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 606
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 699
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2074
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 948
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 339
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14701
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 203
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 229
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3793
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 277
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 423
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 457
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 177
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25670
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1092
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2703
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1522
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 177
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 12
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2482
  bin: 8.25e1
  variant carriers: 0
num of homozygotes: 0
population: European (Non-Finnish)
population: Latino
population: European (Finnish)
population: African
population: South Asian
population: East Asian
population: Other
reference allele: C
site quality: QD
site quality: DP
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: MQ
site quality: ClippingRankSum
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: FS

http://identifiers.org/exac.variant/17-37830234-A-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830234
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830234
    reference: chr 17
allele count: 1
allele frequency: 8.317253310266817e-6
allele num: 120232
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*234+12T>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.494+12T>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.404+12T>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.612T>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.506T>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1115T>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.557+12T>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*246T>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.434+12T>G
  variant of: http://identifiers.org/hgnc/23719
canonical: false
consequence: 3' UTR
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 7920
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3787
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2073
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 229
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 457
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1089
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14785
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 389
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 277
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 177
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 712
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25757
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 563
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 339
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 871
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 203
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 699
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 758
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 169
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3367
  bin: 7.75e1
  variant carriers: 0
num of homozygotes: 0
population: East Asian
population: South Asian
population: European (Finnish)
population: Latino
population: European (Non-Finnish)
population: African
population: Other
reference allele: A
site quality: QD
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: FS
site quality: DP
site quality: ClippingRankSum
site quality: MQ
site quality: BaseQRankSum

http://identifiers.org/exac.variant/17-37830237-C-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830237
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830237
    reference: chr 17
allele count: 1
allele frequency: 8.30813199960121e-6
allele num: 120364
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1118G>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.557+9G>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*243G>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.494+9G>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.434+9G>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.503G>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.404+9G>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.609G>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*234+9G>T
  variant of: http://identifiers.org/hgnc/23719
canonical: false
consequence: 3' UTR
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25730
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3789
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 339
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 345
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2077
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 229
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 457
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 501
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 177
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7966
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 203
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 751
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1090
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14985
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 699
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 712
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 277
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6464
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 6
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 146
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3376
  bin: 7.75e1
  variant carriers: 0
num of homozygotes: 0
population: African
population: European (Non-Finnish)
population: East Asian
population: South Asian
population: European (Finnish)
population: Latino
population: Other
reference allele: C
site quality: VQSLOD
site quality: DP
site quality: MQ
site quality: MQRankSum
site quality: FS
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: QD
site quality: ClippingRankSum
site quality: InbreedingCoeff

17-37830250-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830250
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830250
    reference: chr 17
allele count: 64
allele frequency: 5.298100961936456e-4
allele num: 120798
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.490G>A
  hgvsp: ENSP00000415765.2:p.Val164Ile
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*230G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1131G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.400G>A
  hgvsp: ENSP00000367250.4:p.Val134Ile
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.553G>A
  hgvsp: ENSP00000300658.4:p.Val185Ile
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*230G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.490G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.596G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.430G>A
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 297
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 161
  bin: 9.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 457
  bin: 5.75e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 3789
  bin: 3.75e1
  variant carriers: 7
genotype depth: GenotypeDepth
  all individuals: 217
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 15551
  bin: 2.75e1
  variant carriers: 6
genotype depth: GenotypeDepth
  all individuals: 700
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 203
  bin: 8.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 25762
  bin: 2.25e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 1093
  bin: 4.75e1
  variant carriers: 5
genotype depth: GenotypeDepth
  all individuals: 381
  bin: 1.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 178
  bin: 8.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 228
  bin: 7.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 724
  bin: 9.75e1
  variant carriers: 13
genotype depth: GenotypeDepth
  all individuals: 8051
  bin: 3.25e1
  variant carriers: 7
genotype depth: GenotypeDepth
  all individuals: 278
  bin: 6.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 337
  bin: 6.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 2082
  bin: 4.25e1
  variant carriers: 9
genotype quality: GenotypeQuality
  all individuals: 106
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 96
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 152
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 416
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 1.75e1
  variant carriers: 0
hgvs: p.Val185Ile
num of homozygotes: 1
population: Latino
population: European (Non-Finnish)
population: South Asian
population: European (Finnish)
population: African
population: Other
population: East Asian
reference allele: C
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: FS
site quality: BaseQRankSum
site quality: QD
site quality: DP
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: MQ

17-37830251-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830251
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830251
    reference: chr 17
allele count: 114
allele frequency: 9.435523919880815e-4
allele num: 120820
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.489C>T
  hgvsp: ENST00000429199.2:c.489C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.552C>T
  hgvsp: ENST00000300658.4:c.552C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*229C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.399C>T
  hgvsp: ENST00000378011.4:c.399C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1132C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.429C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.489C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*229C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.595C>T
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 1096
  bin: 4.75e1
  variant carriers: 9
genotype depth: GenotypeDepth
  all individuals: 361
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 704
  bin: 5.25e1
  variant carriers: 7
genotype depth: GenotypeDepth
  all individuals: 181
  bin: 8.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 459
  bin: 5.75e1
  variant carriers: 6
genotype depth: GenotypeDepth
  all individuals: 210
  bin: 8.25e1
  variant carriers: 8
genotype depth: GenotypeDepth
  all individuals: 217
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 231
  bin: 7.25e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 740
  bin: 9.75e1
  variant carriers: 26
genotype depth: GenotypeDepth
  all individuals: 165
  bin: 9.25e1
  variant carriers: 5
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 15595
  bin: 2.75e1
  variant carriers: 5
genotype depth: GenotypeDepth
  all individuals: 2072
  bin: 4.25e1
  variant carriers: 6
genotype depth: GenotypeDepth
  all individuals: 284
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8051
  bin: 3.25e1
  variant carriers: 8
genotype depth: GenotypeDepth
  all individuals: 284
  bin: 6.75e1
  variant carriers: 7
genotype depth: GenotypeDepth
  all individuals: 25709
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3784
  bin: 3.75e1
  variant carriers: 11
genotype depth: GenotypeDepth
  all individuals: 338
  bin: 6.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 221
  bin: 7.75e1
  variant carriers: 8
genotype quality: GenotypeQuality
  all individuals: 6550
  bin: 9.75e1
  variant carriers: 113
genotype quality: GenotypeQuality
  all individuals: 115
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 84
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 134
  bin: 2.75e1
  variant carriers: 0
hgvs: p.Cys184Cys
num of homozygotes: 1
population: European (Non-Finnish)
population: South Asian
population: European (Finnish)
population: African
population: East Asian
population: Latino
population: Other
reference allele: G
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: MQ
site quality: FS
site quality: MQRankSum
site quality: BaseQRankSum
site quality: QD
site quality: DP
site quality: ClippingRankSum
site quality: VQSLOD

17-37830251-G-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830251
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830251
    reference: chr 17
allele count: 1
allele frequency: 8.276775368316504e-6
allele num: 120820
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1132C>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: stop_gained
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.489C>A
  hgvsp: ENSP00000415765.2:p.Cys163Ter
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*229C>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.595C>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: stop_gained
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.552C>A
  hgvsp: ENSP00000300658.4:p.Cys184Ter
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.489C>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: stop_gained
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.399C>A
  hgvsp: ENSP00000367250.4:p.Cys133Ter
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.429C>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*229C>A
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: stop gained
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 8051
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 231
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 284
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 361
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1096
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2072
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 210
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 15595
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 217
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 459
  bin: 5.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3784
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 165
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 181
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 221
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 704
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25709
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 284
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 338
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 740
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 101
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 148
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 106
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 115
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
hgvs: p.Cys184Ter
num of homozygotes: 0
population: East Asian
population: Other
population: Latino
population: European (Non-Finnish)
population: South Asian
population: African
population: European (Finnish)
reference allele: G
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: FS
site quality: MQRankSum
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: MQ
site quality: DP
site quality: QD

17-37830254-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830254
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830254
    reference: chr 17
allele count: 4
allele frequency: 3.309285856112251e-5
allele num: 120872
alternate allele: A
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.549C>T
  hgvsp: ENST00000300658.4:c.549C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.592C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*226C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*226C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.486C>T
  hgvsp: ENST00000429199.2:c.486C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.426C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1135C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.396C>T
  hgvsp: ENST00000378011.4:c.396C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.486C>T
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 277
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25682
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 717
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 205
  bin: 8.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 195
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 8092
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3796
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2083
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1091
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 227
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 312
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 256
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 338
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 180
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 705
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 15720
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 453
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 163
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 99
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2746
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8057
  bin: 6.75e1
  variant carriers: 0
hgvs: p.Cys183Cys
num of homozygotes: 0
population: European (Finnish)
population: Other
population: European (Non-Finnish)
population: Latino
population: South Asian
population: African
population: East Asian
reference allele: G
site quality: ClippingRankSum
site quality: MQRankSum
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: MQ
site quality: BaseQRankSum
site quality: FS
site quality: QD
site quality: DP

17-37830265-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830265
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830265
    reference: chr 17
allele count: 4
allele frequency: 3.305457310018841e-5
allele num: 121012
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.415A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.385A>G
  hgvsp: ENSP00000367250.4:p.Ile129Val
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.538A>G
  hgvsp: ENSP00000300658.4:p.Ile180Val
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1146A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.475A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.581A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.475A>G
  hgvsp: ENSP00000415765.2:p.Ile159Val
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*215A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*215A>G
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 208
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25662
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 453
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2080
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 15953
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 279
  bin: 6.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 227
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1091
  bin: 4.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 195
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3790
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 717
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 181
  bin: 8.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 144
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8103
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 705
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 338
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 86
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2482
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 279
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 55
  bin: 3.75e1
  variant carriers: 0
hgvs: p.Ile180Val
num of homozygotes: 0
population: European (Non-Finnish)
population: South Asian
population: African
population: East Asian
population: European (Finnish)
population: Other
population: Latino
reference allele: T
site quality: VQSLOD
site quality: FS
site quality: ReadPosRankSum
site quality: DP
site quality: QD
site quality: MQ
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: MQRankSum

17-37830282-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830282
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830282
    reference: chr 17
allele count: 14
allele frequency: 1.156336725254394e-4
allele num: 121072
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.564C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1163C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.398C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.458C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.368C>T
  hgvsp: ENSP00000367250.4:p.Thr123Ile
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*198C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*198C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.458C>T
  hgvsp: ENSP00000415765.2:p.Thr153Ile
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.521C>T
  hgvsp: ENSP00000300658.4:p.Thr174Ile
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 191
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3796
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 180
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25490
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2084
  bin: 4.25e1
  variant carriers: 5
genotype depth: GenotypeDepth
  all individuals: 1092
  bin: 4.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 278
  bin: 6.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 705
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 119
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 452
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 228
  bin: 7.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 168
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8143
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 338
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 717
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 16147
  bin: 2.75e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 62
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6471
  bin: 9.75e1
  variant carriers: 14
genotype quality: GenotypeQuality
  all individuals: 2745
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 264
  bin: 2.25e1
  variant carriers: 0
hgvs: p.Thr174Ile
num of homozygotes: 0
population: African
population: South Asian
population: Other
population: East Asian
population: Latino
population: European (Finnish)
population: European (Non-Finnish)
reference allele: G
site quality: QD
site quality: FS
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: DP
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: MQ
site quality: MQRankSum
site quality: VQSLOD

17-37830299-G-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830299
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830299
    reference: chr 17
allele count: 1
allele frequency: 8.261595148791329e-6
allele num: 121042
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.547C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.441C>G
  hgvsp: ENSP00000415765.2:p.Asp147Glu
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.351C>G
  hgvsp: ENSP00000367250.4:p.Asp117Glu
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*181C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.441C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1180C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*181C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.504C>G
  hgvsp: ENSP00000300658.4:p.Asp168Glu
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.381C>G
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 180
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 227
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 163
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25257
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 177
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 277
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8129
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 705
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1091
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2080
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 326
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 453
  bin: 5.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3793
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 717
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16214
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 338
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2722
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 61
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 109
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 1.25e1
  variant carriers: 0
hgvs: p.Asp168Glu
num of homozygotes: 0
population: European (Finnish)
population: African
population: South Asian
population: Latino
population: East Asian
population: Other
population: European (Non-Finnish)
reference allele: G
site quality: DP
site quality: FS
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: VQSLOD
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: MQ
site quality: QD

17-37830302-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830302
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830302
    reference: chr 17
allele count: 1
allele frequency: 8.262414277451872e-6
allele num: 121030
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1183G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.438G>A
  hgvsp: ENSP00000415765.2:p.Met146Ile
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.378G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*178G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.544G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.438G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.348G>A
  hgvsp: ENSP00000367250.4:p.Met116Ile
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.501G>A
  hgvsp: ENSP00000300658.4:p.Met167Ile
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*178G>A
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 190
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25137
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 277
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1091
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 705
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16229
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3801
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8146
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 227
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 182
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 371
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 453
  bin: 5.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 717
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2083
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 180
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 338
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 386
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1517
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3362
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2712
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 60
  bin: 4.75e1
  variant carriers: 0
hgvs: p.Met167Ile
num of homozygotes: 0
population: European (Finnish)
population: East Asian
population: European (Non-Finnish)
population: African
population: South Asian
population: Latino
population: Other
reference allele: C
site quality: ReadPosRankSum
site quality: MQ
site quality: MQRankSum
site quality: QD
site quality: VQSLOD
site quality: FS
site quality: DP
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: ClippingRankSum

17-37830303-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830303
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830303
    reference: chr 17
allele count: 2
allele frequency: 1.652510162937502e-5
allele num: 121028
alternate allele: G
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.500T>C
  hgvsp: ENSP00000300658.4:p.Met167Thr
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*177T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*177T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.437T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.437T>C
  hgvsp: ENSP00000415765.2:p.Met146Thr
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.347T>C
  hgvsp: ENSP00000367250.4:p.Met116Thr
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.543T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1184T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.377T>C
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 277
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2080
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3792
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 452
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25129
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1090
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 205
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 184
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 227
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 706
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 387
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 180
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 338
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8127
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16236
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 717
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 34009
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1145
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8030
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 82
  bin: 3.75e1
  variant carriers: 0
hgvs: p.Met167Thr
num of homozygotes: 0
population: Latino
population: European (Non-Finnish)
population: African
population: Other
population: East Asian
population: European (Finnish)
population: South Asian
reference allele: A
site quality: MQ
site quality: MQRankSum
site quality: ClippingRankSum
site quality: QD
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: FS
site quality: VQSLOD
site quality: DP

17-37830317-G-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830317
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830317
    reference: chr 17
allele count: 2
allele frequency: 1.654068180690408e-5
allele num: 120914
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.373-10C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.496-10C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.539-10C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.433-10C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1198C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*173-10C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*173-10C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.343-10C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.433-10C>G
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 16213
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 492
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 227
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2081
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 451
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8110
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3801
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 233
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24353
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 718
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 180
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1091
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 851
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 277
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 706
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 338
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 274
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 186
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2690
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7920
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6460
  bin: 9.75e1
  variant carriers: 2
num of homozygotes: 0
population: East Asian
population: Latino
population: South Asian
population: African
population: European (Non-Finnish)
population: Other
population: European (Finnish)
reference allele: G
site quality: FS
site quality: QD
site quality: MQ
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: BaseQRankSum
site quality: DP

17-37830318-G-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830318
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830318
    reference: chr 17
allele count: 2
allele frequency: 1.654204989082247e-5
allele num: 120904
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*173-11C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.496-11C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.539-11C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.343-11C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.373-11C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*173-11C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1199C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.433-11C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.433-11C>G
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 2080
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 490
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 858
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 451
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 180
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24328
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1090
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 234
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 338
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3797
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 707
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 16248
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 717
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 227
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 278
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8099
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3343
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 9
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 33225
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2461
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 69
  bin: 5.75e1
  variant carriers: 0
num of homozygotes: 0
population: East Asian
population: African
population: South Asian
population: European (Non-Finnish)
population: Other
population: Latino
population: European (Finnish)
reference allele: G
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: ClippingRankSum
site quality: MQ
site quality: QD
site quality: FS
site quality: DP
site quality: BaseQRankSum
site quality: VQSLOD
site quality: ReadPosRankSum

17-37830321-A-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830321
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830321
    reference: chr 17
allele count: 1
allele frequency: 8.274036074797286e-6
allele num: 120860
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.433-14T>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.343-14T>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1202T>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.433-14T>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.373-14T>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*173-14T>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.496-14T>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.539-14T>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*173-14T>A
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: intron
filter: VQSRTrancheSNP99.60to99.80
genotype depth: GenotypeDepth
  all individuals: 256
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23864
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 451
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 278
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1131
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2082
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 338
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 697
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8101
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16206
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 705
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3796
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 180
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 717
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 227
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1092
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6461
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 12
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 174
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 319
  bin: 5.25e1
  variant carriers: 0
num of homozygotes: 0
population: African
population: Other
population: South Asian
population: East Asian
population: European (Non-Finnish)
population: European (Finnish)
population: Latino
reference allele: A
site quality: MQRankSum
site quality: MQ
site quality: ClippingRankSum
site quality: FS
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: DP
site quality: VQSLOD
site quality: BaseQRankSum
site quality: QD

17-37830322-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830322
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830322
    reference: chr 17
allele count: 1
allele frequency: 8.274309922552459e-6
allele num: 120856
alternate allele: A
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.496-15C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.373-15C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.343-15C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.539-15C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*173-15C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.433-15C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*173-15C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1203C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.433-15C>T
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 692
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 338
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 180
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 706
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 278
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1135
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2084
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1093
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8128
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 227
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3799
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 717
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16191
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23844
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 258
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 451
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 10
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7849
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 110
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 441
  bin: 3.25e1
  variant carriers: 0
num of homozygotes: 0
population: South Asian
population: East Asian
population: European (Finnish)
population: European (Non-Finnish)
population: Other
population: African
population: Latino
reference allele: G
site quality: InbreedingCoeff
site quality: DP
site quality: FS
site quality: MQ
site quality: ReadPosRankSum
site quality: ClippingRankSum
site quality: BaseQRankSum
site quality: MQRankSum
site quality: QD
site quality: VQSLOD

17-37830326-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830326
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830326
    reference: chr 17
allele count: 10
allele frequency: 8.278145695364238e-5
allele num: 120800
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.433-19C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.373-19C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1207C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*173-19C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.433-19C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*173-19C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.539-19C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.496-19C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.343-19C>T
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 451
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23677
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 227
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 717
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16195
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8109
  bin: 3.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 744
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1240
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 265
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2089
  bin: 4.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 3808
  bin: 3.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 339
  bin: 6.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 707
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 278
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 180
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1094
  bin: 4.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 15
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2669
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 127
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7797
  bin: 6.75e1
  variant carriers: 0
num of homozygotes: 0
population: Other
population: European (Non-Finnish)
population: European (Finnish)
population: Latino
population: East Asian
population: African
population: South Asian
reference allele: G
site quality: QD
site quality: VQSLOD
site quality: FS
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: ClippingRankSum
site quality: MQ
site quality: DP
site quality: MQRankSum

17-37830327-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830327
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830327
    reference: chr 17
allele count: 1
allele frequency: 8.275816409288777e-6
allele num: 120834
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.433-20C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1208C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*173-20C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.539-20C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.433-20C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.496-20C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.373-20C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.343-20C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*173-20C>T
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1335
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 717
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3795
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 338
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23560
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 278
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8109
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 268
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 803
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 451
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2088
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 227
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1092
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 705
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 180
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16174
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 423
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3320
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2455
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 14
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4
  bin: 1.75e1
  variant carriers: 0
num of homozygotes: 0
population: African
population: Other
population: European (Non-Finnish)
population: East Asian
population: Latino
population: South Asian
population: European (Finnish)
reference allele: G
site quality: MQRankSum
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: MQ
site quality: BaseQRankSum
site quality: FS
site quality: ReadPosRankSum
site quality: QD
site quality: DP
site quality: ClippingRankSum

17-37830332-G-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830332
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830332
    reference: chr 17
allele count: 1
allele frequency: 8.278831029058698e-6
allele num: 120790
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.373-25C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.496-25C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*173-25C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.433-25C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.343-25C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1213C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*173-25C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.433-25C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.539-25C>G
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 228
  bin: 7.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 15959
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 281
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1438
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 278
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2086
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1092
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 338
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8116
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3798
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1889
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 451
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 705
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22562
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 180
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 717
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2447
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1325
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6458
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 214
  bin: 4.25e1
  variant carriers: 0
num of homozygotes: 0
population: European (Finnish)
population: South Asian
population: Other
population: East Asian
population: African
population: Latino
population: European (Non-Finnish)
reference allele: G
site quality: DP
site quality: QD
site quality: FS
site quality: MQ
site quality: VQSLOD
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: ClippingRankSum
site quality: MQRankSum

17-37830339-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830339
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830339
    reference: chr 17
allele count: 1
allele frequency: 8.288162845823595e-6
allele num: 120654
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.343-32G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1220G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.433-32G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.539-32G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.433-32G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.496-32G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*173-32G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.373-32G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*173-32G>A
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 717
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2095
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 451
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8104
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3826
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3608
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 338
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 15360
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 308
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20264
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 180
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 227
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2554
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 708
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1096
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 278
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1127
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6458
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 1508
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 523
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 12
  bin: 2.5e0
  variant carriers: 0
num of homozygotes: 0
population: Latino
population: Other
population: South Asian
population: European (Finnish)
population: European (Non-Finnish)
population: African
population: East Asian
reference allele: C
site quality: QD
site quality: InbreedingCoeff
site quality: ClippingRankSum
site quality: FS
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: BaseQRankSum
site quality: DP
site quality: MQ
site quality: VQSLOD

17-37830348-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830348
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830348
    reference: chr 17
allele count: 1
allele frequency: 8.300132802124834e-6
allele num: 120480
alternate allele: C
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.496-41A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*173-41A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*173-41A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.433-41A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1229A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.373-41A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.539-41A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.433-41A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.343-41A>G
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 6860
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 340
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 180
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2718
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7886
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 717
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2091
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14226
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 227
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1100
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 351
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 452
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3807
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18169
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 707
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 278
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 58
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2659
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1486
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 21
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7022
  bin: 6.75e1
  variant carriers: 0
num of homozygotes: 0
population: European (Non-Finnish)
population: East Asian
population: European (Finnish)
population: South Asian
population: African
population: Other
population: Latino
reference allele: T
site quality: BaseQRankSum
site quality: FS
site quality: QD
site quality: MQ
site quality: VQSLOD
site quality: DP
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: ClippingRankSum

17-37830349-C-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830349
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830349
    reference: chr 17
allele count: 1
allele frequency: 8.304268393954492e-6
allele num: 120420
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.433-42G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*173-42G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.373-42G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*173-42G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.496-42G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.539-42G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.343-42G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.433-42G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1230G>C
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 7238
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13927
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1097
  bin: 4.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 452
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7884
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2098
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 180
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 355
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 717
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3810
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 227
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2722
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 340
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 707
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 278
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18076
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3162
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 323
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2403
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 79
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 54
  bin: 1.25e1
  variant carriers: 0
num of homozygotes: 0
population: European (Non-Finnish)
population: South Asian
population: Latino
population: European (Finnish)
population: African
population: East Asian
population: Other
reference allele: C
site quality: MQ
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: MQRankSum
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: FS
site quality: DP
site quality: QD
site quality: InbreedingCoeff

17-37830351-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830351
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830351
    reference: chr 17
allele count: 6
allele frequency: 4.989936960463066e-5
allele num: 120242
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*173-44G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.433-44G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.539-44G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1232G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.496-44G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*173-44G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.343-44G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.433-44G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.373-44G>A
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 2728
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 384
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 278
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7352
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 180
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3792
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 21
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2103
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 708
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 340
  bin: 6.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 227
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7812
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13219
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1095
  bin: 4.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 717
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18719
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 453
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 69
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 99
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2127
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1110
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 644
  bin: 5.75e1
  variant carriers: 0
num of homozygotes: 0
population: European (Finnish)
population: East Asian
population: Other
population: European (Non-Finnish)
population: South Asian
population: Latino
population: African
reference allele: C
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: MQ
site quality: MQRankSum
site quality: FS
site quality: DP
site quality: ReadPosRankSum
site quality: ClippingRankSum
site quality: BaseQRankSum
site quality: QD

17-37830352-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830352
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830352
    reference: chr 17
allele count: 1
allele frequency: 8.316561600771776e-6
allele num: 120242
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1233C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.343-45C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.496-45C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*173-45C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*173-45C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.433-45C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.539-45C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.433-45C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.373-45C>T
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 705
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 388
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 339
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 21
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 278
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2743
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3802
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7350
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 227
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13333
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7793
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18606
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 180
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 452
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1099
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 717
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2095
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 90
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1112
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 72
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1823
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3137
  bin: 7.75e1
  variant carriers: 0
num of homozygotes: 0
population: African
population: East Asian
population: Other
population: Latino
population: South Asian
population: European (Non-Finnish)
population: European (Finnish)
reference allele: G
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: QD
site quality: InbreedingCoeff
site quality: FS
site quality: VQSLOD
site quality: MQRankSum
site quality: DP
site quality: ClippingRankSum
site quality: MQ

17-37830355-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830355
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830355
    reference: chr 17
allele count: 1
allele frequency: 8.335278231587371e-6
allele num: 119972
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*173-48C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.433-48C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.343-48C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1236C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.433-48C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*173-48C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.539-48C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.496-48C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.373-48C>T
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 705
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 337
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2729
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1098
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 276
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18994
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 7384
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7523
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2084
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 452
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 454
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13139
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 227
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 717
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3806
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 180
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4280
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6139
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1105
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1661
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4600
  bin: 4.75e1
  variant carriers: 0
num of homozygotes: 0
population: South Asian
population: Latino
population: Other
population: European (Non-Finnish)
population: European (Finnish)
population: East Asian
population: African
reference allele: G
site quality: FS
site quality: DP
site quality: MQRankSum
site quality: VQSLOD
site quality: MQ
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: QD

17-37830356-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830356
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830356
    reference: chr 17
allele count: 1
allele frequency: 8.333750020834376e-6
allele num: 119994
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1237T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.343-49T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*173-49T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.433-49T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.433-49T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*173-49T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.539-49T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.496-49T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.373-49T>C
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1099
  bin: 4.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 13165
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2751
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 336
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 180
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 705
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7529
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18962
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 276
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 451
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3796
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7375
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2083
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 453
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 717
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 227
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2620
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6141
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1105
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 99
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 51
  bin: 2.5e0
  variant carriers: 0
num of homozygotes: 0
population: Other
population: Latino
population: African
population: East Asian
population: European (Non-Finnish)
population: South Asian
population: European (Finnish)
reference allele: A
site quality: DP
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: MQRankSum
site quality: MQ
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: FS
site quality: ClippingRankSum
site quality: QD

17-37830357-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830357
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830357
    reference: chr 17
allele count: 4
allele frequency: 3.349073981044241e-5
allele num: 119436
alternate allele: A
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.496-50C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*173-50C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.433-50C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.373-50C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*173-50C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1238C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.539-50C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.433-50C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.343-50C>T
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 2758
  bin: 1.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 227
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1100
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 335
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7970
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 478
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 275
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14024
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3871
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 717
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7355
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 17558
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 450
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 180
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2099
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 708
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1616
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4334
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2361
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2731
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 120
  bin: 1.25e1
  variant carriers: 0
num of homozygotes: 0
population: African
population: Latino
population: Other
population: South Asian
population: European (Non-Finnish)
population: European (Finnish)
population: East Asian
reference allele: G
site quality: ReadPosRankSum
site quality: VQSLOD
site quality: FS
site quality: MQ
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: QD
site quality: DP
site quality: BaseQRankSum

17-37830358-G-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830358
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830358
    reference: chr 17
allele count: 5
allele frequency: 4.18529121256257e-5
allele num: 119466
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.433-51C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.373-51C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.433-51C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*173-51C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*173-51C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.539-51C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1239C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.343-51C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.496-51C>G
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 275
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 476
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 451
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 180
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17506
  bin: 2.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 7352
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 227
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 707
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7961
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14072
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1102
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2777
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 213
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2094
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3874
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 717
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 334
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3040
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1487
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4332
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 452
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5311
  bin: 4.75e1
  variant carriers: 0
num of homozygotes: 0
population: South Asian
population: East Asian
population: African
population: Latino
population: Other
population: European (Finnish)
population: European (Non-Finnish)
reference allele: G
site quality: FS
site quality: ReadPosRankSum
site quality: ClippingRankSum
site quality: BaseQRankSum
site quality: VQSLOD
site quality: MQRankSum
site quality: MQ
site quality: InbreedingCoeff
site quality: QD
site quality: DP

17-37830860-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830860
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830860
    reference: chr 17
allele count: 6
allele frequency: 2.985965959988056e-4
allele num: 20094
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.538+10C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.495+10C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.433-553C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.342+10C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.372+10C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.432+10C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*172+10C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1741C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*172+10C>T
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 295
  bin: 4.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 680
  bin: 7.5e0
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 4389
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 90
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 713
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 289
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 122
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 159
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 225
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 601
  bin: 1.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 78
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 186
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 197
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3091
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 354
  bin: 9.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 317
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 396
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1416
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 93
  bin: 8.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 142
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4243
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2468
  bin: 9.75e1
  variant carriers: 6
genotype quality: GenotypeQuality
  all individuals: 52
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 882
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 55
  bin: 4.25e1
  variant carriers: 0
num of homozygotes: 0
population: Latino
population: Other
population: African
population: South Asian
population: European (Non-Finnish)
population: European (Finnish)
population: East Asian
reference allele: G
site quality: MQ
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: FS
site quality: ClippingRankSum
site quality: DP
site quality: MQRankSum
site quality: VQSLOD
site quality: QD
site quality: ReadPosRankSum

17-37830860-G-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830860
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830860
    reference: chr 17
allele count: 0
allele frequency: 0.0e0
allele num: 20094
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.538+10C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1741C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*172+10C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.372+10C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.342+10C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.495+10C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.432+10C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*172+10C>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.433-553C>G
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: intron
filter: AC_Adj0
genotype depth: GenotypeDepth
  all individuals: 4389
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 317
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 601
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3091
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 186
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 680
  bin: 7.5e0
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 159
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 225
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 93
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 354
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 142
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 713
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1416
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 197
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 289
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 122
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 78
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 90
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 396
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 295
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 882
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 245
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 431
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 377
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 342
  bin: 8.25e1
  variant carriers: 0
num of homozygotes: 0
population: Other
population: African
population: Latino
population: European (Non-Finnish)
population: East Asian
population: European (Finnish)
population: South Asian
reference allele: G
site quality: BaseQRankSum
site quality: FS
site quality: ClippingRankSum
site quality: QD
site quality: ReadPosRankSum
site quality: DP
site quality: MQ
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: VQSLOD

17-37830888-C-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830888
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830888
    reference: chr 17
allele count: 7
allele frequency: 3.378378378378379e-4
allele num: 20720
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.324G>C
  hgvsp: ENSP00000367250.4:p.Arg108Ser
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1769G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.433-581G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*154G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.414G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.520G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*154G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.354G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.477G>C
  hgvsp: ENSP00000300658.4:p.Arg159Ser
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 438
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2910
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 831
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 297
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4693
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 248
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 323
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1664
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 226
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 90
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 289
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 197
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 423
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 356
  bin: 9.75e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 159
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 142
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 136
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 121
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 79
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 92
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 517
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 96
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 70
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 51
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2755
  bin: 7.5e0
  variant carriers: 0
hgvs: p.Arg159Ser
num of homozygotes: 0
population: Other
population: African
population: European (Non-Finnish)
population: East Asian
population: Latino
population: European (Finnish)
population: South Asian
reference allele: C
site quality: MQRankSum
site quality: QD
site quality: BaseQRankSum
site quality: FS
site quality: DP
site quality: MQ
site quality: ClippingRankSum
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: ReadPosRankSum

17-37830900-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830900
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830900
    reference: chr 17
allele count: 14690
allele frequency: 6.98260290902177e-1
allele num: 21038
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1781T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.342T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.402T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.465T>C
  hgvsp: ENST00000300658.4:c.465T>C(p.%3D)
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*142T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.312T>C
  hgvsp: ENST00000378011.4:c.312T>C(p.%3D)
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: 3_prime_UTR_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*142T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.433-593T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.508T>C
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 422
  bin: 6.75e1
  variant carriers: 403
genotype depth: GenotypeDepth
  all individuals: 199
  bin: 1.25e1
  variant carriers: 159
genotype depth: GenotypeDepth
  all individuals: 511
  bin: 7.5e0
  variant carriers: 416
genotype depth: GenotypeDepth
  all individuals: 799
  bin: 4.75e1
  variant carriers: 747
genotype depth: GenotypeDepth
  all individuals: 764
  bin: 3.75e1
  variant carriers: 715
genotype depth: GenotypeDepth
  all individuals: 733
  bin: 2.75e1
  variant carriers: 540
genotype depth: GenotypeDepth
  all individuals: 776
  bin: 3.25e1
  variant carriers: 680
genotype depth: GenotypeDepth
  all individuals: 219
  bin: 8.75e1
  variant carriers: 207
genotype depth: GenotypeDepth
  all individuals: 541
  bin: 6.25e1
  variant carriers: 517
genotype depth: GenotypeDepth
  all individuals: 750
  bin: 5.25e1
  variant carriers: 711
genotype depth: GenotypeDepth
  all individuals: 211
  bin: 9.25e1
  variant carriers: 199
genotype depth: GenotypeDepth
  all individuals: 293
  bin: 1.75e1
  variant carriers: 281
genotype depth: GenotypeDepth
  all individuals: 1418
  bin: 2.5e0
  variant carriers: 567
genotype depth: GenotypeDepth
  all individuals: 226
  bin: 8.25e1
  variant carriers: 216
genotype depth: GenotypeDepth
  all individuals: 845
  bin: 4.25e1
  variant carriers: 795
genotype depth: GenotypeDepth
  all individuals: 1684
  bin: 9.75e1
  variant carriers: 1646
genotype depth: GenotypeDepth
  all individuals: 366
  bin: 7.25e1
  variant carriers: 347
genotype depth: GenotypeDepth
  all individuals: 286
  bin: 7.75e1
  variant carriers: 270
genotype depth: GenotypeDepth
  all individuals: 791
  bin: 2.25e1
  variant carriers: 419
genotype depth: GenotypeDepth
  all individuals: 632
  bin: 5.75e1
  variant carriers: 604
genotype quality: GenotypeQuality
  all individuals: 91
  bin: 5.25e1
  variant carriers: 88
genotype quality: GenotypeQuality
  all individuals: 44
  bin: 3.25e1
  variant carriers: 35
genotype quality: GenotypeQuality
  all individuals: 114
  bin: 7.25e1
  variant carriers: 79
genotype quality: GenotypeQuality
  all individuals: 180
  bin: 7.75e1
  variant carriers: 139
genotype quality: GenotypeQuality
  all individuals: 148
  bin: 2.25e1
  variant carriers: 102
hgvs: p.Val155Val
num of homozygotes: 5241
population: South Asian
population: East Asian
population: European (Non-Finnish)
population: African
population: Latino
population: European (Finnish)
population: Other
reference allele: A
site quality: QD
site quality: DP
site quality: BaseQRankSum
site quality: MQ
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: FS
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: ClippingRankSum

17-37830946-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830946
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830946
    reference: chr 17
allele count: 1
allele frequency: 4.927079227433977e-5
allele num: 20296
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*110-14C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.433-639C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*110-14C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.370-14C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.433-14C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.476-14C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.310-14C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1827C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.280-14C>T
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 45
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 464
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 324
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1106
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 365
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2638
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1444
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 55
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2834
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 141
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 239
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 314
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 470
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 199
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 472
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 324
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 83
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 295
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1365
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3833
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 56
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 47
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 976
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 62
  bin: 5.25e1
  variant carriers: 0
num of homozygotes: 0
population: East Asian
population: Latino
population: South Asian
population: African
population: European (Finnish)
population: European (Non-Finnish)
population: Other
reference allele: G
site quality: ClippingRankSum
site quality: DP
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: QD
site quality: FS
site quality: MQ

17-37830958-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830958
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830958
    reference: chr 17
allele count: 11
allele frequency: 5.46448087431694e-4
allele num: 20130
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.370-26A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.310-26A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1839A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.433-651A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.476-26A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.280-26A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*110-26A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*110-26A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.433-26A>G
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 2688
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 199
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 408
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 141
  bin: 7.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1502
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 319
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 315
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1044
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 55
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2256
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 365
  bin: 9.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 295
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 83
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 522
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 987
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 238
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1413
  bin: 2.25e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 315
  bin: 5.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 45
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 780
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 167
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1091
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 325
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 455
  bin: 3.75e1
  variant carriers: 0
num of homozygotes: 0
population: African
population: European (Non-Finnish)
population: East Asian
population: Latino
population: Other
population: European (Finnish)
population: South Asian
reference allele: T
site quality: VQSLOD
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: MQ
site quality: DP
site quality: FS
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: QD

17-37830968-C-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830968
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830968
    reference: chr 17
allele count: 1
allele frequency: 5.016554630279924e-5
allele num: 19934
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*110-36G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.280-36G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1849G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.310-36G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.433-661G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.370-36G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*110-36G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.476-36G>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.433-36G>C
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 1738
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 140
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 294
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1355
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2772
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 746
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1707
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 379
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 364
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 564
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 306
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1638
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 314
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 199
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 84
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 55
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 238
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 318
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 45
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 243
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 63
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 274
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 281
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 168
  bin: 5.25e1
  variant carriers: 0
num of homozygotes: 0
population: Latino
population: Other
population: European (Non-Finnish)
population: East Asian
population: African
population: European (Finnish)
population: South Asian
reference allele: C
site quality: QD
site quality: ReadPosRankSum
site quality: MQ
site quality: VQSLOD
site quality: ClippingRankSum
site quality: MQRankSum
site quality: FS
site quality: DP
site quality: InbreedingCoeff
site quality: BaseQRankSum

17-37830970-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830970
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830970
    reference: chr 17
allele count: 1
allele frequency: 5.030181086519115e-5
allele num: 19880
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*110-38G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.476-38G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.370-38G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.310-38G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.433-38G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1851G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*110-38G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.280-38G>A
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.433-663G>A
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 318
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 140
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 84
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 55
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 696
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1841
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 375
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 583
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1630
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 305
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 199
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2781
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1395
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1604
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 239
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 364
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 45
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 294
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 313
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 107
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 895
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 295
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1907
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 242
  bin: 7.25e1
  variant carriers: 0
num of homozygotes: 0
population: Other
population: Latino
population: European (Finnish)
population: African
population: East Asian
population: European (Non-Finnish)
population: South Asian
reference allele: C
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: MQRankSum
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: DP
site quality: FS
site quality: QD
site quality: MQ
site quality: ClippingRankSum

17-37830973-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830973
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830973
    reference: chr 17
allele count: 434
allele frequency: 2.186177715091678e-2
allele num: 19852
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*110-41A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*110-41A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.433-666A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1854A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.310-41A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.280-41A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.476-41A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.433-41A>G
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.370-41A>G
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 1404
  bin: 2.25e1
  variant carriers: 81
genotype depth: GenotypeDepth
  all individuals: 601
  bin: 7.5e0
  variant carriers: 13
genotype depth: GenotypeDepth
  all individuals: 56
  bin: 8.75e1
  variant carriers: 5
genotype depth: GenotypeDepth
  all individuals: 240
  bin: 6.25e1
  variant carriers: 17
genotype depth: GenotypeDepth
  all individuals: 1462
  bin: 2.75e1
  variant carriers: 57
genotype depth: GenotypeDepth
  all individuals: 654
  bin: 3.25e1
  variant carriers: 35
genotype depth: GenotypeDepth
  all individuals: 1629
  bin: 1.25e1
  variant carriers: 53
genotype depth: GenotypeDepth
  all individuals: 100
  bin: 7.75e1
  variant carriers: 9
genotype depth: GenotypeDepth
  all individuals: 2798
  bin: 2.5e0
  variant carriers: 8
genotype depth: GenotypeDepth
  all individuals: 196
  bin: 6.75e1
  variant carriers: 6
genotype depth: GenotypeDepth
  all individuals: 80
  bin: 8.25e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 2005
  bin: 1.75e1
  variant carriers: 68
genotype depth: GenotypeDepth
  all individuals: 368
  bin: 3.75e1
  variant carriers: 18
genotype depth: GenotypeDepth
  all individuals: 141
  bin: 7.25e1
  variant carriers: 8
genotype depth: GenotypeDepth
  all individuals: 310
  bin: 4.25e1
  variant carriers: 16
genotype depth: GenotypeDepth
  all individuals: 49
  bin: 9.25e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 362
  bin: 9.75e1
  variant carriers: 8
genotype depth: GenotypeDepth
  all individuals: 292
  bin: 5.25e1
  variant carriers: 9
genotype depth: GenotypeDepth
  all individuals: 311
  bin: 4.75e1
  variant carriers: 13
genotype depth: GenotypeDepth
  all individuals: 317
  bin: 5.75e1
  variant carriers: 20
genotype quality: GenotypeQuality
  all individuals: 255
  bin: 7.75e1
  variant carriers: 3
genotype quality: GenotypeQuality
  all individuals: 119
  bin: 1.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 96
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1828
  bin: 7.5e0
  variant carriers: 7
genotype quality: GenotypeQuality
  all individuals: 102
  bin: 8.75e1
  variant carriers: 3
num of homozygotes: 5
population: Latino
population: Other
population: East Asian
population: South Asian
population: European (Finnish)
population: African
population: European (Non-Finnish)
reference allele: T
site quality: VQSLOD
site quality: MQRankSum
site quality: FS
site quality: ClippingRankSum
site quality: QD
site quality: InbreedingCoeff
site quality: MQ
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: DP

17-37830983-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37830983
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37830983
    reference: chr 17
allele count: 3
allele frequency: 1.525785779676533e-4
allele num: 19662
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.280-51C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.310-51C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.370-51C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.*110-51C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.476-51C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-1864C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.433-51C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.*110-51C>T
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.433-676C>T
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 300
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 357
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 234
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1980
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 314
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 77
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1080
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 197
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1810
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 696
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1654
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 578
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 141
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 46
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 361
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3035
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 53
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 98
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 307
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 309
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1929
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 853
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1216
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1030
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 93
  bin: 5.75e1
  variant carriers: 0
num of homozygotes: 0
population: Latino
population: East Asian
population: European (Finnish)
population: European (Non-Finnish)
population: Other
population: African
population: South Asian
reference allele: G
site quality: ClippingRankSum
site quality: QD
site quality: DP
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: MQ
site quality: FS
site quality: VQSLOD

17-37833035-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37833035
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37833035
    reference: chr 17
allele count: 51
allele frequency: 7.083333333333334e-1
allele num: 72
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000464308
  ensembl transcript: ENST00000577337
  gene symbol: PGAP3
  hgvsc: ENST00000577337.1:c.103-27T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463011
  ensembl transcript: ENST00000584620
  gene symbol: PGAP3
  hgvsc: ENST00000584620.1:c.420-27T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000367250
  ensembl transcript: ENST00000378011
  gene symbol: PGAP3
  hgvsc: ENST00000378011.4:c.280-2103T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000415765
  ensembl transcript: ENST00000429199
  gene symbol: PGAP3
  hgvsc: ENST00000429199.2:c.433-2728T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000300658
  ensembl transcript: ENST00000300658
  gene symbol: PGAP3
  hgvsc: ENST00000300658.4:c.433-2103T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.310-2103T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.476-2103T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-3916T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.370-2103T>C
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1796
  bin: 2.5e0
  variant carriers: 632
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34
  bin: 1.25e1
  variant carriers: 33
genotype depth: GenotypeDepth
  all individuals: 528
  bin: 7.5e0
  variant carriers: 395
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 564
  bin: 2.5e0
  variant carriers: 3
genotype quality: GenotypeQuality
  all individuals: 5
  bin: 3.75e1
  variant carriers: 5
genotype quality: GenotypeQuality
  all individuals: 24
  bin: 3.25e1
  variant carriers: 24
genotype quality: GenotypeQuality
  all individuals: 8
  bin: 6.75e1
  variant carriers: 8
genotype quality: GenotypeQuality
  all individuals: 19
  bin: 9.75e1
  variant carriers: 19
num of homozygotes: 15
population: East Asian
population: European (Finnish)
population: South Asian
population: Other
population: Latino
population: African
population: European (Non-Finnish)
reference allele: A
site quality: QD
site quality: BaseQRankSum
site quality: MQ
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: FS
site quality: DP
site quality: ClippingRankSum

17-37833053-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 37833053
    reference: chr 17
  end: Position
    type: ExactPosition
    position: 37833053
    reference: chr 17
allele count: 0
allele frequency: 0.0e0
allele num: 62
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl protein: ENSP00000463234
  ensembl transcript: ENST00000579146
  gene symbol: PGAP3
  hgvsc: ENST00000579146.1:c.433-3934T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000582276
  gene symbol: PGAP3
  hgvsc: ENST00000582276.1:n.370-2121T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000309862
  gene symbol: PGAP3
  hgvsc: ENST00000309862.6:n.476-2121T>C
  variant of: http://identifiers.org/hgnc/23719
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000161395
  ensembl transcript: ENST00000580898
  gene symbol: PGAP3
  hgvsc: ENST00000580898.1:n.310-2121T>C
  variant of: http://identifiers.org/hgnc/23719
canonical: true
consequence: intron
filter: AC_Adj0_Filter
num of homozygotes: 0
reference allele: A

GenotypeQuality
all individuals: 7
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 5833
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 53
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 180
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 22
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 3
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 30
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 23
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2845
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 3866
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 15874
bin: 6.25e1
variant carriers: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16510
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6606
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66596
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 902
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10364
num of homozygotes: 0

East Asian
type: Population
allele count: 1
allele frequency: 1.158748551564311e-4
allele num: 8630
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11568
num of homozygotes: 0

FS
type: SiteQuality
SIO_000300: 1.12e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 4.91e-2

QD
type: SiteQuality
SIO_000300: 1.327e1

ClippingRankSum
type: SiteQuality
SIO_000300: -8.0e-3

BaseQRankSum
type: SiteQuality
SIO_000300: -1.301e0

DP
type: SiteQuality
SIO_000300: 2.351772e6

VQSLOD
type: SiteQuality
SIO_000300: 2.01e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 3.26e-1

MQRankSum
type: SiteQuality
SIO_000300: -1.39e-1

MQ
type: SiteQuality
SIO_000300: 5.967e1

GenotypeQuality
all individuals: 15883
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2310
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2843
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 3
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 7
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 54
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 20
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 4351
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 22
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 20535
bin: 9.75e1
variant carriers: 8

European (Non-Finnish)
type: Population
allele count: 6
allele frequency: 9.009820704567979e-5
allele num: 66594
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8630
num of homozygotes: 0

African
type: Population
allele count: 1
allele frequency: 9.648784253184099e-5
allele num: 10364
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6606
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 902
num of homozygotes: 0

Latino
type: Population
allele count: 1
allele frequency: 8.644536652835408e-5
allele num: 11568
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16510
num of homozygotes: 0

DP
type: SiteQuality
SIO_000300: 2.351643e6

ClippingRankSum
type: SiteQuality
SIO_000300: -1.61e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 7.099999999999999e-2

FS
type: SiteQuality
SIO_000300: 5.38e-1

MQRankSum
type: SiteQuality
SIO_000300: 6.3e-2

QD
type: SiteQuality
SIO_000300: 1.257e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.6e-3

BaseQRankSum
type: SiteQuality
SIO_000300: 7.85e-1

VQSLOD
type: SiteQuality
SIO_000300: 3.13e0

MQ
type: SiteQuality
SIO_000300: 5.964e1

GenotypeQuality
all individuals: 32
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 36
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2841
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 4348
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 17
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 57
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 4692
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2312
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 14
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 5819
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 3866
bin: 9.25e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10362
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66582
num of homozygotes: 0

Latino
type: Population
allele count: 1
allele frequency: 8.644536652835408e-5
allele num: 11568
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8628
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6604
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16510
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 902
num of homozygotes: 0

QD
type: SiteQuality
SIO_000300: 1.214e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 4.5e-3

VQSLOD
type: SiteQuality
SIO_000300: 1.15e0

BaseQRankSum
type: SiteQuality
SIO_000300: 8.01e-1

ClippingRankSum
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ReadPosRankSum
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MQ
type: SiteQuality
SIO_000300: 5.962e1

FS
type: SiteQuality
SIO_000300: 6.889999999999999e-1

DP
type: SiteQuality
SIO_000300: 2.350542e6

MQRankSum
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SIO_000300: 3.78e-1

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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bin: 9.25e1
variant carriers: 0

European (Finnish)
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allele frequency: 0.0e0
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num of homozygotes: 0

Other
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allele frequency: 0.0e0
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num of homozygotes: 0

East Asian
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allele frequency: 0.0e0
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num of homozygotes: 0

Latino
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allele frequency: 0.0e0
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num of homozygotes: 0

African
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allele count: 0
allele frequency: 0.0e0
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num of homozygotes: 0

European (Non-Finnish)
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allele count: 3
allele frequency: 4.507076109491902e-5
allele num: 66562
num of homozygotes: 0

South Asian
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allele frequency: 6.056935190793458e-5
allele num: 16510
num of homozygotes: 0

VQSLOD
type: SiteQuality
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MQ
type: SiteQuality
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ReadPosRankSum
type: SiteQuality
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InbreedingCoeff
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FS
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ClippingRankSum
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SIO_000300: -6.15e-1

MQRankSum
type: SiteQuality
SIO_000300: 3.88e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 6.2e-1

DP
type: SiteQuality
SIO_000300: 2.350147e6

QD
type: SiteQuality
SIO_000300: 1.265e1

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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East Asian
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allele frequency: 0.0e0
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num of homozygotes: 0

South Asian
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allele frequency: 0.0e0
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Latino
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allele frequency: 0.0e0
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num of homozygotes: 0

European (Non-Finnish)
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allele frequency: 7.512470701364265e-5
allele num: 66556
num of homozygotes: 0

European (Finnish)
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allele frequency: 0.0e0
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African
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allele frequency: 0.0e0
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Other
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allele frequency: 0.0e0
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FS
type: SiteQuality
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MQRankSum
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QD
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MQ
type: SiteQuality
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BaseQRankSum
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VQSLOD
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InbreedingCoeff
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ReadPosRankSum
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DP
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ClippingRankSum
type: SiteQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 0

Other
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allele num: 900
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European (Finnish)
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allele frequency: 0.0e0
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European (Non-Finnish)
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allele frequency: 0.0e0
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num of homozygotes: 0

Latino
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East Asian
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allele frequency: 0.0e0
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African
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allele frequency: 9.658103148541626e-5
allele num: 10354
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South Asian
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allele frequency: 0.0e0
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DP
type: SiteQuality
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MQRankSum
type: SiteQuality
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QD
type: SiteQuality
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InbreedingCoeff
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MQ
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SIO_000300: 6.0e1

ReadPosRankSum
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FS
type: SiteQuality
SIO_000300: 3.614e0

BaseQRankSum
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SIO_000300: -2.607e0

VQSLOD
type: SiteQuality
SIO_000300: 5.8e-3

ClippingRankSum
type: SiteQuality
SIO_000300: 7.17e-1

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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East Asian
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allele frequency: 0.0e0
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num of homozygotes: 0

African
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allele frequency: 0.0e0
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European (Finnish)
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allele count: 0
allele frequency: 0.0e0
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num of homozygotes: 0

Latino
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allele frequency: 8.64902266043937e-5
allele num: 11562
num of homozygotes: 0

European (Non-Finnish)
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allele count: 0
allele frequency: 0.0e0
allele num: 66468
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South Asian
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allele num: 16502
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Other
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allele frequency: 0.0e0
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ClippingRankSum
type: SiteQuality
SIO_000300: 2.06e-1

BaseQRankSum
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SIO_000300: -3.183e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.0e-4

FS
type: SiteQuality
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MQ
type: SiteQuality
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QD
type: SiteQuality
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VQSLOD
type: SiteQuality
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ReadPosRankSum
type: SiteQuality
SIO_000300: 2.21e0

MQRankSum
type: SiteQuality
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DP
type: SiteQuality
SIO_000300: 2.345305e6

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 0

Latino
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allele count: 0
allele frequency: 0.0e0
allele num: 11554
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
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num of homozygotes: 0

South Asian
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allele frequency: 0.0e0
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European (Finnish)
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allele count: 0
allele frequency: 0.0e0
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European (Non-Finnish)
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allele count: 2
allele frequency: 3.010869237948996e-5
allele num: 66426
num of homozygotes: 0

East Asian
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allele frequency: 0.0e0
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num of homozygotes: 0

Other
type: Population
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DP
type: SiteQuality
SIO_000300: 2.343247e6

ClippingRankSum
type: SiteQuality
SIO_000300: -1.2e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: -2.77e-1

VQSLOD
type: SiteQuality
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BaseQRankSum
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FS
type: SiteQuality
SIO_000300: 0.0e0

InbreedingCoeff
type: SiteQuality
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MQ
type: SiteQuality
SIO_000300: 6.0e1

MQRankSum
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QD
type: SiteQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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allele count: 0
allele frequency: 0.0e0
allele num: 11552
num of homozygotes: 0

European (Finnish)
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allele count: 0
allele frequency: 0.0e0
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European (Non-Finnish)
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allele count: 0
allele frequency: 0.0e0
allele num: 66398
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African
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East Asian
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allele num: 8622
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South Asian
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Other
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ClippingRankSum
type: SiteQuality
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DP
type: SiteQuality
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BaseQRankSum
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VQSLOD
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FS
type: SiteQuality
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ReadPosRankSum
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QD
type: SiteQuality
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MQRankSum
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InbreedingCoeff
type: SiteQuality
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MQ
type: SiteQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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African
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allele frequency: 0.0e0
allele num: 10308
num of homozygotes: 0

European (Finnish)
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allele frequency: 0.0e0
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num of homozygotes: 0

South Asian
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allele frequency: 0.0e0
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Latino
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allele frequency: 0.0e0
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num of homozygotes: 0

European (Non-Finnish)
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allele num: 66308
num of homozygotes: 0

East Asian
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Other
type: Population
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FS
type: SiteQuality
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MQ
type: SiteQuality
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InbreedingCoeff
type: SiteQuality
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VQSLOD
type: SiteQuality
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DP
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BaseQRankSum
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MQRankSum
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ClippingRankSum
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ReadPosRankSum
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QD
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 1

African
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allele frequency: 0.0e0
allele num: 10304
num of homozygotes: 0

European (Non-Finnish)
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allele num: 66310
num of homozygotes: 0

Latino
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South Asian
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allele frequency: 0.0e0
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European (Finnish)
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allele frequency: 0.0e0
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Other
type: Population
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East Asian
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ReadPosRankSum
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FS
type: SiteQuality
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VQSLOD
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QD
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MQ
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BaseQRankSum
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InbreedingCoeff
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MQRankSum
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ClippingRankSum
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DP
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 3

African
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South Asian
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European (Non-Finnish)
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allele num: 66300
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Latino
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Other
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European (Finnish)
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East Asian
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MQRankSum
type: SiteQuality
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QD
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DP
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ClippingRankSum
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FS
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InbreedingCoeff
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VQSLOD
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MQ
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BaseQRankSum
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ReadPosRankSum
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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bin: 3.25e1
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GenotypeQuality
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bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 2300
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2752
bin: 7.25e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6530
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16406
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 892
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11540
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10290
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66246
num of homozygotes: 0

East Asian
type: Population
allele count: 1
allele frequency: 1.161170459823502e-4
allele num: 8612
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: 4.76e-1

QD
type: SiteQuality
SIO_000300: 1.015e1

MQRankSum
type: SiteQuality
SIO_000300: 9.0e-2

BaseQRankSum
type: SiteQuality
SIO_000300: -2.396e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.22e0

DP
type: SiteQuality
SIO_000300: 2.326971e6

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.0e-4

FS
type: SiteQuality
SIO_000300: 6.276e0

ClippingRankSum
type: SiteQuality
SIO_000300: 1.45e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

GenotypeQuality
all individuals: 5445
bin: 6.75e1
variant carriers: 0

GenotypeQuality
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bin: 4.75e1
variant carriers: 0

GenotypeQuality
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bin: 5.75e1
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GenotypeQuality
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bin: 3.25e1
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GenotypeQuality
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bin: 8.25e1
variant carriers: 0

GenotypeQuality
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bin: 2.25e1
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GenotypeQuality
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bin: 1.75e1
variant carriers: 0

GenotypeQuality
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bin: 2.75e1
variant carriers: 0

GenotypeQuality
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bin: 5.25e1
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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bin: 7.25e1
variant carriers: 0

African
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allele count: 0
allele frequency: 0.0e0
allele num: 10286
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.510026576467746e-5
allele num: 66224
num of homozygotes: 0

South Asian
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allele count: 0
allele frequency: 0.0e0
allele num: 16382
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11542
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 892
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6532
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8612
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: -1.72e-1

MQ
type: SiteQuality
SIO_000300: 5.943e1

VQSLOD
type: SiteQuality
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QD
type: SiteQuality
SIO_000300: 4.05e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 0.0e0

FS
type: SiteQuality
SIO_000300: 0.0e0

DP
type: SiteQuality
SIO_000300: 2.326033e6

ReadPosRankSum
type: SiteQuality
SIO_000300: 2.14e0

ClippingRankSum
type: SiteQuality
SIO_000300: -1.526e0

BaseQRankSum
type: SiteQuality
SIO_000300: -1.97e0

GenotypeQuality
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bin: 7.5e0
variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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bin: 9.25e1
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GenotypeQuality
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bin: 9.75e1
variant carriers: 12

GenotypeQuality
all individuals: 5402
bin: 6.75e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6520
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8608
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10276
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16342
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11534
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 890
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 12
allele frequency: 1.813729935612587e-4
allele num: 66162
num of homozygotes: 0

ReadPosRankSum
type: SiteQuality
SIO_000300: 5.99e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 2.74e0

ClippingRankSum
type: SiteQuality
SIO_000300: -3.39e-1

DP
type: SiteQuality
SIO_000300: 2.319941e6

MQRankSum
type: SiteQuality
SIO_000300: 7.69e-1

MQ
type: SiteQuality
SIO_000300: 5.962e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 0.0e0

VQSLOD
type: SiteQuality
SIO_000300: 1.94e0

FS
type: SiteQuality
SIO_000300: 1.575e0

QD
type: SiteQuality
SIO_000300: 1.272e1

GenotypeQuality
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bin: 5.25e1
variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 56

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
all individuals: 2711
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variant carriers: 0

South Asian
type: Population
allele count: 16
allele frequency: 9.793120332966092e-4
allele num: 16338
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6512
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10270
num of homozygotes: 0

East Asian
type: Population
allele count: 38
allele frequency: 4.414498141263941e-3
allele num: 8608
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11532
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 2
allele frequency: 3.024345985180705e-5
allele num: 66130
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 890
num of homozygotes: 0

BaseQRankSum
type: SiteQuality
SIO_000300: -2.563e0

FS
type: SiteQuality
SIO_000300: 0.0e0

MQRankSum
type: SiteQuality
SIO_000300: 2.6e-2

ReadPosRankSum
type: SiteQuality
SIO_000300: 5.8e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -5.999999999999999e-4

QD
type: SiteQuality
SIO_000300: 1.295e1

MQ
type: SiteQuality
SIO_000300: 5.972e1

DP
type: SiteQuality
SIO_000300: 2.316654e6

VQSLOD
type: SiteQuality
SIO_000300: 4.63e0

ClippingRankSum
type: SiteQuality
SIO_000300: -2.58e-1

GenotypeQuality
all individuals: 56
bin: 7.5e0
variant carriers: 0

GenotypeQuality
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GenotypeQuality
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variant carriers: 3

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
all individuals: 3850
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GenotypeQuality
all individuals: 134
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variant carriers: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 890
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16332
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11530
num of homozygotes: 0

African
type: Population
allele count: 1
allele frequency: 9.74089226573154e-5
allele num: 10266
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8606
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6504
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 2
allele frequency: 3.024711896191888e-5
allele num: 66122
num of homozygotes: 0

FS
type: SiteQuality
SIO_000300: 6.862e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 7.65e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 8.36e-1

MQRankSum
type: SiteQuality
SIO_000300: 9.1e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.0e-4

MQ
type: SiteQuality
SIO_000300: 5.897e1

QD
type: SiteQuality
SIO_000300: 1.544e1

DP
type: SiteQuality
SIO_000300: 2.313782e6

VQSLOD
type: SiteQuality
SIO_000300: -3.7e-3

ClippingRankSum
type: SiteQuality
SIO_000300: -1.037e0

GenotypeQuality
all individuals: 2284
bin: 8.75e1
variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 247
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GenotypeQuality
all individuals: 4512
bin: 7.75e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10226
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 2
allele frequency: 3.030762236702531e-5
allele num: 65990
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16250
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6478
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8602
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 886
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11512
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: 1.42e-1

MQRankSum
type: SiteQuality
SIO_000300: 1.01e0

FS
type: SiteQuality
SIO_000300: 7.413e0

DP
type: SiteQuality
SIO_000300: 2.287179e6

MQ
type: SiteQuality
SIO_000300: 6.0e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 8.999999999999999e-3

BaseQRankSum
type: SiteQuality
SIO_000300: -3.977e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.9e-3

ClippingRankSum
type: SiteQuality
SIO_000300: 1.47e0

QD
type: SiteQuality
SIO_000300: 1.121e1

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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variant carriers: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8600
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11508
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 886
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10222
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6482
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 6.15839389087326e-5
allele num: 16238
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 65976
num of homozygotes: 0

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.5e-3

QD
type: SiteQuality
SIO_000300: 1.429e1

DP
type: SiteQuality
SIO_000300: 2.285448e6

ClippingRankSum
type: SiteQuality
SIO_000300: -5.34e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.34e-1

FS
type: SiteQuality
SIO_000300: 0.0e0

MQRankSum
type: SiteQuality
SIO_000300: -2.0e-1

VQSLOD
type: SiteQuality
SIO_000300: 3.32e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

BaseQRankSum
type: SiteQuality
SIO_000300: -4.67e-1

GenotypeQuality
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bin: 6.75e1
variant carriers: 0

GenotypeQuality
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variant carriers: 18

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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bin: 9.25e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 65932
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8596
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 882
num of homozygotes: 0

Latino
type: Population
allele count: 1
allele frequency: 8.69414014953921e-5
allele num: 11502
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6474
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 6.171315724512466e-5
allele num: 16204
num of homozygotes: 0

African
type: Population
allele count: 16
allele frequency: 1.566784175479828e-3
allele num: 10212
num of homozygotes: 0

BaseQRankSum
type: SiteQuality
SIO_000300: -1.931e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

ClippingRankSum
type: SiteQuality
SIO_000300: -3.02e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 5.25e-1

MQRankSum
type: SiteQuality
SIO_000300: -3.48e-1

VQSLOD
type: SiteQuality
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InbreedingCoeff
type: SiteQuality
SIO_000300: 3.3e-3

FS
type: SiteQuality
SIO_000300: 0.0e0

QD
type: SiteQuality
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DP
type: SiteQuality
SIO_000300: 2.275631e6

GenotypeQuality
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bin: 6.75e1
variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 533
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variant carriers: 0

GenotypeQuality
all individuals: 3821
bin: 9.25e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6440
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8594
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10190
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11490
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 882
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 65836
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 6.201935003721161e-5
allele num: 16124
num of homozygotes: 0

FS
type: SiteQuality
SIO_000300: 5.828e0

MQRankSum
type: SiteQuality
SIO_000300: 2.76e-1

DP
type: SiteQuality
SIO_000300: 2.265619e6

InbreedingCoeff
type: SiteQuality
SIO_000300: 5.5e-3

MQ
type: SiteQuality
SIO_000300: 6.0e1

ReadPosRankSum
type: SiteQuality
SIO_000300: -2.39e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 9.2e-2

VQSLOD
type: SiteQuality
SIO_000300: 3.12e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 4.61e-1

QD
type: SiteQuality
SIO_000300: 1.614e1

GenotypeQuality
all individuals: 138
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1810
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 1709
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GenotypeQuality
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GenotypeQuality
all individuals: 4192
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GenotypeQuality
all individuals: 253
bin: 5.75e1
variant carriers: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11488
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8590
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 882
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16078
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6436
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 65796
num of homozygotes: 0

African
type: Population
allele count: 2
allele frequency: 1.961168856638557e-4
allele num: 10198
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: 4.79e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.7e-3

FS
type: SiteQuality
SIO_000300: 1.4458e1

ClippingRankSum
type: SiteQuality
SIO_000300: 5.52e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -1.255e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.67e0

MQ
type: SiteQuality
SIO_000300: 5.941e1

VQSLOD
type: SiteQuality
SIO_000300: -2.424e0

DP
type: SiteQuality
SIO_000300: 2.24714e6

QD
type: SiteQuality
SIO_000300: 8.57e0

GenotypeQuality
all individuals: 1447
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2456
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 166
bin: 1.75e1
variant carriers: 0

GenotypeQuality
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bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 8622
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 138
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 20364
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 3803
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 971
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1709
bin: 2.25e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10198
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16078
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11488
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6436
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8590
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.519849230956289e-5
allele num: 65796
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 882
num of homozygotes: 0

QD
type: SiteQuality
SIO_000300: 8.57e0

DP
type: SiteQuality
SIO_000300: 2.24714e6

VQSLOD
type: SiteQuality
SIO_000300: -2.424e0

BaseQRankSum
type: SiteQuality
SIO_000300: -1.255e0

MQRankSum
type: SiteQuality
SIO_000300: 4.79e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.67e0

ClippingRankSum
type: SiteQuality
SIO_000300: 5.52e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.7e-3

MQ
type: SiteQuality
SIO_000300: 5.941e1

FS
type: SiteQuality
SIO_000300: 1.4458e1

GenotypeQuality
all individuals: 2378
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1055
bin: 2.75e1
variant carriers: 0

GenotypeQuality
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bin: 2.5e0
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GenotypeQuality
all individuals: 4172
bin: 8.25e1
variant carriers: 0

GenotypeQuality
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bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 2177
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 3799
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2251
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 5817
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 4260
bin: 6.75e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6392
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 882
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11470
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8584
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 15866
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.523275651961979e-5
allele num: 65648
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10176
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: -3.12e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -1.353e0

VQSLOD
type: SiteQuality
SIO_000300: 8.8e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -1.457e0

QD
type: SiteQuality
SIO_000300: 1.16e1

MQ
type: SiteQuality
SIO_000300: 5.945e1

FS
type: SiteQuality
SIO_000300: 0.0e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 9.0e-4

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.08e0

DP
type: SiteQuality
SIO_000300: 2.236218e6

GenotypeQuality
all individuals: 1110
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 20356
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 1790
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1434
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 4862
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 3800
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 4214
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 4292
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2622
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 4177
bin: 8.25e1
variant carriers: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 15914
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6390
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 884
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.522348069662648e-5
allele num: 65688
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11470
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8586
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10178
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: -1.583e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.1e-3

BaseQRankSum
type: SiteQuality
SIO_000300: 8.93e-1

FS
type: SiteQuality
SIO_000300: 0.0e0

MQRankSum
type: SiteQuality
SIO_000300: -7.34e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -1.568e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.81e0

MQ
type: SiteQuality
SIO_000300: 5.864e1

DP
type: SiteQuality
SIO_000300: 2.235639e6

QD
type: SiteQuality
SIO_000300: 1.195e1

GenotypeQuality
all individuals: 652
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2421
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 143
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 3551
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1647
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 17766
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 139
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 1113
bin: 8.75e1
variant carriers: 0

GenotypeQuality
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bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 2873
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 6447
bin: 9.75e1
variant carriers: 1

GenotypeQuality
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variant carriers: 0

GenotypeQuality
all individuals: 192
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variant carriers: 0

GenotypeQuality
all individuals: 6384
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 3130
bin: 7.75e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.545929567448907e-5
allele num: 64686
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6170
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11216
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10046
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 864
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8450
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16072
num of homozygotes: 0

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.2e0

QD
type: SiteQuality
SIO_000300: 8.630000000000001e0

DP
type: SiteQuality
SIO_000300: 1.624551e6

ClippingRankSum
type: SiteQuality
SIO_000300: -4.67e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 6.4e-3

BaseQRankSum
type: SiteQuality
SIO_000300: -5.43e-1

MQRankSum
type: SiteQuality
SIO_000300: 2.0e-1

FS
type: SiteQuality
SIO_000300: 0.0e0

VQSLOD
type: SiteQuality
SIO_000300: 2.87e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

GenotypeQuality
all individuals: 144
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 364
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 117
bin: 1.25e1
variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
all individuals: 1366
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variant carriers: 0

GenotypeQuality
all individuals: 2373
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2790
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
all individuals: 71
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GenotypeQuality
all individuals: 1581
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variant carriers: 0

GenotypeQuality
all individuals: 20138
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variant carriers: 0

GenotypeQuality
all individuals: 1113
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 3143
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variant carriers: 0

GenotypeQuality
all individuals: 6456
bin: 9.75e1
variant carriers: 2

GenotypeQuality
all individuals: 2832
bin: 4.75e1
variant carriers: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11244
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6174
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 870
num of homozygotes: 0

African
type: Population
allele count: 2
allele frequency: 1.987676406281057e-4
allele num: 10062
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16092
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 64796
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8452
num of homozygotes: 0

ClippingRankSum
type: SiteQuality
SIO_000300: 2.76e-1

QD
type: SiteQuality
SIO_000300: 1.384e1

VQSLOD
type: SiteQuality
SIO_000300: 1.51e0

DP
type: SiteQuality
SIO_000300: 1.637224e6

FS
type: SiteQuality
SIO_000300: 8.52e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -6.51e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 5.0e-3

MQ
type: SiteQuality
SIO_000300: 6.0e1

MQRankSum
type: SiteQuality
SIO_000300: -8.37e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 4.26e-1

GenotypeQuality
all individuals: 1506
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 975
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variant carriers: 0

GenotypeQuality
all individuals: 2455
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variant carriers: 0

GenotypeQuality
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variant carriers: 1

GenotypeQuality
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variant carriers: 0

GenotypeQuality
all individuals: 1544
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 22632
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variant carriers: 0

GenotypeQuality
all individuals: 90
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variant carriers: 0

GenotypeQuality
all individuals: 3174
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GenotypeQuality
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GenotypeQuality
all individuals: 2565
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variant carriers: 0

GenotypeQuality
all individuals: 92
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variant carriers: 0

GenotypeQuality
all individuals: 2162
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1463
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1121
bin: 8.75e1
variant carriers: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11276
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16150
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 864
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10092
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6178
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.539029795616843e-5
allele num: 64976
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8492
num of homozygotes: 0

ReadPosRankSum
type: SiteQuality
SIO_000300: -1.22e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -4.1e-2

QD
type: SiteQuality
SIO_000300: 9.390000000000001e0

DP
type: SiteQuality
SIO_000300: 1.661967e6

MQ
type: SiteQuality
SIO_000300: 6.0e1

ClippingRankSum
type: SiteQuality
SIO_000300: -4.1e-2

FS
type: SiteQuality
SIO_000300: 0.0e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 4.5e-3

VQSLOD
type: SiteQuality
SIO_000300: 8.22e-1

MQRankSum
type: SiteQuality
SIO_000300: -1.22e-1

GenotypeQuality
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bin: 1.75e1
variant carriers: 0

GenotypeQuality
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variant carriers: 1

GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1483
bin: 2.25e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10180
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8566
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16256
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11372
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6266
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 874
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.525599560627327e-5
allele num: 65548
num of homozygotes: 0

BaseQRankSum
type: SiteQuality
SIO_000300: 1.89e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 2.49e0

FS
type: SiteQuality
SIO_000300: 9.94e0

DP
type: SiteQuality
SIO_000300: 1.741768e6

VQSLOD
type: SiteQuality
SIO_000300: -2.649e0

MQRankSum
type: SiteQuality
SIO_000300: 6.840000000000001e-1

QD
type: SiteQuality
SIO_000300: 1.704e1

MQ
type: SiteQuality
SIO_000300: 5.826e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 3.8e-3

ClippingRankSum
type: SiteQuality
SIO_000300: -2.066e0

GenotypeQuality
all individuals: 35
bin: 1.75e1
variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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bin: 3.25e1
variant carriers: 0

GenotypeQuality
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bin: 2.25e1
variant carriers: 0

GenotypeQuality
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bin: 7.75e1
variant carriers: 0

GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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variant carriers: 1

GenotypeQuality
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GenotypeQuality
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bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 6485
bin: 9.75e1
variant carriers: 27

GenotypeQuality
all individuals: 2631
bin: 7.25e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6286
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 876
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11388
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8576
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10182
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 65604
num of homozygotes: 0

South Asian
type: Population
allele count: 28
allele frequency: 1.72222905646451e-3
allele num: 16258
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: 2.44e0

ReadPosRankSum
type: SiteQuality
SIO_000300: -3.0e-2

MQRankSum
type: SiteQuality
SIO_000300: 1.09e-1

FS
type: SiteQuality
SIO_000300: 0.0e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.9e-3

BaseQRankSum
type: SiteQuality
SIO_000300: 5.7e-1

QD
type: SiteQuality
SIO_000300: 1.342e1

MQ
type: SiteQuality
SIO_000300: 5.942e1

ClippingRankSum
type: SiteQuality
SIO_000300: 1.09e-1

DP
type: SiteQuality
SIO_000300: 1.7464e6

GenotypeQuality
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bin: 8.25e1
variant carriers: 0

GenotypeQuality
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bin: 2.75e1
variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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bin: 1.25e1
variant carriers: 0

GenotypeQuality
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GenotypeQuality
all individuals: 6461
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 25
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 364
bin: 4.75e1
variant carriers: 0

GenotypeQuality
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bin: 8.75e1
variant carriers: 0

GenotypeQuality
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bin: 9.25e1
variant carriers: 0

GenotypeQuality
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bin: 3.75e1
variant carriers: 0

GenotypeQuality
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bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 305
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 284
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 7518
bin: 6.75e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10196
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11394
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 65648
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16272
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6298
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 880
num of homozygotes: 0

East Asian
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allele count: 1
allele frequency: 1.165229550221394e-4
allele num: 8582
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: 5.0e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -1.272e0

QD
type: SiteQuality
SIO_000300: 1.24e1

DP
type: SiteQuality
SIO_000300: 1.749982e6

VQSLOD
type: SiteQuality
SIO_000300: 4.78e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

BaseQRankSum
type: SiteQuality
SIO_000300: -3.3e-2

FS
type: SiteQuality
SIO_000300: 7.71e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 9.8e-3

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.31e0

GenotypeQuality
all individuals: 12
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1143
bin: 8.75e1
variant carriers: 0

GenotypeQuality
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bin: 1.75e1
variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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bin: 2.25e1
variant carriers: 0

GenotypeQuality
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bin: 9.75e1
variant carriers: 1

GenotypeQuality
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bin: 5.25e1
variant carriers: 0

GenotypeQuality
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bin: 2.75e1
variant carriers: 0

GenotypeQuality
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bin: 6.75e1
variant carriers: 0

GenotypeQuality
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bin: 3.75e1
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
all individuals: 137
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 421
bin: 3.25e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.513042425709617e-5
allele num: 66092
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11468
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6368
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10290
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16388
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8626
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 890
num of homozygotes: 0

QD
type: SiteQuality
SIO_000300: 1.433e1

DP
type: SiteQuality
SIO_000300: 1.780205e6

VQSLOD
type: SiteQuality
SIO_000300: 3.91e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.6e-2

BaseQRankSum
type: SiteQuality
SIO_000300: 2.44e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

ClippingRankSum
type: SiteQuality
SIO_000300: -3.34e-1

MQRankSum
type: SiteQuality
SIO_000300: -5.91e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: -7.7e-2

FS
type: SiteQuality
SIO_000300: 0.0e0

GenotypeQuality
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bin: 6.25e1
variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 6463
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 2712
bin: 7.25e1
variant carriers: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8626
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16396
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6380
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11470
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66164
num of homozygotes: 0

African
type: Population
allele count: 1
allele frequency: 9.704968944099378e-5
allele num: 10304
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 892
num of homozygotes: 0

QD
type: SiteQuality
SIO_000300: 6.48e0

VQSLOD
type: SiteQuality
SIO_000300: -1.634e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 3.59e-1

MQRankSum
type: SiteQuality
SIO_000300: -7.75e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.19e-2

FS
type: SiteQuality
SIO_000300: 0.0e0

DP
type: SiteQuality
SIO_000300: 1.781884e6

ClippingRankSum
type: SiteQuality
SIO_000300: -2.08e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

BaseQRankSum
type: SiteQuality
SIO_000300: 2.55e0

GenotypeQuality
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bin: 4.75e1
variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
all individuals: 7915
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 165
bin: 5.25e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10312
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66234
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8636
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16412
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6402
num of homozygotes: 0

Latino
type: Population
allele count: 1
allele frequency: 8.712319219376198e-5
allele num: 11478
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 890
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: 1.1e0

DP
type: SiteQuality
SIO_000300: 1.785862e6

MQ
type: SiteQuality
SIO_000300: 6.0e1

MQRankSum
type: SiteQuality
SIO_000300: -7.3e-2

FS
type: SiteQuality
SIO_000300: 5.2e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -3.174e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 3.21e-1

QD
type: SiteQuality
SIO_000300: 1.082e1

ClippingRankSum
type: SiteQuality
SIO_000300: -7.3e-2

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.04e-2

GenotypeQuality
all individuals: 179
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2758
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variant carriers: 1

GenotypeQuality
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GenotypeQuality
all individuals: 1146
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 3377
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GenotypeQuality
all individuals: 8017
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variant carriers: 0

GenotypeQuality
all individuals: 6510
bin: 9.75e1
variant carriers: 62

Latino
type: Population
allele count: 5
allele frequency: 4.344048653344917e-4
allele num: 11510
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 5
allele frequency: 7.524001564992326e-5
allele num: 66454
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 6.073858114674441e-5
allele num: 16464
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6460
num of homozygotes: 0

African
type: Population
allele count: 51
allele frequency: 4.922779922779923e-3
allele num: 10360
num of homozygotes: 1

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 902
num of homozygotes: 0

East Asian
type: Population
allele count: 2
allele frequency: 2.312673450508788e-4
allele num: 8648
num of homozygotes: 0

ClippingRankSum
type: SiteQuality
SIO_000300: -1.32e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.62e-2

MQRankSum
type: SiteQuality
SIO_000300: 1.71e-1

FS
type: SiteQuality
SIO_000300: 1.973e0

BaseQRankSum
type: SiteQuality
SIO_000300: -8.79e-1

QD
type: SiteQuality
SIO_000300: 1.228e1

DP
type: SiteQuality
SIO_000300: 1.79883e6

VQSLOD
type: SiteQuality
SIO_000300: 3.59e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 4.18e-1

MQ
type: SiteQuality
SIO_000300: 5.953e1

GenotypeQuality
all individuals: 101
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 33599
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 4
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variant carriers: 0

GenotypeQuality
all individuals: 148
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GenotypeQuality
all individuals: 399
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variant carriers: 0

GenotypeQuality
all individuals: 0
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GenotypeQuality
all individuals: 188
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GenotypeQuality
all individuals: 3
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GenotypeQuality
all individuals: 106
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 8025
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variant carriers: 0

GenotypeQuality
all individuals: 2736
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2481
bin: 8.25e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 105
allele frequency: 1.579755062738844e-3
allele num: 66466
num of homozygotes: 1

South Asian
type: Population
allele count: 1
allele frequency: 6.073120369245719e-5
allele num: 16466
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6470
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10356
num of homozygotes: 0

East Asian
type: Population
allele count: 7
allele frequency: 8.094357076780758e-4
allele num: 8648
num of homozygotes: 0

Latino
type: Population
allele count: 1
allele frequency: 8.686587908269631e-5
allele num: 11512
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 902
num of homozygotes: 0

InbreedingCoeff
type: SiteQuality
SIO_000300: 9.299999999999999e-3

ReadPosRankSum
type: SiteQuality
SIO_000300: 4.16e-1

MQ
type: SiteQuality
SIO_000300: 5.947e1

FS
type: SiteQuality
SIO_000300: 5.73e-1

MQRankSum
type: SiteQuality
SIO_000300: 4.25e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 1.41e0

QD
type: SiteQuality
SIO_000300: 1.178e1

DP
type: SiteQuality
SIO_000300: 1.803037e6

ClippingRankSum
type: SiteQuality
SIO_000300: -1.36e-1

VQSLOD
type: SiteQuality
SIO_000300: 2.89e0

GenotypeQuality
all individuals: 134
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2736
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variant carriers: 0

GenotypeQuality
all individuals: 84
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GenotypeQuality
all individuals: 4
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GenotypeQuality
all individuals: 7
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 2481
bin: 8.25e1
variant carriers: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8648
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 902
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11512
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66466
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 6.073120369245719e-5
allele num: 16466
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10356
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6470
num of homozygotes: 0

ReadPosRankSum
type: SiteQuality
SIO_000300: 4.16e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 1.41e0

ClippingRankSum
type: SiteQuality
SIO_000300: -1.36e-1

FS
type: SiteQuality
SIO_000300: 5.73e-1

MQRankSum
type: SiteQuality
SIO_000300: 4.25e-1

VQSLOD
type: SiteQuality
SIO_000300: 2.89e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 9.299999999999999e-3

MQ
type: SiteQuality
SIO_000300: 5.947e1

DP
type: SiteQuality
SIO_000300: 1.803037e6

QD
type: SiteQuality
SIO_000300: 1.178e1

GenotypeQuality
all individuals: 95
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variant carriers: 0

GenotypeQuality
all individuals: 94
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GenotypeQuality
all individuals: 5
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GenotypeQuality
all individuals: 6
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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bin: 9.75e1
variant carriers: 4

GenotypeQuality
all individuals: 3379
bin: 7.75e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6488
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 902
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 2
allele frequency: 3.00815209216978e-5
allele num: 66486
num of homozygotes: 0

Latino
type: Population
allele count: 1
allele frequency: 8.683570684265369e-5
allele num: 11516
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 6.073120369245719e-5
allele num: 16466
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10364
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8650
num of homozygotes: 0

ClippingRankSum
type: SiteQuality
SIO_000300: -8.49e-1

MQRankSum
type: SiteQuality
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VQSLOD
type: SiteQuality
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ReadPosRankSum
type: SiteQuality
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InbreedingCoeff
type: SiteQuality
SIO_000300: 0.0e0

MQ
type: SiteQuality
SIO_000300: 5.864e1

BaseQRankSum
type: SiteQuality
SIO_000300: -2.231e0

FS
type: SiteQuality
SIO_000300: 2.158e0

QD
type: SiteQuality
SIO_000300: 1.073e1

DP
type: SiteQuality
SIO_000300: 1.801352e6

GenotypeQuality
all individuals: 65
bin: 4.75e1
variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 80
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 1144
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 75
bin: 5.75e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 2
allele frequency: 3.005168890491646e-5
allele num: 66552
num of homozygotes: 0

South Asian
type: Population
allele count: 2
allele frequency: 1.21256214380987e-4
allele num: 16494
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10370
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8650
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6514
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 902
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11530
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: 1.34e0

FS
type: SiteQuality
SIO_000300: 2.114e0

ReadPosRankSum
type: SiteQuality
SIO_000300: -8.64e-1

DP
type: SiteQuality
SIO_000300: 1.805081e6

QD
type: SiteQuality
SIO_000300: 1.171e1

MQ
type: SiteQuality
SIO_000300: 5.943e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 0.0e0

BaseQRankSum
type: SiteQuality
SIO_000300: 1.07e0

ClippingRankSum
type: SiteQuality
SIO_000300: 5.86e-1

MQRankSum
type: SiteQuality
SIO_000300: 1.58e-1

GenotypeQuality
all individuals: 60
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 75
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 8077
bin: 6.75e1
variant carriers: 0

GenotypeQuality
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bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 34197
bin: 6.25e1
variant carriers: 0

GenotypeQuality
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bin: 7.5e0
variant carriers: 0

GenotypeQuality
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bin: 4.25e1
variant carriers: 0

GenotypeQuality
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bin: 2.5e0
variant carriers: 0

GenotypeQuality
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bin: 5.25e1
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GenotypeQuality
all individuals: 1150
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2477
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1520
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 0
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 47
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 3371
bin: 7.75e1
variant carriers: 0

African
type: Population
allele count: 12
allele frequency: 1.156515034695451e-3
allele num: 10376
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16502
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 902
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8650
num of homozygotes: 0

Latino
type: Population
allele count: 2
allele frequency: 1.73370319001387e-4
allele num: 11536
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6512
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66594
num of homozygotes: 0

QD
type: SiteQuality
SIO_000300: 1.129e1

FS
type: SiteQuality
SIO_000300: 2.454e0

ClippingRankSum
type: SiteQuality
SIO_000300: 5.1e-2

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.0e-4

DP
type: SiteQuality
SIO_000300: 1.80778e6

BaseQRankSum
type: SiteQuality
SIO_000300: -1.447e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 2.61e-1

MQ
type: SiteQuality
SIO_000300: 5.913e1

MQRankSum
type: SiteQuality
SIO_000300: 3.9e-2

VQSLOD
type: SiteQuality
SIO_000300: 1.8e0

GenotypeQuality
all individuals: 48
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 99
bin: 2.75e1
variant carriers: 0

GenotypeQuality
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bin: 8.25e1
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GenotypeQuality
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bin: 7.75e1
variant carriers: 0

GenotypeQuality
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bin: 9.75e1
variant carriers: 1

GenotypeQuality
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bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 54
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 8050
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 356
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1
bin: 1.75e1
variant carriers: 0

GenotypeQuality
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bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1520
bin: 9.25e1
variant carriers: 0

GenotypeQuality
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bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 35
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 34103
bin: 6.25e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6510
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10374
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16496
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11536
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8650
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 902
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.502087902184036e-5
allele num: 66574
num of homozygotes: 0

DP
type: SiteQuality
SIO_000300: 1.806089e6

FS
type: SiteQuality
SIO_000300: 1.071e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 8.89e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 0.0e0

MQRankSum
type: SiteQuality
SIO_000300: 1.83e0

VQSLOD
type: SiteQuality
SIO_000300: -3.287e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -2.64e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -1.818e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

QD
type: SiteQuality
SIO_000300: 1.164e1

GenotypeQuality
all individuals: 6459
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 73
bin: 3.75e1
variant carriers: 0

GenotypeQuality
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bin: 6.75e1
variant carriers: 0

GenotypeQuality
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bin: 1.75e1
variant carriers: 0

GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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bin: 7.5e0
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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bin: 2.5e0
variant carriers: 0

GenotypeQuality
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bin: 6.25e1
variant carriers: 0

GenotypeQuality
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bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 82
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 49
bin: 4.25e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6510
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8650
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.502268425322237e-5
allele num: 66566
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10374
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16496
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11532
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 902
num of homozygotes: 0

ReadPosRankSum
type: SiteQuality
SIO_000300: 6.32e-1

MQ
type: SiteQuality
SIO_000300: 5.886e1

MQRankSum
type: SiteQuality
SIO_000300: 8.75e-1

QD
type: SiteQuality
SIO_000300: 8.640000000000001e0

VQSLOD
type: SiteQuality
SIO_000300: -8.149e-1

FS
type: SiteQuality
SIO_000300: 2.498e0

DP
type: SiteQuality
SIO_000300: 1.805852e6

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.0e-4

BaseQRankSum
type: SiteQuality
SIO_000300: -1.602e0

ClippingRankSum
type: SiteQuality
SIO_000300: -2.6e-2

GenotypeQuality
all individuals: 132
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 89
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variant carriers: 0

GenotypeQuality
all individuals: 2716
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variant carriers: 0

GenotypeQuality
all individuals: 42
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variant carriers: 0

GenotypeQuality
all individuals: 2471
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variant carriers: 0

GenotypeQuality
all individuals: 119
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variant carriers: 0

GenotypeQuality
all individuals: 5
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variant carriers: 0

GenotypeQuality
all individuals: 1517
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
all individuals: 5
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
all individuals: 0
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 6460
bin: 9.75e1
variant carriers: 2

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11536
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66564
num of homozygotes: 0

African
type: Population
allele count: 1
allele frequency: 9.641342074816814e-5
allele num: 10372
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 902
num of homozygotes: 0

East Asian
type: Population
allele count: 1
allele frequency: 1.156336725254394e-4
allele num: 8648
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6510
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16496
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 6.0e1

MQRankSum
type: SiteQuality
SIO_000300: -3.1e-2

ClippingRankSum
type: SiteQuality
SIO_000300: 2.69e-1

QD
type: SiteQuality
SIO_000300: 1.256e1

BaseQRankSum
type: SiteQuality
SIO_000300: 8.699999999999999e-2

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.0e-4

ReadPosRankSum
type: SiteQuality
SIO_000300: -3.45e-1

FS
type: SiteQuality
SIO_000300: 1.443e0

VQSLOD
type: SiteQuality
SIO_000300: 8.37e-1

DP
type: SiteQuality
SIO_000300: 1.80524e6

GenotypeQuality
all individuals: 173
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 9
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variant carriers: 0

GenotypeQuality
all individuals: 33146
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
all individuals: 2
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GenotypeQuality
all individuals: 339
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variant carriers: 0

GenotypeQuality
all individuals: 130
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variant carriers: 0

GenotypeQuality
all individuals: 7
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GenotypeQuality
all individuals: 85
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GenotypeQuality
all individuals: 1139
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variant carriers: 0

GenotypeQuality
all individuals: 698
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variant carriers: 0

GenotypeQuality
all individuals: 4
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variant carriers: 0

GenotypeQuality
all individuals: 2465
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variant carriers: 0

GenotypeQuality
all individuals: 3340
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1516
bin: 9.25e1
variant carriers: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8642
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11520
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16486
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10362
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 2
allele frequency: 3.007157033740302e-5
allele num: 66508
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 898
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6498
num of homozygotes: 0

FS
type: SiteQuality
SIO_000300: 0.0e0

QD
type: SiteQuality
SIO_000300: 1.033e1

MQ
type: SiteQuality
SIO_000300: 6.0e1

MQRankSum
type: SiteQuality
SIO_000300: 7.5e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.71e0

ClippingRankSum
type: SiteQuality
SIO_000300: 2.98e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.0e-4

VQSLOD
type: SiteQuality
SIO_000300: 3.45e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -2.028e0

DP
type: SiteQuality
SIO_000300: 1.798393e6

GenotypeQuality
all individuals: 1139
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 4
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 7916
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 171
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1516
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 4
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variant carriers: 0

GenotypeQuality
all individuals: 277
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 124
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variant carriers: 0

GenotypeQuality
all individuals: 9
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variant carriers: 0

GenotypeQuality
all individuals: 2688
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variant carriers: 0

GenotypeQuality
all individuals: 706
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variant carriers: 0

GenotypeQuality
all individuals: 165
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 6461
bin: 9.75e1
variant carriers: 2

GenotypeQuality
all individuals: 82
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 337
bin: 3.25e1
variant carriers: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8642
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10362
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16482
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66506
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 898
num of homozygotes: 0

Latino
type: Population
allele count: 2
allele frequency: 1.736714136853074e-4
allele num: 11516
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6498
num of homozygotes: 0

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.0e-4

MQRankSum
type: SiteQuality
SIO_000300: 5.89e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 1.48e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

QD
type: SiteQuality
SIO_000300: 1.094e1

FS
type: SiteQuality
SIO_000300: 3.538e0

DP
type: SiteQuality
SIO_000300: 1.798272e6

BaseQRankSum
type: SiteQuality
SIO_000300: -1.519e0

VQSLOD
type: SiteQuality
SIO_000300: 7.25e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: -2.79e-1

GenotypeQuality
all individuals: 386
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2
bin: 2.5e0
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GenotypeQuality
all individuals: 363
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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bin: 4.25e1
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GenotypeQuality
all individuals: 1515
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GenotypeQuality
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bin: 3.75e1
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GenotypeQuality
all individuals: 444
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variant carriers: 0

GenotypeQuality
all individuals: 9
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 32283
bin: 6.25e1
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GenotypeQuality
all individuals: 1136
bin: 8.75e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10354
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 896
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16480
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8640
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.504121292341014e-5
allele num: 66484
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6496
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11510
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: 9.75e-1

MQ
type: SiteQuality
SIO_000300: 5.866e1

ClippingRankSum
type: SiteQuality
SIO_000300: 1.29e0

FS
type: SiteQuality
SIO_000300: 4.53e0

ReadPosRankSum
type: SiteQuality
SIO_000300: -1.66e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.0e-4

DP
type: SiteQuality
SIO_000300: 1.794104e6

VQSLOD
type: SiteQuality
SIO_000300: -2.927e0

BaseQRankSum
type: SiteQuality
SIO_000300: -2.6e-2

QD
type: SiteQuality
SIO_000300: 8.44e0

GenotypeQuality
all individuals: 2681
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 6461
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 11
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GenotypeQuality
all individuals: 32401
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GenotypeQuality
all individuals: 3336
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GenotypeQuality
all individuals: 895
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 266
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variant carriers: 0

GenotypeQuality
all individuals: 306
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GenotypeQuality
all individuals: 286
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GenotypeQuality
all individuals: 3
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GenotypeQuality
all individuals: 176
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GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1513
bin: 9.25e1
variant carriers: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16476
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8642
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6498
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.504347564461293e-5
allele num: 66474
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 896
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10360
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11510
num of homozygotes: 0

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.0e-4

DP
type: SiteQuality
SIO_000300: 1.794362e6

FS
type: SiteQuality
SIO_000300: 1.231e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.27e0

ClippingRankSum
type: SiteQuality
SIO_000300: -1.343e0

BaseQRankSum
type: SiteQuality
SIO_000300: 7.32e-1

MQRankSum
type: SiteQuality
SIO_000300: -9.350000000000001e-1

QD
type: SiteQuality
SIO_000300: 1.099e1

VQSLOD
type: SiteQuality
SIO_000300: 2.98e-1

GenotypeQuality
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bin: 3.75e1
variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 16
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GenotypeQuality
all individuals: 6468
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variant carriers: 10

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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bin: 2.75e1
variant carriers: 0

GenotypeQuality
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bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 962
bin: 2.25e1
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GenotypeQuality
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bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 485
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GenotypeQuality
all individuals: 3327
bin: 7.75e1
variant carriers: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 896
num of homozygotes: 0

European (Non-Finnish)
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allele frequency: 0.0e0
allele num: 66442
num of homozygotes: 0

European (Finnish)
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allele frequency: 0.0e0
allele num: 6486
num of homozygotes: 0

Latino
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allele frequency: 8.688097306689834e-4
allele num: 11510
num of homozygotes: 0

East Asian
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allele frequency: 0.0e0
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num of homozygotes: 0

African
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allele frequency: 0.0e0
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num of homozygotes: 0

South Asian
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allele count: 0
allele frequency: 0.0e0
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num of homozygotes: 0

QD
type: SiteQuality
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VQSLOD
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FS
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SIO_000300: 0.0e0

ReadPosRankSum
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BaseQRankSum
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SIO_000300: -6.46e-1

InbreedingCoeff
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SIO_000300: -1.0e-4

ClippingRankSum
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SIO_000300: -3.44e-1

MQ
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DP
type: SiteQuality
SIO_000300: 1.793323e6

MQRankSum
type: SiteQuality
SIO_000300: -2.57e-1

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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bin: 8.75e1
variant carriers: 0

African
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allele frequency: 0.0e0
allele num: 10356
num of homozygotes: 0

Other
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allele count: 0
allele frequency: 0.0e0
allele num: 896
num of homozygotes: 0

European (Non-Finnish)
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allele count: 0
allele frequency: 0.0e0
allele num: 66462
num of homozygotes: 0

East Asian
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allele count: 0
allele frequency: 0.0e0
allele num: 8640
num of homozygotes: 0

Latino
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allele count: 0
allele frequency: 0.0e0
allele num: 11510
num of homozygotes: 0

South Asian
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allele count: 0
allele frequency: 0.0e0
allele num: 16472
num of homozygotes: 0

European (Finnish)
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allele count: 1
allele frequency: 1.538935056940597e-4
allele num: 6498
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: -2.74e-1

VQSLOD
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InbreedingCoeff
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MQ
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BaseQRankSum
type: SiteQuality
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FS
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SIO_000300: 5.319e0

ReadPosRankSum
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QD
type: SiteQuality
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DP
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SIO_000300: 1.791646e6

ClippingRankSum
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SIO_000300: 3.78e-1

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 0

European (Finnish)
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allele count: 0
allele frequency: 0.0e0
allele num: 6494
num of homozygotes: 0

South Asian
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allele count: 1
allele frequency: 6.070171178827243e-5
allele num: 16474
num of homozygotes: 0

Other
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allele count: 0
allele frequency: 0.0e0
allele num: 896
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8636
num of homozygotes: 0

African
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allele count: 0
allele frequency: 0.0e0
allele num: 10346
num of homozygotes: 0

Latino
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allele count: 0
allele frequency: 0.0e0
allele num: 11508
num of homozygotes: 0

European (Non-Finnish)
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allele count: 0
allele frequency: 0.0e0
allele num: 66436
num of homozygotes: 0

DP
type: SiteQuality
SIO_000300: 1.781943e6

QD
type: SiteQuality
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FS
type: SiteQuality
SIO_000300: 3.896e0

MQ
type: SiteQuality
SIO_000300: 5.89e1

VQSLOD
type: SiteQuality
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BaseQRankSum
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SIO_000300: -1.028e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.0e-4

ReadPosRankSum
type: SiteQuality
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ClippingRankSum
type: SiteQuality
SIO_000300: 1.13e0

MQRankSum
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SIO_000300: 5.31e-1

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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bin: 7.25e1
variant carriers: 0

Latino
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allele count: 0
allele frequency: 0.0e0
allele num: 11492
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 894
num of homozygotes: 0

South Asian
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allele count: 0
allele frequency: 0.0e0
allele num: 16456
num of homozygotes: 0

European (Finnish)
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allele count: 0
allele frequency: 0.0e0
allele num: 6478
num of homozygotes: 0

European (Non-Finnish)
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allele count: 1
allele frequency: 1.506750241080039e-5
allele num: 66368
num of homozygotes: 0

African
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allele count: 0
allele frequency: 0.0e0
allele num: 10334
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8632
num of homozygotes: 0

QD
type: SiteQuality
SIO_000300: 1.227e1

InbreedingCoeff
type: SiteQuality
SIO_000300: -4.0e-4

ClippingRankSum
type: SiteQuality
SIO_000300: 9.44e-1

FS
type: SiteQuality
SIO_000300: 1.0623e1

ReadPosRankSum
type: SiteQuality
SIO_000300: -8.179999999999999e-1

MQRankSum
type: SiteQuality
SIO_000300: 1.32e0

BaseQRankSum
type: SiteQuality
SIO_000300: -3.337e0

DP
type: SiteQuality
SIO_000300: 1.762412e6

MQ
type: SiteQuality
SIO_000300: 5.9e1

VQSLOD
type: SiteQuality
SIO_000300: -2.113e0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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bin: 7.25e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66248
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8630
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6470
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 6.086427267194157e-5
allele num: 16430
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10326
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 892
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11484
num of homozygotes: 0

BaseQRankSum
type: SiteQuality
SIO_000300: 8.69e-1

FS
type: SiteQuality
SIO_000300: 2.246e0

QD
type: SiteQuality
SIO_000300: 1.356e1

MQ
type: SiteQuality
SIO_000300: 6.0e1

VQSLOD
type: SiteQuality
SIO_000300: 6.54e-1

DP
type: SiteQuality
SIO_000300: 1.737469e6

MQRankSum
type: SiteQuality
SIO_000300: -1.16e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -7.0e-4

ReadPosRankSum
type: SiteQuality
SIO_000300: -6.37e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 6.37e-1

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 0

European (Non-Finnish)
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allele count: 0
allele frequency: 0.0e0
allele num: 66218
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16422
num of homozygotes: 0

Latino
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allele count: 0
allele frequency: 0.0e0
allele num: 11478
num of homozygotes: 0

European (Finnish)
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allele count: 0
allele frequency: 0.0e0
allele num: 6466
num of homozygotes: 0

African
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allele count: 0
allele frequency: 0.0e0
allele num: 10320
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East Asian
type: Population
allele count: 1
allele frequency: 1.159285879897983e-4
allele num: 8626
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Other
type: Population
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allele frequency: 0.0e0
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MQ
type: SiteQuality
SIO_000300: 6.0e1

BaseQRankSum
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ClippingRankSum
type: SiteQuality
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MQRankSum
type: SiteQuality
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VQSLOD
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ReadPosRankSum
type: SiteQuality
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FS
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DP
type: SiteQuality
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QD
type: SiteQuality
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InbreedingCoeff
type: SiteQuality
SIO_000300: -8.0e-4

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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European (Finnish)
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allele count: 0
allele frequency: 0.0e0
allele num: 6450
num of homozygotes: 0

East Asian
type: Population
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allele frequency: 1.161170459823502e-4
allele num: 8612
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Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 890
num of homozygotes: 0

European (Non-Finnish)
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allele count: 4
allele frequency: 6.049423792383776e-5
allele num: 66122
num of homozygotes: 0

South Asian
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allele frequency: 0.0e0
allele num: 16412
num of homozygotes: 0

Latino
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allele frequency: 8.724480893386844e-5
allele num: 11462
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African
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VQSLOD
type: SiteQuality
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InbreedingCoeff
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MQ
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MQRankSum
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FS
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DP
type: SiteQuality
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ReadPosRankSum
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ClippingRankSum
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BaseQRankSum
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QD
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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African
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East Asian
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Other
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Latino
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South Asian
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European (Non-Finnish)
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allele frequency: 1.511990081345066e-5
allele num: 66138
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European (Finnish)
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ReadPosRankSum
type: SiteQuality
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BaseQRankSum
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QD
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InbreedingCoeff
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FS
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VQSLOD
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MQRankSum
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DP
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ClippingRankSum
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MQ
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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South Asian
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allele count: 1
allele frequency: 6.09979260705136e-5
allele num: 16394
num of homozygotes: 0

Latino
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Other
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European (Non-Finnish)
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European (Finnish)
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East Asian
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African
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FS
type: SiteQuality
SIO_000300: 3.617e0

DP
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MQRankSum
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VQSLOD
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MQ
type: SiteQuality
SIO_000300: 5.797e1

ReadPosRankSum
type: SiteQuality
SIO_000300: -1.147e0

BaseQRankSum
type: SiteQuality
SIO_000300: -2.264e0

ClippingRankSum
type: SiteQuality
SIO_000300: 1.33e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.0e-3

QD
type: SiteQuality
SIO_000300: 9.5e0

GenotypeQuality
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bin: 7.25e1
variant carriers: 0

GenotypeQuality
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bin: 5.25e1
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GenotypeQuality
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bin: 2.75e1
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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bin: 8.25e1
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GenotypeQuality
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bin: 1.25e1
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GenotypeQuality
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bin: 1.75e1
variant carriers: 0

GenotypeQuality
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bin: 4.75e1
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GenotypeQuality
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bin: 3.25e1
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GenotypeQuality
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GenotypeQuality
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bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 6447
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 1486
bin: 9.25e1
variant carriers: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 892
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11424
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10286
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8602
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 65984
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 6.104260774020266e-5
allele num: 16382
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6424
num of homozygotes: 0

DP
type: SiteQuality
SIO_000300: 1.723541e6

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.0e-3

BaseQRankSum
type: SiteQuality
SIO_000300: -7.34e-1

MQRankSum
type: SiteQuality
SIO_000300: 3.51e-1

MQ
type: SiteQuality
SIO_000300: 5.951e1

VQSLOD
type: SiteQuality
SIO_000300: -7.747000000000001e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: -2.118e0

FS
type: SiteQuality
SIO_000300: 0.0e0

ClippingRankSum
type: SiteQuality
SIO_000300: 2.18e0

QD
type: SiteQuality
SIO_000300: 1.28e1

GenotypeQuality
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bin: 2.5e0
variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 4

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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bin: 2.25e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10220
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11380
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 884
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16312
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 4
allele frequency: 6.088650754992694e-5
allele num: 65696
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6386
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8558
num of homozygotes: 0

ReadPosRankSum
type: SiteQuality
SIO_000300: 3.4e-1

VQSLOD
type: SiteQuality
SIO_000300: 1.65e0

FS
type: SiteQuality
SIO_000300: 4.712e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

ClippingRankSum
type: SiteQuality
SIO_000300: -3.53e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.2e-3

MQRankSum
type: SiteQuality
SIO_000300: 2.58e-1

QD
type: SiteQuality
SIO_000300: 1.518e1

DP
type: SiteQuality
SIO_000300: 1.733832e6

BaseQRankSum
type: SiteQuality
SIO_000300: -1.413e0

GenotypeQuality
all individuals: 3311
bin: 3.25e1
variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 5

GenotypeQuality
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variant carriers: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16322
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8574
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10224
num of homozygotes: 0

Latino
type: Population
allele count: 5
allele frequency: 4.392901071867861e-4
allele num: 11382
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 888
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6388
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 65688
num of homozygotes: 0

FS
type: SiteQuality
SIO_000300: 0.0e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.6e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -4.4e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 1.6e-1

VQSLOD
type: SiteQuality
SIO_000300: -6.889999999999999e-1

MQRankSum
type: SiteQuality
SIO_000300: -2.89e-1

MQ
type: SiteQuality
SIO_000300: 5.922e1

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.3e-3

QD
type: SiteQuality
SIO_000300: 1.873e1

DP
type: SiteQuality
SIO_000300: 1.733777e6

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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variant carriers: 1

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
all individuals: 245
bin: 3.25e1
variant carriers: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 398
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 196
num of homozygotes: 0

African
type: Population
allele count: 5
allele frequency: 1.812907904278463e-3
allele num: 2758
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7396
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.172882946281961e-4
allele num: 8526
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 42
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 778
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 6.0e1

BaseQRankSum
type: SiteQuality
SIO_000300: -9.72e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.26e-2

FS
type: SiteQuality
SIO_000300: 5.9e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 3.99e-1

DP
type: SiteQuality
SIO_000300: 3.56442e5

MQRankSum
type: SiteQuality
SIO_000300: -4.2e-2

VQSLOD
type: SiteQuality
SIO_000300: 3.09e0

QD
type: SiteQuality
SIO_000300: 1.254e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 3.4e-1

GenotypeQuality
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bin: 2.75e1
variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 63
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GenotypeQuality
all individuals: 396
bin: 7.25e1
variant carriers: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 196
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 2758
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 398
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8526
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 778
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 42
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7396
num of homozygotes: 0

BaseQRankSum
type: SiteQuality
SIO_000300: -9.72e-1

FS
type: SiteQuality
SIO_000300: 5.9e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 3.99e-1

QD
type: SiteQuality
SIO_000300: 1.254e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 3.4e-1

DP
type: SiteQuality
SIO_000300: 3.56442e5

MQ
type: SiteQuality
SIO_000300: 6.0e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.26e-2

MQRankSum
type: SiteQuality
SIO_000300: -4.2e-2

VQSLOD
type: SiteQuality
SIO_000300: 3.09e0

GenotypeQuality
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bin: 2.5e0
variant carriers: 0

GenotypeQuality
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bin: 4.75e1
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 2491
bin: 9.75e1
variant carriers: 7

GenotypeQuality
all individuals: 245
bin: 9.25e1
variant carriers: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 196
num of homozygotes: 0

African
type: Population
allele count: 7
allele frequency: 2.525252525252525e-3
allele num: 2772
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8684
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 784
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 404
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 42
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7838
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: 1.07e0

QD
type: SiteQuality
SIO_000300: 1.421e1

BaseQRankSum
type: SiteQuality
SIO_000300: -1.23e0

FS
type: SiteQuality
SIO_000300: 1.12e0

DP
type: SiteQuality
SIO_000300: 3.68846e5

MQ
type: SiteQuality
SIO_000300: 5.961e1

ClippingRankSum
type: SiteQuality
SIO_000300: 9.5e-2

VQSLOD
type: SiteQuality
SIO_000300: 1.29e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -2.18e-2

ReadPosRankSum
type: SiteQuality
SIO_000300: 4.29e-1

GenotypeQuality
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bin: 5.75e1
variant carriers: 55

GenotypeQuality
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bin: 7.5e0
variant carriers: 350

GenotypeQuality
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bin: 8.25e1
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GenotypeQuality
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variant carriers: 49

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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bin: 1.75e1
variant carriers: 192

GenotypeQuality
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variant carriers: 180

GenotypeQuality
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variant carriers: 8378

GenotypeQuality
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GenotypeQuality
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variant carriers: 101

GenotypeQuality
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variant carriers: 67

GenotypeQuality
all individuals: 191
bin: 1.25e1
variant carriers: 190

South Asian
type: Population
allele count: 6094
allele frequency: 7.70417193426043e-1
allele num: 7910
num of homozygotes: 2381

East Asian
type: Population
allele count: 359
allele frequency: 4.4875e-1
allele num: 800
num of homozygotes: 91

European (Non-Finnish)
type: Population
allele count: 6260
allele frequency: 7.070250734131466e-1
allele num: 8854
num of homozygotes: 2200

African
type: Population
allele count: 1559
allele frequency: 5.540156361051883e-1
allele num: 2814
num of homozygotes: 428

Latino
type: Population
allele count: 242
allele frequency: 5.960591133004927e-1
allele num: 406
num of homozygotes: 83

European (Finnish)
type: Population
allele count: 43
allele frequency: 7.413793103448276e-1
allele num: 58
num of homozygotes: 15

Other
type: Population
allele count: 133
allele frequency: 6.785714285714286e-1
allele num: 196
num of homozygotes: 43

QD
type: SiteQuality
SIO_000300: 2.424e1

DP
type: SiteQuality
SIO_000300: 6.97952e5

BaseQRankSum
type: SiteQuality
SIO_000300: 2.4e0

MQ
type: SiteQuality
SIO_000300: 5.959e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 4.43e-1

MQRankSum
type: SiteQuality
SIO_000300: 1.55e-1

FS
type: SiteQuality
SIO_000300: 5.2e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.426e-1

VQSLOD
type: SiteQuality
SIO_000300: 6.85e0

ClippingRankSum
type: SiteQuality
SIO_000300: -3.23e-1

GenotypeQuality
all individuals: 410
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GenotypeQuality
all individuals: 220
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 72
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GenotypeQuality
all individuals: 2250
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 369
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GenotypeQuality
all individuals: 79
bin: 4.25e1
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GenotypeQuality
all individuals: 2377
bin: 9.75e1
variant carriers: 1

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 768
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 392
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7736
num of homozygotes: 0

African
type: Population
allele count: 1
allele frequency: 3.684598378776713e-4
allele num: 2714
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 36
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8460
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 190
num of homozygotes: 0

ClippingRankSum
type: SiteQuality
SIO_000300: -1.288e0

DP
type: SiteQuality
SIO_000300: 3.73434e5

BaseQRankSum
type: SiteQuality
SIO_000300: 1.15e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.05e0

MQRankSum
type: SiteQuality
SIO_000300: -3.4e-2

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.82e-2

VQSLOD
type: SiteQuality
SIO_000300: 1.23e0

QD
type: SiteQuality
SIO_000300: 1.622e1

FS
type: SiteQuality
SIO_000300: 1.247e0

MQ
type: SiteQuality
SIO_000300: 5.991e1

GenotypeQuality
all individuals: 2985
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 62
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GenotypeQuality
all individuals: 148
bin: 4.75e1
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GenotypeQuality
all individuals: 84
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GenotypeQuality
all individuals: 650
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GenotypeQuality
all individuals: 103
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GenotypeQuality
all individuals: 281
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GenotypeQuality
all individuals: 2112
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GenotypeQuality
all individuals: 575
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variant carriers: 0

GenotypeQuality
all individuals: 166
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 107
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2372
bin: 9.75e1
variant carriers: 11

GenotypeQuality
all individuals: 245
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 529
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 49
bin: 1.75e1
variant carriers: 0

African
type: Population
allele count: 11
allele frequency: 4.065040650406504e-3
allele num: 2706
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8370
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 764
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 390
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 190
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 32
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7678
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: 2.56e0

ClippingRankSum
type: SiteQuality
SIO_000300: -1.4e-2

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.76e-2

MQ
type: SiteQuality
SIO_000300: 6.0e1

DP
type: SiteQuality
SIO_000300: 3.56937e5

FS
type: SiteQuality
SIO_000300: 1.543e0

BaseQRankSum
type: SiteQuality
SIO_000300: -1.231e0

ReadPosRankSum
type: SiteQuality
SIO_000300: -3.5e-2

MQRankSum
type: SiteQuality
SIO_000300: 3.58e-1

QD
type: SiteQuality
SIO_000300: 1.251e1

GenotypeQuality
all individuals: 1145
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 159
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2363
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 811
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 855
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 704
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1936
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 622
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 607
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 227
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 96
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 105
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2279
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 331
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 83
bin: 1.75e1
variant carriers: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 382
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 190
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.207146306132303e-4
allele num: 8284
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 758
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 2694
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 30
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7596
num of homozygotes: 0

QD
type: SiteQuality
SIO_000300: 1.526e1

ReadPosRankSum
type: SiteQuality
SIO_000300: -7.53e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

VQSLOD
type: SiteQuality
SIO_000300: -1.973e0

ClippingRankSum
type: SiteQuality
SIO_000300: -9.29e-1

MQRankSum
type: SiteQuality
SIO_000300: 2.09e0

FS
type: SiteQuality
SIO_000300: 0.0e0

DP
type: SiteQuality
SIO_000300: 3.45212e5

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.78e-2

BaseQRankSum
type: SiteQuality
SIO_000300: -1.803e0

GenotypeQuality
all individuals: 90
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 190
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 159
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 605
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2072
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 833
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 617
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 385
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1143
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2363
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 758
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 95
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 224
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 105
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 272
bin: 7.75e1
variant carriers: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 190
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 382
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 30
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 2694
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 754
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8264
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 1.321702352630188e-4
allele num: 7566
num of homozygotes: 0

ReadPosRankSum
type: SiteQuality
SIO_000300: 8.92e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -4.0e-1

MQRankSum
type: SiteQuality
SIO_000300: 5.23e-1

VQSLOD
type: SiteQuality
SIO_000300: -4.986e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.82e-2

DP
type: SiteQuality
SIO_000300: 3.43122e5

FS
type: SiteQuality
SIO_000300: 0.0e0

QD
type: SiteQuality
SIO_000300: 1.17e1

MQ
type: SiteQuality
SIO_000300: 5.875e1

ClippingRankSum
type: SiteQuality
SIO_000300: -4.67e-1

GenotypeQuality
all individuals: 230
bin: 7.25e1
variant carriers: 1

GenotypeQuality
all individuals: 322
bin: 4.25e1
variant carriers: 3

GenotypeQuality
all individuals: 2659
bin: 9.75e1
variant carriers: 408

GenotypeQuality
all individuals: 1798
bin: 6.25e1
variant carriers: 3

GenotypeQuality
all individuals: 613
bin: 2.75e1
variant carriers: 1

GenotypeQuality
all individuals: 1115
bin: 2.25e1
variant carriers: 3

GenotypeQuality
all individuals: 199
bin: 5.25e1
variant carriers: 1

GenotypeQuality
all individuals: 80
bin: 5.75e1
variant carriers: 3

GenotypeQuality
all individuals: 767
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 828
bin: 3.25e1
variant carriers: 1

GenotypeQuality
all individuals: 549
bin: 6.75e1
variant carriers: 2

GenotypeQuality
all individuals: 995
bin: 2.5e0
variant carriers: 1

GenotypeQuality
all individuals: 452
bin: 4.75e1
variant carriers: 2

GenotypeQuality
all individuals: 153
bin: 9.25e1
variant carriers: 2

GenotypeQuality
all individuals: 215
bin: 8.25e1
variant carriers: 7

Latino
type: Population
allele count: 10
allele frequency: 2.631578947368421e-2
allele num: 380
num of homozygotes: 0

Other
type: Population
allele count: 3
allele frequency: 1.578947368421053e-2
allele num: 190
num of homozygotes: 0

East Asian
type: Population
allele count: 9
allele frequency: 1.2e-2
allele num: 750
num of homozygotes: 0

South Asian
type: Population
allele count: 138
allele frequency: 1.825396825396826e-2
allele num: 7560
num of homozygotes: 2

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 30
num of homozygotes: 0

African
type: Population
allele count: 13
allele frequency: 4.836309523809524e-3
allele num: 2688
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 261
allele frequency: 3.162103222679913e-2
allele num: 8254
num of homozygotes: 3

VQSLOD
type: SiteQuality
SIO_000300: 4.37e0

MQRankSum
type: SiteQuality
SIO_000300: 3.58e-1

FS
type: SiteQuality
SIO_000300: 0.0e0

ClippingRankSum
type: SiteQuality
SIO_000300: 4.1e-2

QD
type: SiteQuality
SIO_000300: 1.251e1

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.4e-2

MQ
type: SiteQuality
SIO_000300: 6.0e1

BaseQRankSum
type: SiteQuality
SIO_000300: -2.02e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 2.12e-1

DP
type: SiteQuality
SIO_000300: 3.40986e5

GenotypeQuality
all individuals: 632
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2356
bin: 9.75e1
variant carriers: 3

GenotypeQuality
all individuals: 1134
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 726
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 213
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 413
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 158
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 486
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 146
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 202
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 539
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 212
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 270
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 912
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 107
bin: 8.75e1
variant carriers: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 378
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 746
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 30
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8154
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 186
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 2670
num of homozygotes: 0

South Asian
type: Population
allele count: 3
allele frequency: 4.001066951186983e-4
allele num: 7498
num of homozygotes: 0

ClippingRankSum
type: SiteQuality
SIO_000300: -9.55e-1

QD
type: SiteQuality
SIO_000300: 1.803e1

DP
type: SiteQuality
SIO_000300: 3.36403e5

InbreedingCoeff
type: SiteQuality
SIO_000300: -2.44e-2

BaseQRankSum
type: SiteQuality
SIO_000300: -3.266e0

MQRankSum
type: SiteQuality
SIO_000300: -1.38e0

ReadPosRankSum
type: SiteQuality
SIO_000300: -1.306e0

MQ
type: SiteQuality
SIO_000300: 5.933e1

FS
type: SiteQuality
SIO_000300: 0.0e0

VQSLOD
type: SiteQuality
SIO_000300: -2.574e0

GenotypeQuality
all individuals: 5
bin: 4.25e1
variant carriers: 5

GenotypeQuality
all individuals: 14
bin: 8.75e1
variant carriers: 14

GenotypeQuality
all individuals: 173
bin: 1.75e1
variant carriers: 170

GenotypeQuality
all individuals: 17
bin: 5.25e1
variant carriers: 17

GenotypeQuality
all individuals: 15
bin: 4.75e1
variant carriers: 15

GenotypeQuality
all individuals: 15
bin: 5.75e1
variant carriers: 15

GenotypeQuality
all individuals: 189
bin: 1.25e1
variant carriers: 180

GenotypeQuality
all individuals: 7
bin: 8.25e1
variant carriers: 7

GenotypeQuality
all individuals: 6
bin: 7.75e1
variant carriers: 6

GenotypeQuality
all individuals: 17
bin: 6.25e1
variant carriers: 17

GenotypeQuality
all individuals: 1105
bin: 7.5e0
variant carriers: 398

GenotypeQuality
all individuals: 2
bin: 7.25e1
variant carriers: 2

GenotypeQuality
all individuals: 8
bin: 9.25e1
variant carriers: 8

GenotypeQuality
all individuals: 44
bin: 2.75e1
variant carriers: 44

GenotypeQuality
all individuals: 124
bin: 2.25e1
variant carriers: 106

East Asian
type: Population
allele count: 3
allele frequency: 7.5e-1
allele num: 4
num of homozygotes: 1

European (Finnish)
type: Population
allele count: 5
allele frequency: 6.25e-1
allele num: 8
num of homozygotes: 1

South Asian
type: Population
allele count: 0
allele frequency: NaN
allele num: 0
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: NaN
allele num: 0
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: NaN
allele num: 0
num of homozygotes: 0

African
type: Population
allele count: 4
allele frequency: 5.0e-1
allele num: 8
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 39
allele frequency: 7.5e-1
allele num: 52
num of homozygotes: 13

QD
type: SiteQuality
SIO_000300: 2.679e1

BaseQRankSum
type: SiteQuality
SIO_000300: 7.2e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 4.483e-1

MQRankSum
type: SiteQuality
SIO_000300: 5.97e-1

VQSLOD
type: SiteQuality
SIO_000300: 2.585e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 7.2e-1

FS
type: SiteQuality
SIO_000300: 1.109e0

DP
type: SiteQuality
SIO_000300: 1.1519e4

ClippingRankSum
type: SiteQuality
SIO_000300: 6.840000000000001e-1