20-41306599-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306599
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306599
    reference: chr 20
allele count: 3
allele frequency: 2.484142887898912e-5
allele num: 120766
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.1060G>A
  hgvsp: ENSP00000362280.1:p.Val354Ile
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.1060G>A
  hgvsp: ENSP00000362289.3:p.Val354Ile
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.1060G>A
  hgvsp: ENSP00000362294.4:p.Val354Ile
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.1060G>A
  hgvsp: ENSP00000362286.1:p.Val354Ile
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.1060G>A
  hgvsp: ENSP00000362297.1:p.Val354Ile
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.1060G>A
  hgvsp: ENSP00000362283.1:p.Val354Ile
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.1060G>A
  hgvsp: ENSP00000348408.2:p.Val354Ile
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 2774
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2550
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1678
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1448
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 58
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5544
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2082
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1954
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14543
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7000
  bin: 9.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 7102
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2594
  bin: 8.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2994
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2786
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1274
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1665
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2390
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 54
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 915
  bin: 8.75e1
  variant carriers: 0
hgvs: p.Val354Ile
num of homozygotes: 0
population: European (Non-Finnish)
population: Latino
population: African
population: European (Finnish)
population: East Asian
population: Other
population: South Asian
reference allele: C
site quality: MQ
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: FS
site quality: MQRankSum
site quality: QD
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: DP
site quality: ClippingRankSum

20-41306600-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306600
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306600
    reference: chr 20
allele count: 45691
allele frequency: 3.784748682946225e-1
allele num: 120724
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.1059T>C
  hgvsp: ENST00000373198.4:c.1059T>C(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.1059T>C
  hgvsp: ENST00000373201.1:c.1059T>C(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.1059T>C
  hgvsp: ENST00000356100.2:c.1059T>C(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.1059T>C
  hgvsp: ENST00000373193.3:c.1059T>C(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.1059T>C
  hgvsp: ENST00000373184.1:c.1059T>C(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.1059T>C
  hgvsp: ENST00000373190.1:c.1059T>C(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.1059T>C
  hgvsp: ENST00000373187.1:c.1059T>C(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 263
  bin: 6.25e1
  variant carriers: 242
genotype depth: GenotypeDepth
  all individuals: 32387
  bin: 9.75e1
  variant carriers: 32356
genotype depth: GenotypeDepth
  all individuals: 744
  bin: 8.75e1
  variant carriers: 742
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 623
  bin: 8.25e1
  variant carriers: 617
genotype depth: GenotypeDepth
  all individuals: 12943
  bin: 2.75e1
  variant carriers: 20
genotype depth: GenotypeDepth
  all individuals: 4216
  bin: 3.25e1
  variant carriers: 32
genotype depth: GenotypeDepth
  all individuals: 696
  bin: 3.75e1
  variant carriers: 70
genotype depth: GenotypeDepth
  all individuals: 302
  bin: 4.25e1
  variant carriers: 101
genotype depth: GenotypeDepth
  all individuals: 5354
  bin: 2.25e1
  variant carriers: 10
genotype depth: GenotypeDepth
  all individuals: 40
  bin: 2.5e0
  variant carriers: 8
genotype depth: GenotypeDepth
  all individuals: 208
  bin: 5.25e1
  variant carriers: 167
genotype depth: GenotypeDepth
  all individuals: 933
  bin: 9.25e1
  variant carriers: 929
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 1.25e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 424
  bin: 7.25e1
  variant carriers: 415
genotype depth: GenotypeDepth
  all individuals: 232
  bin: 4.75e1
  variant carriers: 133
genotype depth: GenotypeDepth
  all individuals: 229
  bin: 5.75e1
  variant carriers: 203
genotype depth: GenotypeDepth
  all individuals: 310
  bin: 6.75e1
  variant carriers: 300
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.5e0
  variant carriers: 6
genotype depth: GenotypeDepth
  all individuals: 515
  bin: 7.75e1
  variant carriers: 509
genotype quality: GenotypeQuality
  all individuals: 28
  bin: 7.5e0
  variant carriers: 7
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 1.25e1
  variant carriers: 2
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 3.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 5.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 5
  bin: 1.75e1
  variant carriers: 2
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 2.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 32
  bin: 2.5e0
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 4
  bin: 3.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 6
  bin: 2.25e1
  variant carriers: 2
hgvs: p.Asp353Asp
num of homozygotes: 8843
population: European (Finnish)
population: African
population: Other
population: East Asian
population: South Asian
population: Latino
population: European (Non-Finnish)
reference allele: A
site quality: BaseQRankSum
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: FS
site quality: ClippingRankSum
site quality: VQSLOD
site quality: DP
site quality: QD
site quality: MQ

20-41306603-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306603
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306603
    reference: chr 20
allele count: 23
allele frequency: 1.904509547389166e-4
allele num: 120766
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.1056C>T
  hgvsp: ENST00000373198.4:c.1056C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.1056C>T
  hgvsp: ENST00000356100.2:c.1056C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.1056C>T
  hgvsp: ENST00000373184.1:c.1056C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.1056C>T
  hgvsp: ENST00000373187.1:c.1056C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.1056C>T
  hgvsp: ENST00000373201.1:c.1056C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.1056C>T
  hgvsp: ENST00000373193.3:c.1056C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.1056C>T
  hgvsp: ENST00000373190.1:c.1056C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 11272
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 6.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1739
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 33561
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 67
  bin: 5.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 121
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 49
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 130
  bin: 9.75e1
  variant carriers: 19
genotype depth: GenotypeDepth
  all individuals: 591
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12491
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 66
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 278
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 9.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 63
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1128
  bin: 9.75e1
  variant carriers: 23
genotype quality: GenotypeQuality
  all individuals: 358
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 365
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 44920
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8237
  bin: 6.75e1
  variant carriers: 0
hgvs: p.Pro352Pro
num of homozygotes: 0
population: European (Non-Finnish)
population: South Asian
population: East Asian
population: European (Finnish)
population: African
population: Latino
population: Other
reference allele: G
site quality: MQRankSum
site quality: ClippingRankSum
site quality: MQ
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: FS
site quality: BaseQRankSum
site quality: DP
site quality: QD
site quality: ReadPosRankSum

20-41306621-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306621
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306621
    reference: chr 20
allele count: 8
allele frequency: 6.624271330153684e-5
allele num: 120768
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.1038G>A
  hgvsp: ENST00000373184.1:c.1038G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.1038G>A
  hgvsp: ENST00000373201.1:c.1038G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.1038G>A
  hgvsp: ENST00000373187.1:c.1038G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.1038G>A
  hgvsp: ENST00000373193.3:c.1038G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.1038G>A
  hgvsp: ENST00000373190.1:c.1038G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.1038G>A
  hgvsp: ENST00000356100.2:c.1038G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.1038G>A
  hgvsp: ENST00000373198.4:c.1038G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 74
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 113
  bin: 9.75e1
  variant carriers: 8
genotype depth: GenotypeDepth
  all individuals: 11278
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 49
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 64
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 33577
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1737
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 592
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12499
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 120
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1100
  bin: 9.75e1
  variant carriers: 8
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 44941
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 367
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 3.25e1
  variant carriers: 0
hgvs: p.Lys346Lys
num of homozygotes: 0
population: Latino
population: East Asian
population: European (Non-Finnish)
population: Other
population: African
population: South Asian
population: European (Finnish)
reference allele: C
site quality: MQ
site quality: VQSLOD
site quality: FS
site quality: ClippingRankSum
site quality: QD
site quality: DP
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: BaseQRankSum

20-41306627-G-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306627
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306627
    reference: chr 20
allele count: 68
allele frequency: 5.630537385112197e-4
allele num: 120770
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.1032C>A
  hgvsp: ENSP00000362289.3:p.Asn344Lys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.1032C>A
  hgvsp: ENSP00000362297.1:p.Asn344Lys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.1032C>A
  hgvsp: ENSP00000362280.1:p.Asn344Lys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.1032C>A
  hgvsp: ENSP00000348408.2:p.Asn344Lys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.1032C>A
  hgvsp: ENSP00000362294.4:p.Asn344Lys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.1032C>A
  hgvsp: ENSP00000362283.1:p.Asn344Lys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.1032C>A
  hgvsp: ENSP00000362286.1:p.Asn344Lys
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 82
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 21
  bin: 6.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 33583
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 121
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1736
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 592
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 14
  bin: 7.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 12499
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11280
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 19
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 63
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 106
  bin: 9.75e1
  variant carriers: 63
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 48
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 74
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 44949
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2081
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 2.75e1
  variant carriers: 0
hgvs: p.Asn344Lys
num of homozygotes: 0
population: European (Non-Finnish)
population: European (Finnish)
population: Latino
population: African
population: East Asian
population: Other
population: South Asian
reference allele: G
site quality: ReadPosRankSum
site quality: MQ
site quality: ClippingRankSum
site quality: VQSLOD
site quality: QD
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: DP
site quality: FS
site quality: BaseQRankSum

20-41306630-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306630
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306630
    reference: chr 20
allele count: 1
allele frequency: 8.280202036929701e-6
allele num: 120770
alternate allele: A
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.1029C>T
  hgvsp: ENST00000373187.1:c.1029C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.1029C>T
  hgvsp: ENST00000373201.1:c.1029C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.1029C>T
  hgvsp: ENST00000373190.1:c.1029C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.1029C>T
  hgvsp: ENST00000373184.1:c.1029C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.1029C>T
  hgvsp: ENST00000373193.3:c.1029C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.1029C>T
  hgvsp: ENST00000373198.4:c.1029C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.1029C>T
  hgvsp: ENST00000356100.2:c.1029C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 12512
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11298
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 33615
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 119
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 64
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 43
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 83
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 48
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1737
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 593
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 9
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 45007
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 75
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 2.75e1
  variant carriers: 0
hgvs: p.Pro343Pro
num of homozygotes: 0
population: Other
population: European (Non-Finnish)
population: Latino
population: European (Finnish)
population: East Asian
population: African
population: South Asian
reference allele: G
site quality: BaseQRankSum
site quality: VQSLOD
site quality: DP
site quality: QD
site quality: FS
site quality: ClippingRankSum
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: MQ

20-41306635-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306635
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306635
    reference: chr 20
allele count: 1
allele frequency: 8.280202036929701e-6
allele num: 120770
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.1024T>C
  hgvsp: ENSP00000362289.3:p.Ser342Pro
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.1024T>C
  hgvsp: ENSP00000348408.2:p.Ser342Pro
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.1024T>C
  hgvsp: ENSP00000362286.1:p.Ser342Pro
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.1024T>C
  hgvsp: ENSP00000362280.1:p.Ser342Pro
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.1024T>C
  hgvsp: ENSP00000362294.4:p.Ser342Pro
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.1024T>C
  hgvsp: ENSP00000362297.1:p.Ser342Pro
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.1024T>C
  hgvsp: ENSP00000362283.1:p.Ser342Pro
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 19
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 85
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 46
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 42
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 118
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1739
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12512
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 593
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 63
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11299
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 33617
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1019
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 11
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 78
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 5.25e1
  variant carriers: 0
hgvs: p.Ser342Pro
num of homozygotes: 0
population: South Asian
population: European (Non-Finnish)
population: European (Finnish)
population: Latino
population: Other
population: East Asian
population: African
reference allele: A
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: MQ
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: FS
site quality: VQSLOD
site quality: ClippingRankSum
site quality: QD
site quality: DP

http://identifiers.org/exac.variant/20-41306638-C-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306638
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306638
    reference: chr 20
allele count: 1
allele frequency: 8.280202036929701e-6
allele num: 120770
alternate allele: A
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.1021G>T
  hgvsp: ENSP00000362283.1:p.Asp341Tyr
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.1021G>T
  hgvsp: ENSP00000362289.3:p.Asp341Tyr
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.1021G>T
  hgvsp: ENSP00000362286.1:p.Asp341Tyr
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.1021G>T
  hgvsp: ENSP00000348408.2:p.Asp341Tyr
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.1021G>T
  hgvsp: ENSP00000362280.1:p.Asp341Tyr
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.1021G>T
  hgvsp: ENSP00000362294.4:p.Asp341Tyr
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.1021G>T
  hgvsp: ENSP00000362297.1:p.Asp341Tyr
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 281
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12514
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 33617
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 85
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1739
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 593
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11297
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 118
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 63
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 41
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 46
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2083
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 358
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1067
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 367
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8251
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 45008
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 12
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 5.75e1
  variant carriers: 0
hgvs: p.Asp341Tyr
num of homozygotes: 0
population: European (Finnish)
population: European (Non-Finnish)
population: East Asian
population: South Asian
population: Other
population: Latino
population: African
reference allele: C
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: DP
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: MQ
site quality: BaseQRankSum
site quality: VQSLOD
site quality: FS
site quality: QD

20-41306639-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306639
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306639
    reference: chr 20
allele count: 3
allele frequency: 2.48406061107891e-5
allele num: 120770
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.1020C>T
  hgvsp: ENST00000373193.3:c.1020C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.1020C>T
  hgvsp: ENST00000373184.1:c.1020C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.1020C>T
  hgvsp: ENST00000373201.1:c.1020C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.1020C>T
  hgvsp: ENST00000356100.2:c.1020C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.1020C>T
  hgvsp: ENST00000373187.1:c.1020C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.1020C>T
  hgvsp: ENST00000373198.4:c.1020C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.1020C>T
  hgvsp: ENST00000373190.1:c.1020C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 11298
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 46
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 33618
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 594
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 117
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12513
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 88
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 63
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 15
  bin: 7.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 40
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1739
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2226
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8251
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 80
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1018
  bin: 9.75e1
  variant carriers: 3
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 1.25e1
  variant carriers: 0
hgvs: p.Val340Val
num of homozygotes: 0
population: East Asian
population: Other
population: European (Non-Finnish)
population: Latino
population: African
population: South Asian
population: European (Finnish)
reference allele: G
site quality: BaseQRankSum
site quality: MQ
site quality: VQSLOD
site quality: DP
site quality: MQRankSum
site quality: FS
site quality: ReadPosRankSum
site quality: ClippingRankSum
site quality: QD
site quality: InbreedingCoeff

20-41306640-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306640
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306640
    reference: chr 20
allele count: 3
allele frequency: 2.48406061107891e-5
allele num: 120770
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.1019T>C
  hgvsp: ENSP00000362294.4:p.Val340Ala
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.1019T>C
  hgvsp: ENSP00000362289.3:p.Val340Ala
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.1019T>C
  hgvsp: ENSP00000362283.1:p.Val340Ala
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.1019T>C
  hgvsp: ENSP00000362297.1:p.Val340Ala
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.1019T>C
  hgvsp: ENSP00000362286.1:p.Val340Ala
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.1019T>C
  hgvsp: ENSP00000362280.1:p.Val340Ala
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.1019T>C
  hgvsp: ENSP00000348408.2:p.Val340Ala
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12514
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 594
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1739
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 89
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 63
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 117
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 33619
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11299
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 46
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 39
  bin: 9.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1014
  bin: 9.75e1
  variant carriers: 3
genotype quality: GenotypeQuality
  all individuals: 2227
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 45010
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2084
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 4.25e1
  variant carriers: 0
hgvs: p.Val340Ala
num of homozygotes: 0
population: European (Non-Finnish)
population: African
population: South Asian
population: European (Finnish)
population: East Asian
population: Latino
population: Other
reference allele: A
site quality: FS
site quality: ClippingRankSum
site quality: ReadPosRankSum
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: MQ
site quality: MQRankSum
site quality: BaseQRankSum
site quality: QD
site quality: DP

20-41306643-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306643
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306643
    reference: chr 20
allele count: 20
allele frequency: 1.656012983141788e-4
allele num: 120772
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.1016T>C
  hgvsp: ENSP00000362297.1:p.Ile339Thr
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.1016T>C
  hgvsp: ENSP00000348408.2:p.Ile339Thr
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.1016T>C
  hgvsp: ENSP00000362294.4:p.Ile339Thr
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.1016T>C
  hgvsp: ENSP00000362289.3:p.Ile339Thr
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.1016T>C
  hgvsp: ENSP00000362286.1:p.Ile339Thr
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.1016T>C
  hgvsp: ENSP00000362280.1:p.Ile339Thr
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.1016T>C
  hgvsp: ENSP00000362283.1:p.Ile339Thr
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 90
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 63
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12514
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11300
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 33621
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 117
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1739
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 46
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 281
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 37
  bin: 9.75e1
  variant carriers: 18
genotype depth: GenotypeDepth
  all individuals: 13
  bin: 7.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 593
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 45013
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 13
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 82
  bin: 7.5e0
  variant carriers: 0
hgvs: p.Ile339Thr
num of homozygotes: 0
population: European (Finnish)
population: European (Non-Finnish)
population: Other
population: South Asian
population: African
population: East Asian
population: Latino
reference allele: A
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: MQ
site quality: DP
site quality: MQRankSum
site quality: FS
site quality: QD

http://identifiers.org/exac.variant/20-41306656-C-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306656
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306656
    reference: chr 20
allele count: 8
allele frequency: 6.624271330153684e-5
allele num: 120768
alternate allele: A
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.1003G>T
  hgvsp: ENSP00000362283.1:p.Ala335Ser
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.1003G>T
  hgvsp: ENSP00000348408.2:p.Ala335Ser
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.1003G>T
  hgvsp: ENSP00000362294.4:p.Ala335Ser
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.1003G>T
  hgvsp: ENSP00000362289.3:p.Ala335Ser
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.1003G>T
  hgvsp: ENSP00000362297.1:p.Ala335Ser
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.1003G>T
  hgvsp: ENSP00000362280.1:p.Ala335Ser
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.1003G>T
  hgvsp: ENSP00000362286.1:p.Ala335Ser
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 12521
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19
  bin: 9.75e1
  variant carriers: 6
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 46
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 63
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 593
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 33629
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11304
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 117
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 99
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 281
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1740
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 13
  bin: 7.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1067
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8254
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 85
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 14
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2228
  bin: 7.75e1
  variant carriers: 0
hgvs: p.Ala335Ser
num of homozygotes: 0
population: European (Non-Finnish)
population: East Asian
population: Other
population: African
population: South Asian
population: Latino
population: European (Finnish)
reference allele: C
site quality: DP
site quality: MQ
site quality: FS
site quality: QD
site quality: ClippingRankSum
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: VQSLOD
site quality: MQRankSum
site quality: InbreedingCoeff

http://identifiers.org/exac.variant/20-41306659-A-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306659
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306659
    reference: chr 20
allele count: 1
allele frequency: 8.280202036929701e-6
allele num: 120770
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.1000T>G
  hgvsp: ENSP00000362286.1:p.Trp334Gly
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.1000T>G
  hgvsp: ENSP00000362289.3:p.Trp334Gly
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.1000T>G
  hgvsp: ENSP00000348408.2:p.Trp334Gly
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.1000T>G
  hgvsp: ENSP00000362294.4:p.Trp334Gly
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.1000T>G
  hgvsp: ENSP00000362283.1:p.Trp334Gly
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.1000T>G
  hgvsp: ENSP00000362280.1:p.Trp334Gly
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.1000T>G
  hgvsp: ENSP00000362297.1:p.Trp334Gly
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 117
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 33633
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 46
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12525
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1740
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11303
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 593
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 99
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 63
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 281
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 983
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 45033
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1067
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2228
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 13
  bin: 2.5e0
  variant carriers: 0
hgvs: p.Trp334Gly
num of homozygotes: 0
population: Latino
population: Other
population: South Asian
population: European (Finnish)
population: African
population: East Asian
population: European (Non-Finnish)
reference allele: A
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: ClippingRankSum
site quality: BaseQRankSum
site quality: MQRankSum
site quality: MQ
site quality: FS
site quality: QD
site quality: VQSLOD
site quality: DP

20-41306661-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306661
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306661
    reference: chr 20
allele count: 2
allele frequency: 1.65604040738594e-5
allele num: 120770
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.998C>T
  hgvsp: ENSP00000362286.1:p.Thr333Met
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.998C>T
  hgvsp: ENSP00000362297.1:p.Thr333Met
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.998C>T
  hgvsp: ENSP00000362294.4:p.Thr333Met
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.998C>T
  hgvsp: ENSP00000348408.2:p.Thr333Met
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.998C>T
  hgvsp: ENSP00000362280.1:p.Thr333Met
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.998C>T
  hgvsp: ENSP00000362289.3:p.Thr333Met
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.998C>T
  hgvsp: ENSP00000362283.1:p.Thr333Met
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 110
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11302
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 63
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1740
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12523
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 117
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 46
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 593
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13
  bin: 9.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 33635
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 367
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2085
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1067
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 4.75e1
  variant carriers: 0
hgvs: p.Thr333Met
num of homozygotes: 0
population: European (Finnish)
population: European (Non-Finnish)
population: South Asian
population: Other
population: East Asian
population: Latino
population: African
reference allele: G
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: QD
site quality: DP
site quality: MQ
site quality: FS
site quality: VQSLOD
site quality: BaseQRankSum
site quality: MQRankSum
site quality: ClippingRankSum

20-41306672-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306672
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306672
    reference: chr 20
allele count: 1
allele frequency: 8.280202036929701e-6
allele num: 120770
alternate allele: A
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.987C>T
  hgvsp: ENST00000373187.1:c.987C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.987C>T
  hgvsp: ENST00000373190.1:c.987C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.987C>T
  hgvsp: ENST00000373198.4:c.987C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.987C>T
  hgvsp: ENST00000373201.1:c.987C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.987C>T
  hgvsp: ENST00000356100.2:c.987C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.987C>T
  hgvsp: ENST00000373193.3:c.987C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.987C>T
  hgvsp: ENST00000373184.1:c.987C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 113
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 33629
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11303
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 63
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 594
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12524
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 117
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1740
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 46
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2084
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 16
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8255
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2227
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 1.75e1
  variant carriers: 0
hgvs: p.Thr329Thr
num of homozygotes: 0
population: African
population: European (Finnish)
population: European (Non-Finnish)
population: Latino
population: East Asian
population: Other
population: South Asian
reference allele: G
site quality: BaseQRankSum
site quality: DP
site quality: ReadPosRankSum
site quality: QD
site quality: MQRankSum
site quality: FS
site quality: ClippingRankSum
site quality: MQ
site quality: InbreedingCoeff
site quality: VQSLOD

20-41306676-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306676
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306676
    reference: chr 20
allele count: 3
allele frequency: 2.484142887898912e-5
allele num: 120766
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.983G>A
  hgvsp: ENSP00000362294.4:p.Arg328His
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.983G>A
  hgvsp: ENSP00000362286.1:p.Arg328His
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.983G>A
  hgvsp: ENSP00000362289.3:p.Arg328His
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.983G>A
  hgvsp: ENSP00000348408.2:p.Arg328His
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.983G>A
  hgvsp: ENSP00000362283.1:p.Arg328His
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.983G>A
  hgvsp: ENSP00000362297.1:p.Arg328His
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.983G>A
  hgvsp: ENSP00000362280.1:p.Arg328His
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 11299
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 116
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 46
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12525
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 117
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 63
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 33630
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1740
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 594
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13
  bin: 7.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 9.75e1
  variant carriers: 2
genotype quality: GenotypeQuality
  all individuals: 10
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 45028
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8254
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 107
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1067
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 980
  bin: 9.75e1
  variant carriers: 3
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 4.75e1
  variant carriers: 0
hgvs: p.Arg328His
num of homozygotes: 0
population: East Asian
population: European (Finnish)
population: Other
population: European (Non-Finnish)
population: Latino
population: South Asian
population: African
reference allele: C
site quality: ReadPosRankSum
site quality: ClippingRankSum
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: FS
site quality: MQ
site quality: DP
site quality: MQRankSum
site quality: QD
site quality: VQSLOD

20-41306677-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306677
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306677
    reference: chr 20
allele count: 1
allele frequency: 8.280202036929701e-6
allele num: 120770
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.982C>T
  hgvsp: ENSP00000362297.1:p.Arg328Cys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.982C>T
  hgvsp: ENSP00000362289.3:p.Arg328Cys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.982C>T
  hgvsp: ENSP00000362294.4:p.Arg328Cys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.982C>T
  hgvsp: ENSP00000348408.2:p.Arg328Cys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.982C>T
  hgvsp: ENSP00000362286.1:p.Arg328Cys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.982C>T
  hgvsp: ENSP00000362280.1:p.Arg328Cys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.982C>T
  hgvsp: ENSP00000362283.1:p.Arg328Cys
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 12528
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1741
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 33630
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11298
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 117
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 46
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 117
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 63
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 593
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 21
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 977
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 4.25e1
  variant carriers: 0
hgvs: p.Arg328Cys
num of homozygotes: 0
population: European (Non-Finnish)
population: African
population: Other
population: European (Finnish)
population: Latino
population: East Asian
population: South Asian
reference allele: G
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: DP
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: FS
site quality: ClippingRankSum
site quality: VQSLOD
site quality: MQ
site quality: QD

20-41306677-G-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306677
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306677
    reference: chr 20
allele count: 1
allele frequency: 8.280202036929701e-6
allele num: 120770
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.982C>G
  hgvsp: ENSP00000362280.1:p.Arg328Gly
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.982C>G
  hgvsp: ENSP00000362289.3:p.Arg328Gly
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.982C>G
  hgvsp: ENSP00000362297.1:p.Arg328Gly
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.982C>G
  hgvsp: ENSP00000348408.2:p.Arg328Gly
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.982C>G
  hgvsp: ENSP00000362286.1:p.Arg328Gly
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.982C>G
  hgvsp: ENSP00000362283.1:p.Arg328Gly
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.982C>G
  hgvsp: ENSP00000362294.4:p.Arg328Gly
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 117
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 117
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1741
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 593
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12528
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11298
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 46
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 63
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 33630
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 108
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 45031
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 358
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 367
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 3.75e1
  variant carriers: 0
hgvs: p.Arg328Gly
num of homozygotes: 0
population: African
population: Latino
population: East Asian
population: Other
population: South Asian
population: European (Non-Finnish)
population: European (Finnish)
reference allele: G
site quality: QD
site quality: MQRankSum
site quality: BaseQRankSum
site quality: DP
site quality: ReadPosRankSum
site quality: ClippingRankSum
site quality: FS
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: MQ

20-41306695-G-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306695
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306695
    reference: chr 20
allele count: 4
allele frequency: 3.312794010468429e-5
allele num: 120744
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.964C>A
  hgvsp: ENSP00000362286.1:p.Leu322Met
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.964C>A
  hgvsp: ENSP00000348408.2:p.Leu322Met
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.964C>A
  hgvsp: ENSP00000362280.1:p.Leu322Met
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.964C>A
  hgvsp: ENSP00000362294.4:p.Leu322Met
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.964C>A
  hgvsp: ENSP00000362297.1:p.Leu322Met
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.964C>A
  hgvsp: ENSP00000362289.3:p.Leu322Met
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.964C>A
  hgvsp: ENSP00000362283.1:p.Leu322Met
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 11283
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 117
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 592
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 95
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 33625
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 43
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1736
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 276
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12528
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17
  bin: 7.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 65
  bin: 5.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2222
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1064
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 11
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8247
  bin: 6.75e1
  variant carriers: 0
hgvs: p.Leu322Met
num of homozygotes: 0
population: Other
population: European (Non-Finnish)
population: Latino
population: African
population: East Asian
population: European (Finnish)
population: South Asian
reference allele: G
site quality: DP
site quality: FS
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: ClippingRankSum
site quality: BaseQRankSum
site quality: MQ
site quality: VQSLOD
site quality: QD

20-41306701-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306701
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306701
    reference: chr 20
allele count: 1
allele frequency: 8.282533792737874e-6
allele num: 120736
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.958A>G
  hgvsp: ENSP00000362289.3:p.Ile320Val
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.958A>G
  hgvsp: ENSP00000362280.1:p.Ile320Val
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.958A>G
  hgvsp: ENSP00000362297.1:p.Ile320Val
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.958A>G
  hgvsp: ENSP00000348408.2:p.Ile320Val
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.958A>G
  hgvsp: ENSP00000362283.1:p.Ile320Val
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.958A>G
  hgvsp: ENSP00000362294.4:p.Ile320Val
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.958A>G
  hgvsp: ENSP00000362286.1:p.Ile320Val
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 90
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12529
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 27
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1734
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11278
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 276
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 590
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 33621
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 63
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 43
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 117
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 367
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 11
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 356
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2223
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 79
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 43
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 13
  bin: 3.25e1
  variant carriers: 0
hgvs: p.Ile320Val
num of homozygotes: 0
population: European (Finnish)
population: African
population: Latino
population: South Asian
population: European (Non-Finnish)
population: East Asian
population: Other
reference allele: T
site quality: MQRankSum
site quality: VQSLOD
site quality: FS
site quality: MQ
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: DP
site quality: QD
site quality: ClippingRankSum

20-41306711-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306711
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306711
    reference: chr 20
allele count: 2
allele frequency: 1.657055743355207e-5
allele num: 120696
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.948G>A
  hgvsp: ENST00000356100.2:c.948G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.948G>A
  hgvsp: ENST00000373201.1:c.948G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.948G>A
  hgvsp: ENST00000373190.1:c.948G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.948G>A
  hgvsp: ENST00000373198.4:c.948G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.948G>A
  hgvsp: ENST00000373187.1:c.948G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.948G>A
  hgvsp: ENST00000373193.3:c.948G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.948G>A
  hgvsp: ENST00000373184.1:c.948G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 80
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 56
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1725
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 116
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11239
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12552
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 36
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 43
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 580
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 271
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17
  bin: 7.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 33606
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 63
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19
  bin: 6.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 71
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 68
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2070
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 19
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 365
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 12
  bin: 3.25e1
  variant carriers: 0
hgvs: p.Gly316Gly
num of homozygotes: 0
population: Other
population: African
population: European (Non-Finnish)
population: South Asian
population: East Asian
population: Latino
population: European (Finnish)
reference allele: C
site quality: QD
site quality: InbreedingCoeff
site quality: MQ
site quality: MQRankSum
site quality: VQSLOD
site quality: FS
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: DP
site quality: ClippingRankSum

20-41306714-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306714
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306714
    reference: chr 20
allele count: 2
allele frequency: 1.657330372236402e-5
allele num: 120676
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.945C>T
  hgvsp: ENST00000356100.2:c.945C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.945C>T
  hgvsp: ENST00000373190.1:c.945C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.945C>T
  hgvsp: ENST00000373198.4:c.945C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.945C>T
  hgvsp: ENST00000373184.1:c.945C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.945C>T
  hgvsp: ENST00000373193.3:c.945C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.945C>T
  hgvsp: ENST00000373201.1:c.945C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.945C>T
  hgvsp: ENST00000373187.1:c.945C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 575
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12583
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 65
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1712
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 114
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 46
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 74
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 269
  bin: 4.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 30
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 33596
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 43
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11223
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 63
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 16
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2206
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 956
  bin: 9.75e1
  variant carriers: 2
genotype quality: GenotypeQuality
  all individuals: 15
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 44980
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 64
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 15
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 1.75e1
  variant carriers: 0
hgvs: p.Ile315Ile
num of homozygotes: 0
population: East Asian
population: African
population: European (Non-Finnish)
population: Latino
population: Other
population: European (Finnish)
population: South Asian
reference allele: G
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

20-41306747-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306747
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306747
    reference: chr 20
allele count: 3
allele frequency: 2.497211447217274e-5
allele num: 120134
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.912C>T
  hgvsp: ENST00000373184.1:c.912C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.912C>T
  hgvsp: ENST00000373198.4:c.912C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.912C>T
  hgvsp: ENST00000373190.1:c.912C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.912C>T
  hgvsp: ENST00000356100.2:c.912C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.912C>T
  hgvsp: ENST00000373193.3:c.912C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.912C>T
  hgvsp: ENST00000373187.1:c.912C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.912C>T
  hgvsp: ENST00000373201.1:c.912C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 251
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 46
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 42
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 32958
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 536
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 407
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13039
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 113
  bin: 5.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 275
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 311
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 63
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1616
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10705
  bin: 3.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 95
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 44499
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 978
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 47
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 126
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 101
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 9
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 1.25e1
  variant carriers: 0
hgvs: p.Tyr304Tyr
num of homozygotes: 0
population: East Asian
population: Other
population: Latino
population: African
population: European (Finnish)
population: European (Non-Finnish)
population: South Asian
reference allele: G
site quality: DP
site quality: MQ
site quality: FS
site quality: QD
site quality: MQRankSum
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: ClippingRankSum
site quality: ReadPosRankSum
site quality: BaseQRankSum

20-41306770-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306770
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306770
    reference: chr 20
allele count: 1
allele frequency: 8.425025696328374e-6
allele num: 118694
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.889C>T
  hgvsp: ENST00000373193.3:c.889C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.889C>T
  hgvsp: ENST00000373198.4:c.889C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.889C>T
  hgvsp: ENST00000373201.1:c.889C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.889C>T
  hgvsp: ENST00000356100.2:c.889C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.889C>T
  hgvsp: ENST00000373190.1:c.889C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.889C>T
  hgvsp: ENST00000373184.1:c.889C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.889C>T
  hgvsp: ENST00000373187.1:c.889C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 59
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13523
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 480
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1011
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 108
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31805
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 42
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1215
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 430
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 45
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1454
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 241
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9935
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1894
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 830
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 261
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1749
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 225
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1813
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 10
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 289
  bin: 8.75e1
  variant carriers: 0
hgvs: p.Leu297Leu
num of homozygotes: 0
population: South Asian
population: East Asian
population: European (Non-Finnish)
population: Latino
population: African
population: Other
population: European (Finnish)
reference allele: G
site quality: VQSLOD
site quality: MQRankSum
site quality: DP
site quality: FS
site quality: ReadPosRankSum
site quality: ClippingRankSum
site quality: MQ
site quality: InbreedingCoeff
site quality: QD
site quality: BaseQRankSum

20-41306771-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306771
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306771
    reference: chr 20
allele count: 1
allele frequency: 8.432556413802408e-6
allele num: 118588
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.888G>A
  hgvsp: ENST00000373190.1:c.888G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.888G>A
  hgvsp: ENST00000373187.1:c.888G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.888G>A
  hgvsp: ENST00000373184.1:c.888G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.888G>A
  hgvsp: ENST00000356100.2:c.888G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.888G>A
  hgvsp: ENST00000373198.4:c.888G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.888G>A
  hgvsp: ENST00000373201.1:c.888G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.888G>A
  hgvsp: ENST00000373193.3:c.888G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 42
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1451
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 240
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 109
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 13475
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 479
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9909
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1274
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31764
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1060
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 45
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 442
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 58
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1984
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 46
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 256
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 10
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 284
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1734
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7478
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 275
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 9
  bin: 1.25e1
  variant carriers: 0
hgvs: p.Glu296Glu
num of homozygotes: 0
population: European (Finnish)
population: South Asian
population: Other
population: African
population: Latino
population: East Asian
population: European (Non-Finnish)
reference allele: C
site quality: VQSLOD
site quality: DP
site quality: FS
site quality: MQRankSum
site quality: BaseQRankSum
site quality: QD
site quality: ClippingRankSum
site quality: ReadPosRankSum
site quality: MQ
site quality: InbreedingCoeff

20-41306773-C-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306773
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306773
    reference: chr 20
allele count: 1
allele frequency: 8.452370890034655e-6
allele num: 118310
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.886G>C
  hgvsp: ENSP00000348408.2:p.Glu296Gln
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.886G>C
  hgvsp: ENSP00000362283.1:p.Glu296Gln
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.886G>C
  hgvsp: ENSP00000362286.1:p.Glu296Gln
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.886G>C
  hgvsp: ENSP00000362294.4:p.Glu296Gln
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.886G>C
  hgvsp: ENSP00000362297.1:p.Glu296Gln
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.886G>C
  hgvsp: ENSP00000362280.1:p.Glu296Gln
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.886G>C
  hgvsp: ENSP00000362289.3:p.Glu296Gln
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31634
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 47
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 241
  bin: 4.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 108
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 465
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9855
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1444
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1424
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1195
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 474
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 58
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 42
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13361
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 217
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2215
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 145
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1720
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 43455
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 281
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 9
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 286
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 194
  bin: 3.75e1
  variant carriers: 0
hgvs: p.Glu296Gln
num of homozygotes: 0
population: Latino
population: East Asian
population: European (Finnish)
population: African
population: European (Non-Finnish)
population: Other
population: South Asian
reference allele: C
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: DP
site quality: QD
site quality: VQSLOD
site quality: MQ
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: FS
site quality: ReadPosRankSum

20-41306774-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306774
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306774
    reference: chr 20
allele count: 1
allele frequency: 8.466396870819716e-6
allele num: 118114
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.885A>G
  hgvsp: ENST00000373198.4:c.885A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.885A>G
  hgvsp: ENST00000373187.1:c.885A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.885A>G
  hgvsp: ENST00000373201.1:c.885A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.885A>G
  hgvsp: ENST00000373193.3:c.885A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.885A>G
  hgvsp: ENST00000356100.2:c.885A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.885A>G
  hgvsp: ENST00000373184.1:c.885A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.885A>G
  hgvsp: ENST00000373190.1:c.885A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 1517
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 473
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 48
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13306
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 9821
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 42
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1285
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31536
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 239
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 58
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1441
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 474
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 108
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 51
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 280
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 323
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 102
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 15
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 163
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2373
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 12
  bin: 1.25e1
  variant carriers: 0
hgvs: p.Pro295Pro
num of homozygotes: 0
population: Latino
population: Other
population: African
population: East Asian
population: South Asian
population: European (Finnish)
population: European (Non-Finnish)
reference allele: T
site quality: MQRankSum
site quality: MQ
site quality: FS
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: QD
site quality: DP

20-41306786-G-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306786
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306786
    reference: chr 20
allele count: 4
allele frequency: 3.50852571749351e-5
allele num: 114008
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.873C>A
  hgvsp: ENST00000373198.4:c.873C>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.873C>A
  hgvsp: ENST00000373187.1:c.873C>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.873C>A
  hgvsp: ENST00000373184.1:c.873C>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.873C>A
  hgvsp: ENST00000373193.3:c.873C>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.873C>A
  hgvsp: ENST00000356100.2:c.873C>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.873C>A
  hgvsp: ENST00000373190.1:c.873C>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.873C>A
  hgvsp: ENST00000373201.1:c.873C>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 437
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 94
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1027
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1329
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12088
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8783
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28269
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 104
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3254
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4632
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 42
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 58
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 232
  bin: 4.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 576
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 182
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 856
  bin: 9.75e1
  variant carriers: 4
genotype quality: GenotypeQuality
  all individuals: 107
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6410
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 489
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 721
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 278
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 46
  bin: 1.75e1
  variant carriers: 0
hgvs: p.Pro291Pro
num of homozygotes: 0
population: African
population: European (Finnish)
population: Latino
population: Other
population: East Asian
population: South Asian
population: European (Non-Finnish)
reference allele: G
site quality: FS
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: QD
site quality: BaseQRankSum
site quality: MQRankSum
site quality: DP
site quality: MQ
site quality: ClippingRankSum
site quality: ReadPosRankSum

20-41306789-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306789
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306789
    reference: chr 20
allele count: 119
allele frequency: 1.046521853838713e-3
allele num: 113710
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.870G>A
  hgvsp: ENST00000373184.1:c.870G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.870G>A
  hgvsp: ENST00000373201.1:c.870G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.870G>A
  hgvsp: ENST00000373190.1:c.870G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.870G>A
  hgvsp: ENST00000356100.2:c.870G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.870G>A
  hgvsp: ENST00000373187.1:c.870G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.870G>A
  hgvsp: ENST00000373198.4:c.870G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.870G>A
  hgvsp: ENST00000373193.3:c.870G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 28001
  bin: 2.75e1
  variant carriers: 17
genotype depth: GenotypeDepth
  all individuals: 1015
  bin: 1.75e1
  variant carriers: 15
genotype depth: GenotypeDepth
  all individuals: 428
  bin: 4.25e1
  variant carriers: 5
genotype depth: GenotypeDepth
  all individuals: 3393
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 102
  bin: 5.25e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 8511
  bin: 3.25e1
  variant carriers: 18
genotype depth: GenotypeDepth
  all individuals: 4827
  bin: 1.25e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 1292
  bin: 3.75e1
  variant carriers: 17
genotype depth: GenotypeDepth
  all individuals: 238
  bin: 4.75e1
  variant carriers: 9
genotype depth: GenotypeDepth
  all individuals: 12346
  bin: 2.25e1
  variant carriers: 22
genotype depth: GenotypeDepth
  all individuals: 101
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 41
  bin: 6.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 6.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 15
  bin: 7.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 56
  bin: 5.75e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 946
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 273
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1474
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1400
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 38652
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 50
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 27
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 325
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 469
  bin: 3.75e1
  variant carriers: 0
hgvs: p.Thr290Thr
num of homozygotes: 1
population: European (Non-Finnish)
population: Other
population: South Asian
population: African
population: European (Finnish)
population: Latino
population: East Asian
reference allele: C
site quality: InbreedingCoeff
site quality: ClippingRankSum
site quality: FS
site quality: VQSLOD
site quality: MQRankSum
site quality: QD
site quality: ReadPosRankSum
site quality: MQ
site quality: DP
site quality: BaseQRankSum

20-41306790-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306790
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306790
    reference: chr 20
allele count: 4
allele frequency: 3.528955076401878e-5
allele num: 113348
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.869C>T
  hgvsp: ENSP00000362280.1:p.Thr290Met
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.869C>T
  hgvsp: ENSP00000348408.2:p.Thr290Met
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.869C>T
  hgvsp: ENSP00000362289.3:p.Thr290Met
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.869C>T
  hgvsp: ENSP00000362286.1:p.Thr290Met
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.869C>T
  hgvsp: ENSP00000362297.1:p.Thr290Met
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.869C>T
  hgvsp: ENSP00000362294.4:p.Thr290Met
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.869C>T
  hgvsp: ENSP00000362283.1:p.Thr290Met
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 8313
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 39
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 228
  bin: 4.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3578
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 108
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5153
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 98
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 27736
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1249
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 53
  bin: 5.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1035
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12348
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 417
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 464
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 996
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 25
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7035
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 19
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 120
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 188
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 827
  bin: 9.75e1
  variant carriers: 4
genotype quality: GenotypeQuality
  all individuals: 1376
  bin: 7.25e1
  variant carriers: 0
hgvs: p.Thr290Met
num of homozygotes: 0
population: Latino
population: Other
population: East Asian
population: European (Finnish)
population: African
population: South Asian
population: European (Non-Finnish)
reference allele: G
site quality: InbreedingCoeff
site quality: FS
site quality: MQ
site quality: BaseQRankSum
site quality: VQSLOD
site quality: QD
site quality: MQRankSum
site quality: DP
site quality: ClippingRankSum
site quality: ReadPosRankSum

20-41306803-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306803
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306803
    reference: chr 20
allele count: 1
allele frequency: 9.213702618534283e-6
allele num: 108534
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.860-4A>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.860-4A>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.860-4A>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.860-4A>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.860-4A>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.860-4A>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.860-4A>G
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: splice region
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 5782
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 52
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 238
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22519
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1911
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6517
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 382
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11148
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10388
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1064
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 38
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 215
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 434
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 325
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 211
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 321
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2145
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 38
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2097
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 12386
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 583
  bin: 8.25e1
  variant carriers: 0
hgvs: c.860-4A>G
num of homozygotes: 0
population: East Asian
population: Latino
population: South Asian
population: Other
population: European (Finnish)
population: African
population: European (Non-Finnish)
reference allele: T
site quality: MQRankSum
site quality: MQ
site quality: ClippingRankSum
site quality: DP
site quality: BaseQRankSum
site quality: FS
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: QD

20-41306805-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306805
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306805
    reference: chr 20
allele count: 1
allele frequency: 9.269902480625904e-6
allele num: 107876
alternate allele: G
annotation: Annotation
  canonical: true
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.860-6T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.860-6T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.860-6T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.860-6T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.860-6T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.860-6T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.860-6T>C
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: splice region
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 38
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6119
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2106
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11376
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6262
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 21615
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 52
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10781
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 277
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1040
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 212
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 378
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 30923
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1143
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 69
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2347
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 578
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 295
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 320
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 422
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1047
  bin: 7.25e1
  variant carriers: 0
hgvs: c.860-6T>C
num of homozygotes: 0
population: East Asian
population: European (Non-Finnish)
population: South Asian
population: African
population: European (Finnish)
population: Latino
population: Other
reference allele: A
site quality: ClippingRankSum
site quality: MQRankSum
site quality: FS
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: DP
site quality: MQ
site quality: ReadPosRankSum
site quality: QD
site quality: BaseQRankSum

20-41306806-G-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306806
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306806
    reference: chr 20
allele count: 1
allele frequency: 9.31601796128263e-6
allele num: 107342
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.860-7C>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.860-7C>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.860-7C>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.860-7C>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.860-7C>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.860-7C>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.860-7C>G
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: splice region
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 38
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 298
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 21095
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 210
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10489
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 375
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 15
  bin: 7.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 52
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6306
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1034
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6099
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12002
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2256
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1131
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 130
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4524
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 353
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 575
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 474
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 239
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 85
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 359
  bin: 4.75e1
  variant carriers: 0
hgvs: c.860-7C>G
num of homozygotes: 0
population: European (Non-Finnish)
population: European (Finnish)
population: Other
population: East Asian
population: Latino
population: African
population: South Asian
reference allele: G
site quality: MQRankSum
site quality: MQ
site quality: BaseQRankSum
site quality: FS
site quality: VQSLOD
site quality: DP
site quality: QD
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: ClippingRankSum

20-41306821-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306821
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306821
    reference: chr 20
allele count: 1
allele frequency: 9.819324430479183e-6
allele num: 101840
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.860-22T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.860-22T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.860-22T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.860-22T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.860-22T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.860-22T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.860-22T>C
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 13332
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8277
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 53
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 917
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3978
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20042
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 347
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 200
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6984
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 863
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5205
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 38
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 780
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 518
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1047
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 599
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 75
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 730
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 18468
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5574
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 192
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2796
  bin: 3.75e1
  variant carriers: 0
num of homozygotes: 0
population: European (Non-Finnish)
population: East Asian
population: Latino
population: Other
population: South Asian
population: African
population: European (Finnish)
reference allele: A
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: QD
site quality: FS
site quality: VQSLOD
site quality: BaseQRankSum
site quality: MQ
site quality: MQRankSum
site quality: DP
site quality: ReadPosRankSum

20-41306823-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306823
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306823
    reference: chr 20
allele count: 1
allele frequency: 9.854741115950883e-6
allele num: 101474
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.860-24C>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.860-24C>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.860-24C>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.860-24C>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.860-24C>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.860-24C>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.860-24C>T
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 20400
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12870
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 198
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 344
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5422
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 38
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 985
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 853
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8437
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3834
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6804
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 53
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 830
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 365
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 471
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 448
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 189
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 17784
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 94
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5775
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 226
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 456
  bin: 8.25e1
  variant carriers: 0
num of homozygotes: 0
population: Latino
population: African
population: European (Finnish)
population: Other
population: East Asian
population: South Asian
population: European (Non-Finnish)
reference allele: G
site quality: ClippingRankSum
site quality: FS
site quality: DP
site quality: ReadPosRankSum
site quality: QD
site quality: MQ
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: VQSLOD
site quality: BaseQRankSum

20-41306823-G-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306823
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306823
    reference: chr 20
allele count: 1
allele frequency: 9.854741115950883e-6
allele num: 101474
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.860-24C>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.860-24C>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.860-24C>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.860-24C>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.860-24C>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.860-24C>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.860-24C>G
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 6804
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12870
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20400
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8437
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 344
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3834
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 985
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 853
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 53
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 38
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5422
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 198
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 94
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 365
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 17784
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2921
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 782
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 752
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4804
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 471
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 448
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 18681
  bin: 2.25e1
  variant carriers: 0
num of homozygotes: 0
population: European (Finnish)
population: African
population: Latino
population: South Asian
population: Other
population: East Asian
population: European (Non-Finnish)
reference allele: G
site quality: ReadPosRankSum
site quality: ClippingRankSum
site quality: MQ
site quality: MQRankSum
site quality: VQSLOD
site quality: FS
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: QD
site quality: DP

20-41306833-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306833
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306833
    reference: chr 20
allele count: 1
allele frequency: 1.04303565095855e-5
allele num: 95874
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.860-34A>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.860-34A>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.860-34A>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.860-34A>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.860-34A>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.860-34A>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.860-34A>G
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 21730
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 38
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10104
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 721
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 94
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 193
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4751
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1865
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 53
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2268
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11128
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 7032
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 330
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 576
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 427
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8004
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1630
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8826
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 182
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 155
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5443
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1807
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1857
  bin: 4.25e1
  variant carriers: 0
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: T
site quality: ReadPosRankSum
site quality: QD
site quality: MQ
site quality: FS
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: DP

20-41306834-T-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306834
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306834
    reference: chr 20
allele count: 2
allele frequency: 2.085897248701529e-5
allele num: 95882
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.860-35A>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.860-35A>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.860-35A>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.860-35A>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.860-35A>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.860-35A>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.860-35A>C
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4807
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 21705
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 719
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10177
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 193
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1870
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 94
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11089
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 7007
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2226
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 330
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 38
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 53
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7981
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5427
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1461
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1656
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 222
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 17572
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 702
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1262
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2253
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 9170
  bin: 6.25e1
  variant carriers: 0
num of homozygotes: 0
population: European (Non-Finnish)
population: Other
population: South Asian
population: African
population: East Asian
population: European (Finnish)
population: Latino
reference allele: T
site quality: MQRankSum
site quality: ClippingRankSum
site quality: MQ
site quality: DP
site quality: QD
site quality: InbreedingCoeff
site quality: FS
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: BaseQRankSum

20-41306845-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306845
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306845
    reference: chr 20
allele count: 0
allele frequency: 0.0e0
allele num: 89470
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.860-46T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.860-46T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.860-46T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.860-46T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.860-46T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.860-46T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.860-46T>C
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: intron
filter: AC_Adj0_Filter
genotype depth: GenotypeDepth
  all individuals: 658
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 192
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12975
  bin: 7.5e0
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1533
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6336
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12929
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19468
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2052
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 15
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3639
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 319
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 53
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 92
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 38
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 280
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1865
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 215
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2657
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3975
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6265
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 405
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2777
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5691
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 178
  bin: 8.75e1
  variant carriers: 1
num of homozygotes: 0
population: Other
population: Latino
population: South Asian
population: African
population: East Asian
population: European (Non-Finnish)
population: European (Finnish)
reference allele: A
site quality: QD
site quality: MQ
site quality: DP
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: FS
site quality: ClippingRankSum
site quality: VQSLOD

20-41306850-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41306850
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41306850
    reference: chr 20
allele count: 15
allele frequency: 1.714520848573519e-4
allele num: 87488
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.860-51C>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.860-51C>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.860-51C>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.860-51C>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.860-51C>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.860-51C>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.860-51C>T
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2071
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3230
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1434
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 38
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12750
  bin: 1.75e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 319
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 53
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 651
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13528
  bin: 7.5e0
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 192
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 91
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6880
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 19045
  bin: 1.25e1
  variant carriers: 8
genotype depth: GenotypeDepth
  all individuals: 15
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6265
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2487
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5133
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 12630
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 540
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 788
  bin: 9.75e1
  variant carriers: 12
genotype quality: GenotypeQuality
  all individuals: 669
  bin: 7.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 474
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3741
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3206
  bin: 6.25e1
  variant carriers: 0
num of homozygotes: 0
population: Other
population: Latino
population: European (Finnish)
population: African
population: European (Non-Finnish)
population: South Asian
population: East Asian
reference allele: G
site quality: DP
site quality: VQSLOD
site quality: FS
site quality: MQRankSum
site quality: QD
site quality: ReadPosRankSum
site quality: MQ
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: BaseQRankSum

20-41385053-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385053
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385053
    reference: chr 20
allele count: 1
allele frequency: 9.550368644229666e-6
allele num: 104708
alternate allele: C
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.859+49A>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.859+49A>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.859+49A>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.859+49A>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.859+49A>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.859+49A>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.859+49A>G
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: intron
filter: VQSRTrancheSNP99.60to99.80
genotype depth: GenotypeDepth
  all individuals: 9100
  bin: 1.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 68
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3173
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 833
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4286
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3457
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12802
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 97
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14891
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 319
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 161
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11056
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1015
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 20061
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4452
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 547
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3586
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2473
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4973
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 191
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4444
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1297
  bin: 1.75e1
  variant carriers: 0
num of homozygotes: 0
population: South Asian
population: Latino
population: East Asian
population: European (Finnish)
population: European (Non-Finnish)
population: African
population: Other
reference allele: T
site quality: QD
site quality: ClippingRankSum
site quality: DP
site quality: MQRankSum
site quality: FS
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: MQ

20-41385069-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385069
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385069
    reference: chr 20
allele count: 1
allele frequency: 9.468262384487199e-6
allele num: 105616
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.859+33T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.859+33T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.859+33T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.859+33T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.859+33T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.859+33T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.859+33T>C
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 3692
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6824
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 321
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24916
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3026
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3332
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 163
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 68
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4523
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12549
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 835
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2520
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 630
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 494
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4862
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2974
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 802
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1274
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 216
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2757
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4480
  bin: 2.25e1
  variant carriers: 0
num of homozygotes: 0
population: Other
population: Latino
population: African
population: European (Finnish)
population: East Asian
population: South Asian
population: European (Non-Finnish)
reference allele: A
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: MQ
site quality: QD
site quality: FS
site quality: BaseQRankSum
site quality: DP
site quality: VQSLOD
site quality: MQRankSum
site quality: ClippingRankSum

20-41385070-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385070
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385070
    reference: chr 20
allele count: 4
allele frequency: 3.78823752249266e-5
allele num: 105590
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.859+32A>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.859+32A>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.859+32A>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.859+32A>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.859+32A>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.859+32A>G
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.859+32A>G
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 12645
  bin: 2.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 2995
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 164
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3416
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 68
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 319
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6569
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4541
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3345
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 833
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25358
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
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  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 222
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 574
  bin: 9.75e1
  variant carriers: 4
genotype quality: GenotypeQuality
  all individuals: 2515
  bin: 7.5e0
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genotype quality: GenotypeQuality
  all individuals: 2620
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 189
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genotype quality: GenotypeQuality
  all individuals: 1103
  bin: 4.25e1
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genotype quality: GenotypeQuality
  all individuals: 621
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genotype quality: GenotypeQuality
  all individuals: 438
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genotype quality: GenotypeQuality
  all individuals: 964
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genotype quality: GenotypeQuality
  all individuals: 311
  bin: 5.75e1
  variant carriers: 0
num of homozygotes: 0
population: Latino
population: East Asian
population: South Asian
population: African
population: European (Finnish)
population: Other
population: European (Non-Finnish)
reference allele: T
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: FS
site quality: MQ
site quality: DP
site quality: InbreedingCoeff
site quality: QD
site quality: ClippingRankSum
site quality: VQSLOD

http://identifiers.org/exac.variant/20-41385073-C-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385073
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385073
    reference: chr 20
allele count: 5
allele frequency: 4.7279535525843e-5
allele num: 105754
alternate allele: A
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.859+29G>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.859+29G>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.859+29G>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.859+29G>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.859+29G>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.859+29G>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.859+29G>T
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 2958
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 843
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2850
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4580
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5975
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3453
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
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  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25929
  bin: 2.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 13122
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 99
  bin: 5.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 319
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 68
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  variant carriers: 0
genotype depth: GenotypeDepth
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  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 164
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  variant carriers: 0
genotype depth: GenotypeDepth
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  variant carriers: 0
genotype depth: GenotypeDepth
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  variant carriers: 0
genotype depth: GenotypeDepth
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  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
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  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 480
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  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4459
  bin: 2.25e1
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genotype quality: GenotypeQuality
  all individuals: 2311
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
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  variant carriers: 0
genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
  all individuals: 280
  bin: 2.5e0
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genotype quality: GenotypeQuality
  all individuals: 993
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  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 416
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  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2407
  bin: 7.5e0
  variant carriers: 0
num of homozygotes: 0
population: East Asian
population: European (Finnish)
population: African
population: Latino
population: European (Non-Finnish)
population: South Asian
population: Other
reference allele: C
site quality: ReadPosRankSum
site quality: DP
site quality: FS
site quality: QD
site quality: VQSLOD
site quality: MQ
site quality: ClippingRankSum
site quality: MQRankSum
site quality: BaseQRankSum
site quality: InbreedingCoeff

20-41385082-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385082
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385082
    reference: chr 20
allele count: 5
allele frequency: 4.689727620619794e-5
allele num: 106616
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.859+20G>A
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.859+20G>A
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.859+20G>A
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.859+20G>A
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.859+20G>A
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.859+20G>A
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.859+20G>A
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 28512
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14122
  bin: 2.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 3996
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
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  variant carriers: 0
genotype depth: GenotypeDepth
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  variant carriers: 0
genotype depth: GenotypeDepth
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  variant carriers: 0
genotype depth: GenotypeDepth
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  variant carriers: 0
genotype depth: GenotypeDepth
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  variant carriers: 0
genotype depth: GenotypeDepth
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  variant carriers: 0
genotype depth: GenotypeDepth
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  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 164
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1679
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  variant carriers: 2
genotype depth: GenotypeDepth
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  variant carriers: 0
genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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  variant carriers: 0
genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
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  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
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  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1210
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 193
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1288
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 550
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 218
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 37647
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 568
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1802
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 351
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1128
  bin: 7.25e1
  variant carriers: 0
num of homozygotes: 0
population: European (Non-Finnish)
population: Latino
population: Other
population: East Asian
population: European (Finnish)
population: African
population: South Asian
reference allele: C
site quality: DP
site quality: QD
site quality: ClippingRankSum
site quality: VQSLOD
site quality: FS
site quality: BaseQRankSum
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: MQ

20-41385083-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385083
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385083
    reference: chr 20
allele count: 2
allele frequency: 1.873571401806123e-5
allele num: 106748
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.859+19C>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.859+19C>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.859+19C>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.859+19C>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.859+19C>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.859+19C>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.859+19C>T
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 14291
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3744
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 95
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 323
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1587
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3655
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 6.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2250
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 165
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 846
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28660
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 4726
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 68
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 388
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1188
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 37878
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5234
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 484
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 415
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1708
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2049
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 366
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 614
  bin: 5.25e1
  variant carriers: 0
num of homozygotes: 0
population: African
population: East Asian
population: European (Finnish)
population: European (Non-Finnish)
population: Other
population: South Asian
population: Latino
reference allele: G
site quality: FS
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: BaseQRankSum
site quality: MQ
site quality: DP
site quality: InbreedingCoeff
site quality: ClippingRankSum
site quality: QD

20-41385085-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385085
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385085
    reference: chr 20
allele count: 20
allele frequency: 1.867099833828115e-4
allele num: 107118
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.859+17T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.859+17T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.859+17T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.859+17T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.859+17T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.859+17T>C
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.859+17T>C
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 6.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 94
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2067
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1434
  bin: 1.75e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29092
  bin: 2.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 14554
  bin: 2.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 163
  bin: 4.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4782
  bin: 7.5e0
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 844
  bin: 3.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 320
  bin: 4.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 3375
  bin: 1.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 6.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3630
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 69
  bin: 5.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1111
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 121
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1029
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 195
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 425
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1890
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 546
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 587
  bin: 9.75e1
  variant carriers: 21
genotype quality: GenotypeQuality
  all individuals: 460
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 323
  bin: 1.75e1
  variant carriers: 0
num of homozygotes: 0
population: Other
population: East Asian
population: African
population: European (Finnish)
population: Latino
population: European (Non-Finnish)
population: South Asian
reference allele: A
site quality: QD
site quality: DP
site quality: ClippingRankSum
site quality: FS
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: VQSLOD
site quality: BaseQRankSum
site quality: MQ

20-41385093-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385093
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385093
    reference: chr 20
allele count: 2
allele frequency: 1.849762305543737e-5
allele num: 108122
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.859+9C>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.859+9C>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.859+9C>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.859+9C>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.859+9C>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.859+9C>T
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.859+9C>T
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 68
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1011
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3653
  bin: 3.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 315
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30223
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1593
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4817
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 15233
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2454
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 161
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 837
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 94
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 650
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1501
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 65
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 191
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1034
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4763
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 40556
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1231
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1086
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 879
  bin: 2.75e1
  variant carriers: 0
num of homozygotes: 0
population: European (Non-Finnish)
population: Other
population: East Asian
population: African
population: South Asian
population: Latino
population: European (Finnish)
reference allele: G
site quality: VQSLOD
site quality: DP
site quality: MQRankSum
site quality: FS
site quality: ClippingRankSum
site quality: MQ
site quality: QD
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: ReadPosRankSum

20-41385106-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385106
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385106
    reference: chr 20
allele count: 1
allele frequency: 9.121757215309958e-6
allele num: 109628
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.855G>A
  hgvsp: ENST00000356100.2:c.855G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.855G>A
  hgvsp: ENST00000373190.1:c.855G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.855G>A
  hgvsp: ENST00000373184.1:c.855G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.855G>A
  hgvsp: ENST00000373187.1:c.855G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.855G>A
  hgvsp: ENST00000373193.3:c.855G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.855G>A
  hgvsp: ENST00000373201.1:c.855G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.855G>A
  hgvsp: ENST00000373198.4:c.855G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3763
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4649
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16160
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 979
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 695
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 68
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30912
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1836
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 848
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 94
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 162
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 317
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 199
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 945
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4598
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5716
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 192
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 436
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 751
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 119
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 312
  bin: 5.25e1
  variant carriers: 0
hgvs: p.Val285Val
num of homozygotes: 0
population: South Asian
population: European (Finnish)
population: East Asian
population: European (Non-Finnish)
population: Latino
population: African
population: Other
reference allele: C
site quality: FS
site quality: ClippingRankSum
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: QD
site quality: BaseQRankSum
site quality: MQ
site quality: DP
site quality: VQSLOD

20-41385108-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385108
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385108
    reference: chr 20
allele count: 1
allele frequency: 9.097856544997999e-6
allele num: 109916
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.853G>A
  hgvsp: ENSP00000362286.1:p.Val285Met
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.853G>A
  hgvsp: ENSP00000348408.2:p.Val285Met
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.853G>A
  hgvsp: ENSP00000362289.3:p.Val285Met
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.853G>A
  hgvsp: ENSP00000362280.1:p.Val285Met
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.853G>A
  hgvsp: ENSP00000362294.4:p.Val285Met
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.853G>A
  hgvsp: ENSP00000362297.1:p.Val285Met
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.853G>A
  hgvsp: ENSP00000362283.1:p.Val285Met
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4530
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30896
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16329
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 709
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 94
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 912
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 318
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 848
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3788
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 162
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1832
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 68
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 447
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 322
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 192
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 161
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1058
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 565
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 731
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 910
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 138
  bin: 2.5e0
  variant carriers: 0
hgvs: p.Val285Met
num of homozygotes: 0
population: Latino
population: East Asian
population: South Asian
population: European (Finnish)
population: Other
population: African
population: European (Non-Finnish)
reference allele: C
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: MQ
site quality: DP
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: FS
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: QD

20-41385109-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385109
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385109
    reference: chr 20
allele count: 2
allele frequency: 1.814256427003393e-5
allele num: 110238
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.852C>T
  hgvsp: ENST00000373193.3:c.852C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.852C>T
  hgvsp: ENST00000373184.1:c.852C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.852C>T
  hgvsp: ENST00000356100.2:c.852C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.852C>T
  hgvsp: ENST00000373198.4:c.852C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.852C>T
  hgvsp: ENST00000373187.1:c.852C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.852C>T
  hgvsp: ENST00000373201.1:c.852C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.852C>T
  hgvsp: ENST00000373190.1:c.852C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 699
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 163
  bin: 4.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 30898
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3813
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 320
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 94
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 847
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1782
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 68
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16429
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 851
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4529
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 73
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4493
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 42242
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 685
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 830
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 458
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1068
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 126
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 504
  bin: 8.25e1
  variant carriers: 0
hgvs: p.Ile284Ile
num of homozygotes: 0
population: European (Non-Finnish)
population: Other
population: South Asian
population: East Asian
population: African
population: Latino
population: European (Finnish)
reference allele: G
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: MQ
site quality: ClippingRankSum
site quality: QD
site quality: FS
site quality: DP
site quality: BaseQRankSum
site quality: VQSLOD

20-41385111-T-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385111
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385111
    reference: chr 20
allele count: 2
allele frequency: 1.810249633424449e-5
allele num: 110482
alternate allele: A
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.850A>T
  hgvsp: ENSP00000362283.1:p.Ile284Phe
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.850A>T
  hgvsp: ENSP00000362289.3:p.Ile284Phe
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.850A>T
  hgvsp: ENSP00000348408.2:p.Ile284Phe
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.850A>T
  hgvsp: ENSP00000362280.1:p.Ile284Phe
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.850A>T
  hgvsp: ENSP00000362297.1:p.Ile284Phe
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.850A>T
  hgvsp: ENSP00000362294.4:p.Ile284Phe
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.850A>T
  hgvsp: ENSP00000362286.1:p.Ile284Phe
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 8.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 842
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1735
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 94
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3794
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16506
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4496
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 7.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 787
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 661
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 316
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 68
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 162
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31032
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1298
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 193
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 158
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 765
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1078
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4468
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 101
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 66
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 199
  bin: 9.25e1
  variant carriers: 0
hgvs: p.Ile284Phe
num of homozygotes: 0
population: East Asian
population: Other
population: European (Finnish)
population: European (Non-Finnish)
population: Latino
population: South Asian
population: African
reference allele: T
site quality: QD
site quality: MQRankSum
site quality: ClippingRankSum
site quality: BaseQRankSum
site quality: MQ
site quality: VQSLOD
site quality: FS
site quality: InbreedingCoeff
site quality: DP
site quality: ReadPosRankSum

20-41385118-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385118
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385118
    reference: chr 20
allele count: 1
allele frequency: 8.976660682226211e-6
allele num: 111400
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.843G>A
  hgvsp: ENST00000373184.1:c.843G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.843G>A
  hgvsp: ENST00000373187.1:c.843G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.843G>A
  hgvsp: ENST00000373190.1:c.843G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.843G>A
  hgvsp: ENST00000373193.3:c.843G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.843G>A
  hgvsp: ENST00000373201.1:c.843G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.843G>A
  hgvsp: ENST00000373198.4:c.843G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.843G>A
  hgvsp: ENST00000356100.2:c.843G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 162
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 688
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31152
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 565
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1642
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4201
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3870
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 850
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 318
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 68
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16893
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 94
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4330
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 83
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 416
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 147
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 337
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 565
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 167
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 83
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1290
  bin: 7.25e1
  variant carriers: 0
hgvs: p.Ala281Ala
num of homozygotes: 0
population: African
population: Other
population: Latino
population: South Asian
population: European (Finnish)
population: East Asian
population: European (Non-Finnish)
reference allele: C
site quality: QD
site quality: InbreedingCoeff
site quality: FS
site quality: MQRankSum
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: DP
site quality: VQSLOD
site quality: ClippingRankSum
site quality: MQ

20-41385121-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385121
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385121
    reference: chr 20
allele count: 4
allele frequency: 3.565697985380638e-5
allele num: 112180
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.840C>T
  hgvsp: ENST00000373198.4:c.840C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.840C>T
  hgvsp: ENST00000373193.3:c.840C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.840C>T
  hgvsp: ENST00000373184.1:c.840C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.840C>T
  hgvsp: ENST00000373190.1:c.840C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.840C>T
  hgvsp: ENST00000373201.1:c.840C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.840C>T
  hgvsp: ENST00000356100.2:c.840C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.840C>T
  hgvsp: ENST00000373187.1:c.840C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31496
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 849
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 321
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 94
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17039
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 661
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1510
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 70
  bin: 5.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 3978
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 162
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 459
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 8.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3872
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 370
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 198
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 236
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5927
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 44
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 41
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 459
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 565
  bin: 9.75e1
  variant carriers: 4
genotype quality: GenotypeQuality
  all individuals: 603
  bin: 3.25e1
  variant carriers: 0
hgvs: p.Tyr280Tyr
num of homozygotes: 0
population: South Asian
population: Latino
population: African
population: European (Non-Finnish)
population: East Asian
population: European (Finnish)
population: Other
reference allele: G
site quality: DP
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: FS
site quality: MQ
site quality: ClippingRankSum
site quality: QD
site quality: MQRankSum
site quality: BaseQRankSum
site quality: InbreedingCoeff

20-41385133-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385133
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385133
    reference: chr 20
allele count: 1
allele frequency: 8.786419709696694e-6
allele num: 113812
alternate allele: G
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.828T>C
  hgvsp: ENST00000373187.1:c.828T>C(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.828T>C
  hgvsp: ENST00000373201.1:c.828T>C(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.828T>C
  hgvsp: ENST00000373190.1:c.828T>C(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.828T>C
  hgvsp: ENST00000373193.3:c.828T>C(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.828T>C
  hgvsp: ENST00000373184.1:c.828T>C(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.828T>C
  hgvsp: ENST00000356100.2:c.828T>C(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.828T>C
  hgvsp: ENST00000373198.4:c.828T>C(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 3326
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 161
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 318
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 315
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 94
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3904
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17471
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 846
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1377
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 883
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31748
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 68
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 24
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 357
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 526
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3611
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 36
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 509
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 188
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 552
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 318
  bin: 7.5e0
  variant carriers: 0
hgvs: p.Gly276Gly
num of homozygotes: 0
population: African
population: Other
population: Latino
population: European (Non-Finnish)
population: European (Finnish)
population: South Asian
population: East Asian
reference allele: A
site quality: DP
site quality: ReadPosRankSum
site quality: MQ
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: MQRankSum
site quality: VQSLOD
site quality: FS
site quality: InbreedingCoeff
site quality: QD

http://identifiers.org/exac.variant/20-41385152-C-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385152
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385152
    reference: chr 20
allele count: 2
allele frequency: 1.712563364844499e-5
allele num: 116784
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.809G>T
  hgvsp: ENSP00000362297.1:p.Arg270Leu
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.809G>T
  hgvsp: ENSP00000348408.2:p.Arg270Leu
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.809G>T
  hgvsp: ENSP00000362283.1:p.Arg270Leu
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.809G>T
  hgvsp: ENSP00000362280.1:p.Arg270Leu
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.809G>T
  hgvsp: ENSP00000362294.4:p.Arg270Leu
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.809G>T
  hgvsp: ENSP00000362286.1:p.Arg270Leu
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.809G>T
  hgvsp: ENSP00000362289.3:p.Arg270Leu
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 68
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1863
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 32430
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 164
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 94
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 861
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1058
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 319
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 249
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1046
  bin: 1.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 18335
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4022
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 31
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 391
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1098
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 456
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 196
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 50
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 188
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1316
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 432
  bin: 4.75e1
  variant carriers: 0
hgvs: p.Arg270Leu
num of homozygotes: 0
population: European (Finnish)
population: Latino
population: East Asian
population: African
population: European (Non-Finnish)
population: South Asian
population: Other
reference allele: C
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: QD
site quality: ReadPosRankSum
site quality: FS
site quality: BaseQRankSum
site quality: MQ
site quality: VQSLOD
site quality: DP
site quality: ClippingRankSum

20-41385152-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385152
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385152
    reference: chr 20
allele count: 1
allele frequency: 8.562816824222497e-6
allele num: 116784
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.809G>A
  hgvsp: ENSP00000362286.1:p.Arg270His
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.809G>A
  hgvsp: ENSP00000362294.4:p.Arg270His
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.809G>A
  hgvsp: ENSP00000362283.1:p.Arg270His
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.809G>A
  hgvsp: ENSP00000362280.1:p.Arg270His
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.809G>A
  hgvsp: ENSP00000362289.3:p.Arg270His
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.809G>A
  hgvsp: ENSP00000362297.1:p.Arg270His
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.809G>A
  hgvsp: ENSP00000348408.2:p.Arg270His
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1046
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 319
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 164
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 32430
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 249
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4022
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 68
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18335
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 94
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1863
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1058
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 861
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2198
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1098
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 248
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 394
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 237
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 457
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6056
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 50
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 289
  bin: 4.25e1
  variant carriers: 0
hgvs: p.Arg270His
num of homozygotes: 0
population: East Asian
population: South Asian
population: Latino
population: Other
population: African
population: European (Non-Finnish)
population: European (Finnish)
reference allele: C
site quality: MQ
site quality: BaseQRankSum
site quality: DP
site quality: FS
site quality: VQSLOD
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: QD

20-41385153-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385153
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385153
    reference: chr 20
allele count: 1
allele frequency: 8.547154652216277e-6
allele num: 116998
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.808C>T
  hgvsp: ENSP00000362286.1:p.Arg270Cys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.808C>T
  hgvsp: ENSP00000362280.1:p.Arg270Cys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.808C>T
  hgvsp: ENSP00000362294.4:p.Arg270Cys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.808C>T
  hgvsp: ENSP00000348408.2:p.Arg270Cys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.808C>T
  hgvsp: ENSP00000362289.3:p.Arg270Cys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.808C>T
  hgvsp: ENSP00000362297.1:p.Arg270Cys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.808C>T
  hgvsp: ENSP00000362283.1:p.Arg270Cys
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 32483
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 68
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4003
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18384
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 163
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1042
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 327
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 865
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 94
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1023
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 242
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1814
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 18
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2164
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 451
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 197
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6077
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 506
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 271
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 188
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 33
  bin: 1.75e1
  variant carriers: 0
hgvs: p.Arg270Cys
num of homozygotes: 0
population: South Asian
population: European (Non-Finnish)
population: Latino
population: African
population: European (Finnish)
population: East Asian
population: Other
reference allele: G
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: DP
site quality: ClippingRankSum
site quality: MQRankSum
site quality: FS
site quality: BaseQRankSum
site quality: MQ
site quality: QD

20-41385165-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385165
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385165
    reference: chr 20
allele count: 1
allele frequency: 8.471991595784337e-6
allele num: 118036
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.796C>T
  hgvsp: ENSP00000362294.4:p.Arg266Cys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.796C>T
  hgvsp: ENSP00000362280.1:p.Arg266Cys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.796C>T
  hgvsp: ENSP00000362283.1:p.Arg266Cys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.796C>T
  hgvsp: ENSP00000362286.1:p.Arg266Cys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.796C>T
  hgvsp: ENSP00000348408.2:p.Arg266Cys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.796C>T
  hgvsp: ENSP00000362297.1:p.Arg266Cys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.796C>T
  hgvsp: ENSP00000362289.3:p.Arg266Cys
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 890
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1152
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1294
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 860
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18773
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4050
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 332
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 212
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 32606
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 68
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 163
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 211
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 484
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1311
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 45752
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 20
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1104
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 436
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 382
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 367
  bin: 2.75e1
  variant carriers: 0
hgvs: p.Arg266Cys
num of homozygotes: 0
population: European (Non-Finnish)
population: African
population: East Asian
population: South Asian
population: Other
population: Latino
population: European (Finnish)
reference allele: G
site quality: InbreedingCoeff
site quality: ClippingRankSum
site quality: DP
site quality: BaseQRankSum
site quality: MQ
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: FS
site quality: VQSLOD
site quality: QD

20-41385166-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385166
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385166
    reference: chr 20
allele count: 1
allele frequency: 8.464820207218798e-6
allele num: 118136
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.795C>T
  hgvsp: ENST00000373190.1:c.795C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.795C>T
  hgvsp: ENST00000373187.1:c.795C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.795C>T
  hgvsp: ENST00000373193.3:c.795C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.795C>T
  hgvsp: ENST00000356100.2:c.795C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.795C>T
  hgvsp: ENST00000373184.1:c.795C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.795C>T
  hgvsp: ENST00000373198.4:c.795C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.795C>T
  hgvsp: ENST00000373201.1:c.795C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1133
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 94
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 870
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 32644
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 207
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 68
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4048
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 865
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18816
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 320
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1271
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 425
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 207
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 347
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 14
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 243
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 16
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 562
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 229
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 23
  bin: 1.75e1
  variant carriers: 0
hgvs: p.Tyr265Tyr
num of homozygotes: 0
population: European (Non-Finnish)
population: South Asian
population: Other
population: European (Finnish)
population: Latino
population: African
population: East Asian
reference allele: G
site quality: MQ
site quality: ClippingRankSum
site quality: QD
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: FS
site quality: VQSLOD
site quality: DP
site quality: BaseQRankSum
site quality: InbreedingCoeff

20-41385172-G-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385172
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385172
    reference: chr 20
allele count: 1
allele frequency: 8.451656524678837e-6
allele num: 118320
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.789C>A
  hgvsp: ENSP00000362289.3:p.Ser263Arg
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.789C>A
  hgvsp: ENSP00000362286.1:p.Ser263Arg
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.789C>A
  hgvsp: ENSP00000362297.1:p.Ser263Arg
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.789C>A
  hgvsp: ENSP00000362280.1:p.Ser263Arg
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.789C>A
  hgvsp: ENSP00000362294.4:p.Ser263Arg
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.789C>A
  hgvsp: ENSP00000362283.1:p.Ser263Arg
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.789C>A
  hgvsp: ENSP00000348408.2:p.Ser263Arg
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1185
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 870
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 316
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1211
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18944
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 161
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 860
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 195
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 32551
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4031
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 69
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 95
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6118
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1098
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1308
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 211
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 540
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 194
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 251
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 27
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 18
  bin: 1.25e1
  variant carriers: 0
hgvs: p.Ser263Arg
num of homozygotes: 0
population: African
population: Other
population: European (Finnish)
population: European (Non-Finnish)
population: South Asian
population: Latino
population: East Asian
reference allele: G
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: ClippingRankSum
site quality: MQ
site quality: MQRankSum
site quality: FS
site quality: QD
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: DP

20-41385172-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385172
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385172
    reference: chr 20
allele count: 1
allele frequency: 8.451656524678837e-6
allele num: 118320
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.789C>T
  hgvsp: ENST00000373193.3:c.789C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.789C>T
  hgvsp: ENST00000373201.1:c.789C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.789C>T
  hgvsp: ENST00000373184.1:c.789C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.789C>T
  hgvsp: ENST00000373190.1:c.789C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.789C>T
  hgvsp: ENST00000356100.2:c.789C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.789C>T
  hgvsp: ENST00000373198.4:c.789C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.789C>T
  hgvsp: ENST00000373187.1:c.789C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 18944
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 195
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4031
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 870
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 860
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 161
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1211
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 32551
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 69
  bin: 5.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1185
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 95
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 316
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 540
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6118
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 189
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 23
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 191
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1308
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 18
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 348
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 427
  bin: 3.75e1
  variant carriers: 0
hgvs: p.Ser263Ser
num of homozygotes: 0
population: Latino
population: South Asian
population: European (Finnish)
population: African
population: East Asian
population: Other
population: European (Non-Finnish)
reference allele: G
site quality: VQSLOD
site quality: FS
site quality: InbreedingCoeff
site quality: DP
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: QD
site quality: BaseQRankSum
site quality: MQ
site quality: ClippingRankSum

20-41385174-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385174
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385174
    reference: chr 20
allele count: 1
allele frequency: 8.447230153232754e-6
allele num: 118382
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.787A>G
  hgvsp: ENSP00000362286.1:p.Ser263Gly
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.787A>G
  hgvsp: ENSP00000348408.2:p.Ser263Gly
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.787A>G
  hgvsp: ENSP00000362297.1:p.Ser263Gly
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.787A>G
  hgvsp: ENSP00000362289.3:p.Ser263Gly
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.787A>G
  hgvsp: ENSP00000362294.4:p.Ser263Gly
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.787A>G
  hgvsp: ENSP00000362280.1:p.Ser263Gly
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.787A>G
  hgvsp: ENSP00000362283.1:p.Ser263Gly
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 161
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1148
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 317
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1267
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18981
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 858
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 882
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 94
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 193
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4012
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 32500
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 69
  bin: 5.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 443
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 28
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 30
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 183
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 45793
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 562
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 265
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 261
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 360
  bin: 2.75e1
  variant carriers: 0
hgvs: p.Ser263Gly
num of homozygotes: 0
population: South Asian
population: European (Non-Finnish)
population: European (Finnish)
population: East Asian
population: Latino
population: African
population: Other
reference allele: T
site quality: DP
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: FS
site quality: MQ
site quality: QD
site quality: VQSLOD
site quality: BaseQRankSum
site quality: MQRankSum
site quality: ClippingRankSum

20-41385177-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385177
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385177
    reference: chr 20
allele count: 28
allele frequency: 2.364066193853428e-4
allele num: 118440
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.784G>A
  hgvsp: ENSP00000362286.1:p.Val262Ile
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.784G>A
  hgvsp: ENSP00000362289.3:p.Val262Ile
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.784G>A
  hgvsp: ENSP00000348408.2:p.Val262Ile
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.784G>A
  hgvsp: ENSP00000362297.1:p.Val262Ile
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.784G>A
  hgvsp: ENSP00000362294.4:p.Val262Ile
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.784G>A
  hgvsp: ENSP00000362280.1:p.Val262Ile
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.784G>A
  hgvsp: ENSP00000362283.1:p.Val262Ile
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 6.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 186
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1119
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 906
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 860
  bin: 3.75e1
  variant carriers: 5
genotype depth: GenotypeDepth
  all individuals: 4069
  bin: 3.25e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 8.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 323
  bin: 4.25e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 69
  bin: 5.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 32335
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 19046
  bin: 2.75e1
  variant carriers: 6
genotype depth: GenotypeDepth
  all individuals: 1302
  bin: 1.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 99
  bin: 5.25e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 171
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 25
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 375
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1307
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 460
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 18
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 292
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 35
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6092
  bin: 6.75e1
  variant carriers: 0
hgvs: p.Val262Ile
num of homozygotes: 0
population: South Asian
population: African
population: Other
population: East Asian
population: Latino
population: European (Finnish)
population: European (Non-Finnish)
reference allele: C
site quality: MQ
site quality: ClippingRankSum
site quality: QD
site quality: InbreedingCoeff
site quality: FS
site quality: MQRankSum
site quality: DP
site quality: VQSLOD
site quality: BaseQRankSum
site quality: ReadPosRankSum

20-41385178-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385178
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385178
    reference: chr 20
allele count: 1
allele frequency: 8.441953130276222e-6
allele num: 118456
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.783C>T
  hgvsp: ENST00000373190.1:c.783C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.783C>T
  hgvsp: ENST00000373184.1:c.783C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.783C>T
  hgvsp: ENST00000373187.1:c.783C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.783C>T
  hgvsp: ENST00000373201.1:c.783C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.783C>T
  hgvsp: ENST00000373193.3:c.783C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.783C>T
  hgvsp: ENST00000356100.2:c.783C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.783C>T
  hgvsp: ENST00000373198.4:c.783C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 67
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1338
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4086
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 859
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 321
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1101
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 183
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 94
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19161
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 939
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 4.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 32163
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 457
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 19
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 45059
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1622
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 656
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 40
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 192
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 302
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 384
  bin: 2.75e1
  variant carriers: 0
hgvs: p.Ser261Ser
num of homozygotes: 0
population: Latino
population: African
population: South Asian
population: European (Finnish)
population: Other
population: East Asian
population: European (Non-Finnish)
reference allele: G
site quality: QD
site quality: DP
site quality: ClippingRankSum
site quality: MQRankSum
site quality: FS
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: MQ
site quality: VQSLOD

20-41385180-T-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385180
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385180
    reference: chr 20
allele count: 1
allele frequency: 8.436397995511836e-6
allele num: 118534
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.781A>C
  hgvsp: ENSP00000362280.1:p.Ser261Arg
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.781A>C
  hgvsp: ENSP00000362289.3:p.Ser261Arg
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.781A>C
  hgvsp: ENSP00000362283.1:p.Ser261Arg
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.781A>C
  hgvsp: ENSP00000348408.2:p.Ser261Arg
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.781A>C
  hgvsp: ENSP00000362294.4:p.Ser261Arg
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.781A>C
  hgvsp: ENSP00000362297.1:p.Ser261Arg
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.781A>C
  hgvsp: ENSP00000362286.1:p.Ser261Arg
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 4042
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 320
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19236
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 67
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 95
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 182
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 32245
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1279
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 924
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 850
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1073
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 159
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 27
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 488
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 364
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 188
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 171
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1311
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1095
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 275
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1590
  bin: 2.25e1
  variant carriers: 0
hgvs: p.Ser261Arg
num of homozygotes: 0
population: South Asian
population: African
population: European (Finnish)
population: European (Non-Finnish)
population: East Asian
population: Latino
population: Other
reference allele: T
site quality: VQSLOD
site quality: QD
site quality: FS
site quality: MQ
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: DP
site quality: MQRankSum
site quality: ClippingRankSum
site quality: BaseQRankSum

20-41385182-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385182
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385182
    reference: chr 20
allele count: 1
allele frequency: 8.435828651448432e-6
allele num: 118542
alternate allele: T
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.779G>A
  hgvsp: ENSP00000362283.1:p.Arg260Gln
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.779G>A
  hgvsp: ENSP00000348408.2:p.Arg260Gln
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.779G>A
  hgvsp: ENSP00000362297.1:p.Arg260Gln
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.779G>A
  hgvsp: ENSP00000362280.1:p.Arg260Gln
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.779G>A
  hgvsp: ENSP00000362294.4:p.Arg260Gln
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.779G>A
  hgvsp: ENSP00000362289.3:p.Arg260Gln
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.779G>A
  hgvsp: ENSP00000362286.1:p.Arg260Gln
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 4096
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 19295
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 917
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1255
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 863
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 32161
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 67
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1051
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 182
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 163
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 329
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 94
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 256
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 562
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 378
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 571
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 436
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 19
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 34
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1302
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1087
  bin: 7.75e1
  variant carriers: 0
hgvs: p.Arg260Gln
num of homozygotes: 0
population: South Asian
population: African
population: Other
population: European (Finnish)
population: Latino
population: East Asian
population: European (Non-Finnish)
reference allele: C
site quality: ClippingRankSum
site quality: BaseQRankSum
site quality: MQRankSum
site quality: QD
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: FS
site quality: DP
site quality: InbreedingCoeff
site quality: MQ

20-41385186-G-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385186
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385186
    reference: chr 20
allele count: 1
allele frequency: 8.434121080242228e-6
allele num: 118566
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.775C>A
  hgvsp: ENSP00000362289.3:p.Gln259Lys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.775C>A
  hgvsp: ENSP00000362294.4:p.Gln259Lys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.775C>A
  hgvsp: ENSP00000362297.1:p.Gln259Lys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.775C>A
  hgvsp: ENSP00000362280.1:p.Gln259Lys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.775C>A
  hgvsp: ENSP00000362286.1:p.Gln259Lys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.775C>A
  hgvsp: ENSP00000348408.2:p.Gln259Lys
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.775C>A
  hgvsp: ENSP00000362283.1:p.Gln259Lys
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 1215
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 171
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 326
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 68
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 94
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1061
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4087
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 867
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 32032
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 963
  bin: 1.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 19423
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 451
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1628
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 14
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 26
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 381
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 189
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 162
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 428
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 417
  bin: 3.75e1
  variant carriers: 0
hgvs: p.Gln259Lys
num of homozygotes: 0
population: European (Non-Finnish)
population: East Asian
population: Latino
population: African
population: European (Finnish)
population: South Asian
population: Other
reference allele: G
site quality: VQSLOD
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: DP
site quality: MQ
site quality: InbreedingCoeff
site quality: FS
site quality: MQRankSum
site quality: QD
site quality: ReadPosRankSum

20-41385187-G-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385187
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385187
    reference: chr 20
allele count: 2
allele frequency: 1.687963134885134e-5
allele num: 118486
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.774C>A
  hgvsp: ENST00000373193.3:c.774C>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.774C>A
  hgvsp: ENST00000373184.1:c.774C>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.774C>A
  hgvsp: ENST00000373187.1:c.774C>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.774C>A
  hgvsp: ENST00000373190.1:c.774C>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.774C>A
  hgvsp: ENST00000356100.2:c.774C>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.774C>A
  hgvsp: ENST00000373201.1:c.774C>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.774C>A
  hgvsp: ENST00000373198.4:c.774C>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 1308
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 164
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31909
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19406
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1100
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 95
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1021
  bin: 1.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 320
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4054
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 67
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 857
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6090
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1712
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 256
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 21
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 562
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 190
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 157
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1301
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 12
  bin: 1.25e1
  variant carriers: 0
hgvs: p.Ala258Ala
num of homozygotes: 0
population: Other
population: South Asian
population: European (Finnish)
population: European (Non-Finnish)
population: East Asian
population: Latino
population: African
reference allele: G
site quality: MQ
site quality: FS
site quality: ClippingRankSum
site quality: DP
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: VQSLOD
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: QD

20-41385190-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385190
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385190
    reference: chr 20
allele count: 1
allele frequency: 8.439388313135065e-6
allele num: 118492
alternate allele: G
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.771T>C
  hgvsp: ENST00000373187.1:c.771T>C(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.771T>C
  hgvsp: ENST00000356100.2:c.771T>C(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.771T>C
  hgvsp: ENST00000373193.3:c.771T>C(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.771T>C
  hgvsp: ENST00000373184.1:c.771T>C(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.771T>C
  hgvsp: ENST00000373198.4:c.771T>C(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.771T>C
  hgvsp: ENST00000373201.1:c.771T>C(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.771T>C
  hgvsp: ENST00000373190.1:c.771T>C(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 1309
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 850
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 166
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4021
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19423
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 95
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1056
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 318
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 159
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31888
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1110
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 67
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 13
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 416
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 45795
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 490
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 239
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 21
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 561
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 393
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6132
  bin: 6.75e1
  variant carriers: 0
hgvs: p.Thr257Thr
num of homozygotes: 0
population: Latino
population: European (Non-Finnish)
population: African
population: East Asian
population: South Asian
population: Other
population: European (Finnish)
reference allele: A
site quality: DP
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: VQSLOD
site quality: MQRankSum
site quality: MQ
site quality: FS
site quality: QD
site quality: InbreedingCoeff
site quality: ClippingRankSum

20-41385199-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385199
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385199
    reference: chr 20
allele count: 3
allele frequency: 2.535711267010396e-5
allele num: 118310
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.762G>A
  hgvsp: ENST00000373184.1:c.762G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.762G>A
  hgvsp: ENST00000356100.2:c.762G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.762G>A
  hgvsp: ENST00000373193.3:c.762G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.762G>A
  hgvsp: ENST00000373201.1:c.762G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.762G>A
  hgvsp: ENST00000373198.4:c.762G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.762G>A
  hgvsp: ENST00000373187.1:c.762G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.762G>A
  hgvsp: ENST00000373190.1:c.762G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 325
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 67
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4027
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1284
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 165
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19408
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 848
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1196
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 163
  bin: 4.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1181
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 94
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31698
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 432
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6082
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 190
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 45868
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 17
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 566
  bin: 9.75e1
  variant carriers: 3
genotype quality: GenotypeQuality
  all individuals: 188
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 456
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1905
  bin: 2.25e1
  variant carriers: 0
hgvs: p.Val254Val
num of homozygotes: 0
population: South Asian
population: European (Finnish)
population: Other
population: East Asian
population: European (Non-Finnish)
population: African
population: Latino
reference allele: C
site quality: FS
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: ClippingRankSum
site quality: DP
site quality: MQ
site quality: BaseQRankSum
site quality: MQRankSum
site quality: QD

20-41385205-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 41385205
    reference: chr 20
  end: Position
    type: ExactPosition
    position: 41385205
    reference: chr 20
allele count: 1
allele frequency: 8.472996559963397e-6
allele num: 118022
alternate allele: A
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362283
  ensembl transcript: ENST00000373187
  gene symbol: PTPRT
  hgvsc: ENST00000373187.1:c.756C>T
  hgvsp: ENST00000373187.1:c.756C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362294
  ensembl transcript: ENST00000373198
  gene symbol: PTPRT
  hgvsc: ENST00000373198.4:c.756C>T
  hgvsp: ENST00000373198.4:c.756C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000348408
  ensembl transcript: ENST00000356100
  gene symbol: PTPRT
  hgvsc: ENST00000356100.2:c.756C>T
  hgvsp: ENST00000356100.2:c.756C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362280
  ensembl transcript: ENST00000373184
  gene symbol: PTPRT
  hgvsc: ENST00000373184.1:c.756C>T
  hgvsp: ENST00000373184.1:c.756C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362297
  ensembl transcript: ENST00000373201
  gene symbol: PTPRT
  hgvsc: ENST00000373201.1:c.756C>T
  hgvsp: ENST00000373201.1:c.756C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362286
  ensembl transcript: ENST00000373190
  gene symbol: PTPRT
  hgvsc: ENST00000373190.1:c.756C>T
  hgvsp: ENST00000373190.1:c.756C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000196090
  ensembl protein: ENSP00000362289
  ensembl transcript: ENST00000373193
  gene symbol: PTPRT
  hgvsc: ENST00000373193.3:c.756C>T
  hgvsp: ENST00000373193.3:c.756C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/9682
canonical: true
consequence: synonymous
filter: VQSRTrancheSNP99.60to99.80
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 67
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1418
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 95
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1517
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 316
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 166
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1308
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 848
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19426
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4011
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31110
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 6.25e1
  variant carriers: 0
hgvs: p.Val252Val
num of homozygotes: 0
reference allele: G

GenotypeQuality
all individuals: 4661
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1709
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1051
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 6
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1898
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 3
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 3
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 4
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 20142
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 28614
bin: 9.75e1
variant carriers: 3

GenotypeQuality
all individuals: 1380
bin: 8.25e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.498351813005694e-5
allele num: 66740
num of homozygotes: 0

Latino
type: Population
allele count: 1
allele frequency: 8.638562543192812e-5
allele num: 11576
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9802
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6614
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8622
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 900
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 6.056201550387597e-5
allele num: 16512
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 5.972e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 3.1e-3

VQSLOD
type: SiteQuality
SIO_000300: 1.03e0

FS
type: SiteQuality
SIO_000300: 4.685e0

MQRankSum
type: SiteQuality
SIO_000300: -2.53e-1

QD
type: SiteQuality
SIO_000300: 1.37e1

BaseQRankSum
type: SiteQuality
SIO_000300: -3.597e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 5.669999999999999e-1

DP
type: SiteQuality
SIO_000300: 3.286743e6

ClippingRankSum
type: SiteQuality
SIO_000300: -1.576e0

GenotypeQuality
all individuals: 820
bin: 7.75e1
variant carriers: 1

GenotypeQuality
all individuals: 1
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 17663
bin: 6.25e1
variant carriers: 1

GenotypeQuality
all individuals: 7
bin: 5.75e1
variant carriers: 4

GenotypeQuality
all individuals: 37165
bin: 9.75e1
variant carriers: 36816

GenotypeQuality
all individuals: 3239
bin: 6.75e1
variant carriers: 2

GenotypeQuality
all individuals: 122
bin: 8.75e1
variant carriers: 2

GenotypeQuality
all individuals: 140
bin: 9.25e1
variant carriers: 5

GenotypeQuality
all individuals: 6
bin: 4.25e1
variant carriers: 1

GenotypeQuality
all individuals: 396
bin: 8.25e1
variant carriers: 10

GenotypeQuality
all individuals: 792
bin: 7.25e1
variant carriers: 4

European (Finnish)
type: Population
allele count: 2608
allele frequency: 3.944343617664852e-1
allele num: 6612
num of homozygotes: 500

African
type: Population
allele count: 4421
allele frequency: 4.509383924928601e-1
allele num: 9804
num of homozygotes: 999

Other
type: Population
allele count: 306
allele frequency: 3.4e-1
allele num: 900
num of homozygotes: 51

East Asian
type: Population
allele count: 3059
allele frequency: 3.561946902654867e-1
allele num: 8588
num of homozygotes: 552

South Asian
type: Population
allele count: 5779
allele frequency: 3.499878875968992e-1
allele num: 16512
num of homozygotes: 1068

Latino
type: Population
allele count: 5229
allele frequency: 4.518665744901486e-1
allele num: 11572
num of homozygotes: 1189

European (Non-Finnish)
type: Population
allele count: 24289
allele frequency: 3.639564852553345e-1
allele num: 66736
num of homozygotes: 4484

BaseQRankSum
type: SiteQuality
SIO_000300: -5.85e-1

MQRankSum
type: SiteQuality
SIO_000300: 2.21e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 3.86e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.52e-2

FS
type: SiteQuality
SIO_000300: 0.0e0

ClippingRankSum
type: SiteQuality
SIO_000300: -2.53e-1

VQSLOD
type: SiteQuality
SIO_000300: 4.9e0

DP
type: SiteQuality
SIO_000300: 5.873582e6

QD
type: SiteQuality
SIO_000300: 1.791e1

MQ
type: SiteQuality
SIO_000300: 5.947e1

GenotypeQuality
all individuals: 8
bin: 2.25e1
variant carriers: 0

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

GenotypeQuality
all individuals: 1
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 3
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 5
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2224
bin: 7.75e1
variant carriers: 0

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

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

GenotypeQuality
all individuals: 1064
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2080
bin: 7.25e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 2
allele frequency: 2.996703626011388e-5
allele num: 66740
num of homozygotes: 0

South Asian
type: Population
allele count: 3
allele frequency: 1.816860465116279e-4
allele num: 16512
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8622
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6614
num of homozygotes: 0

African
type: Population
allele count: 16
allele frequency: 1.632319934707203e-3
allele num: 9802
num of homozygotes: 0

Latino
type: Population
allele count: 2
allele frequency: 1.727712508638562e-4
allele num: 11576
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 900
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: 2.14e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -1.126e0

MQ
type: SiteQuality
SIO_000300: 5.952e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.5e-3

VQSLOD
type: SiteQuality
SIO_000300: 2.84e0

FS
type: SiteQuality
SIO_000300: 1.108e0

BaseQRankSum
type: SiteQuality
SIO_000300: 1.55e0

DP
type: SiteQuality
SIO_000300: 1.681834e6

QD
type: SiteQuality
SIO_000300: 1.336e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.04e0

GenotypeQuality
all individuals: 10
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1064
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 7
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 67
bin: 7.5e0
variant carriers: 0

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

GenotypeQuality
all individuals: 2222
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 8241
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 3
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 359
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2081
bin: 7.25e1
variant carriers: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11576
num of homozygotes: 0

East Asian
type: Population
allele count: 8
allele frequency: 9.278589654372535e-4
allele num: 8622
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66740
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 900
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9804
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16512
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6614
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 5.952e1

VQSLOD
type: SiteQuality
SIO_000300: 1.76e0

FS
type: SiteQuality
SIO_000300: 5.27e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 1.47e-1

QD
type: SiteQuality
SIO_000300: 1.223e1

DP
type: SiteQuality
SIO_000300: 1.679008e6

ReadPosRankSum
type: SiteQuality
SIO_000300: 2.7e-2

MQRankSum
type: SiteQuality
SIO_000300: 6.55e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 6.7e-3

BaseQRankSum
type: SiteQuality
SIO_000300: -4.008e0

GenotypeQuality
all individuals: 2223
bin: 7.75e1
variant carriers: 0

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

GenotypeQuality
all individuals: 8243
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 4
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 3
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 367
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1092
bin: 9.75e1
variant carriers: 68

GenotypeQuality
all individuals: 1064
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 359
bin: 8.75e1
variant carriers: 0

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

European (Non-Finnish)
type: Population
allele count: 67
allele frequency: 1.003895714713815e-3
allele num: 66740
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6614
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11576
num of homozygotes: 0

African
type: Population
allele count: 1
allele frequency: 1.019783805833163e-4
allele num: 9806
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8622
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 900
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16512
num of homozygotes: 0

ReadPosRankSum
type: SiteQuality
SIO_000300: 5.55e-1

MQ
type: SiteQuality
SIO_000300: 5.95e1

ClippingRankSum
type: SiteQuality
SIO_000300: 3.88e-1

VQSLOD
type: SiteQuality
SIO_000300: 3.15e0

QD
type: SiteQuality
SIO_000300: 1.121e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.6e-3

MQRankSum
type: SiteQuality
SIO_000300: 3.49e-1

DP
type: SiteQuality
SIO_000300: 1.679821e6

FS
type: SiteQuality
SIO_000300: 1.104e0

BaseQRankSum
type: SiteQuality
SIO_000300: -3.643e0

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

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

GenotypeQuality
all individuals: 2225
bin: 7.75e1
variant carriers: 0

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

GenotypeQuality
all individuals: 367
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 8250
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1066
bin: 8.25e1
variant carriers: 0

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

GenotypeQuality
all individuals: 1024
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 359
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2082
bin: 7.25e1
variant carriers: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 900
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66740
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11576
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6614
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8622
num of homozygotes: 0

African
type: Population
allele count: 1
allele frequency: 1.019783805833163e-4
allele num: 9806
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16512
num of homozygotes: 0

BaseQRankSum
type: SiteQuality
SIO_000300: -1.821e0

VQSLOD
type: SiteQuality
SIO_000300: -1.827e0

DP
type: SiteQuality
SIO_000300: 1.670928e6

QD
type: SiteQuality
SIO_000300: 2.1e1

FS
type: SiteQuality
SIO_000300: 1.914e0

ClippingRankSum
type: SiteQuality
SIO_000300: 7.68e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: -1.29e-1

MQRankSum
type: SiteQuality
SIO_000300: -5.0e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 7.3e-3

MQ
type: SiteQuality
SIO_000300: 5.943e1

GenotypeQuality
all individuals: 367
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 8252
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2226
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1
bin: 5.75e1
variant carriers: 0

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

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

GenotypeQuality
all individuals: 359
bin: 8.75e1
variant carriers: 0

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

GenotypeQuality
all individuals: 45007
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2083
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1067
bin: 8.25e1
variant carriers: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16512
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66740
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6614
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11576
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 900
num of homozygotes: 0

East Asian
type: Population
allele count: 1
allele frequency: 1.159823706796567e-4
allele num: 8622
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9806
num of homozygotes: 0

ReadPosRankSum
type: SiteQuality
SIO_000300: 3.6e-2

MQRankSum
type: SiteQuality
SIO_000300: 1.48e0

MQ
type: SiteQuality
SIO_000300: 5.897e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 7.3e-3

BaseQRankSum
type: SiteQuality
SIO_000300: -7.0e-3

FS
type: SiteQuality
SIO_000300: 3.273e0

VQSLOD
type: SiteQuality
SIO_000300: -3.847e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -1.469e0

QD
type: SiteQuality
SIO_000300: 1.25e1

DP
type: SiteQuality
SIO_000300: 1.670687e6

GenotypeQuality
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bin: 3.25e1
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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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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bin: 5.25e1
variant carriers: 0

European (Finnish)
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allele count: 0
allele frequency: 0.0e0
allele num: 6614
num of homozygotes: 0

European (Non-Finnish)
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allele count: 0
allele frequency: 0.0e0
allele num: 66740
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8622
num of homozygotes: 0

South Asian
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allele count: 1
allele frequency: 6.056201550387597e-5
allele num: 16512
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 900
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11576
num of homozygotes: 0

African
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allele count: 0
allele frequency: 0.0e0
allele num: 9806
num of homozygotes: 0

ClippingRankSum
type: SiteQuality
SIO_000300: -9.8e-1

InbreedingCoeff
type: SiteQuality
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DP
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SIO_000300: 1.670594e6

MQRankSum
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ReadPosRankSum
type: SiteQuality
SIO_000300: 6.08e-1

MQ
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SIO_000300: 5.97e1

BaseQRankSum
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SIO_000300: 6.900000000000001e-2

VQSLOD
type: SiteQuality
SIO_000300: -4.054e-1

FS
type: SiteQuality
SIO_000300: 7.196e0

QD
type: SiteQuality
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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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GenotypeQuality
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variant carriers: 0

East Asian
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allele count: 0
allele frequency: 0.0e0
allele num: 8622
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 900
num of homozygotes: 0

European (Non-Finnish)
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allele count: 0
allele frequency: 0.0e0
allele num: 66740
num of homozygotes: 0

Latino
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allele count: 2
allele frequency: 1.727712508638562e-4
allele num: 11576
num of homozygotes: 0

African
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allele count: 1
allele frequency: 1.019783805833163e-4
allele num: 9806
num of homozygotes: 0

South Asian
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allele count: 0
allele frequency: 0.0e0
allele num: 16512
num of homozygotes: 0

European (Finnish)
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allele count: 0
allele frequency: 0.0e0
allele num: 6614
num of homozygotes: 0

BaseQRankSum
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SIO_000300: -1.392e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

VQSLOD
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SIO_000300: 2.25e-1

DP
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MQRankSum
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FS
type: SiteQuality
SIO_000300: 1.955e0

ReadPosRankSum
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ClippingRankSum
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QD
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SIO_000300: 1.046e1

InbreedingCoeff
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SIO_000300: 8.399999999999999e-3

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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variant carriers: 0

European (Non-Finnish)
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allele count: 3
allele frequency: 4.495055439017081e-5
allele num: 66740
num of homozygotes: 0

African
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allele frequency: 0.0e0
allele num: 9806
num of homozygotes: 0

South Asian
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allele count: 0
allele frequency: 0.0e0
allele num: 16512
num of homozygotes: 0

European (Finnish)
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allele frequency: 0.0e0
allele num: 6614
num of homozygotes: 0

East Asian
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allele count: 0
allele frequency: 0.0e0
allele num: 8622
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Latino
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allele frequency: 0.0e0
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num of homozygotes: 0

Other
type: Population
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allele frequency: 0.0e0
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FS
type: SiteQuality
SIO_000300: 0.0e0

ClippingRankSum
type: SiteQuality
SIO_000300: -6.5e-2

ReadPosRankSum
type: SiteQuality
SIO_000300: 5.77e-1

VQSLOD
type: SiteQuality
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InbreedingCoeff
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SIO_000300: 7.5e-3

MQ
type: SiteQuality
SIO_000300: 5.932e1

MQRankSum
type: SiteQuality
SIO_000300: 1.02e0

BaseQRankSum
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SIO_000300: 2.63e0

QD
type: SiteQuality
SIO_000300: 1.255e1

DP
type: SiteQuality
SIO_000300: 1.670361e6

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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variant carriers: 20

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: 6614
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 17
allele frequency: 2.547198082109679e-4
allele num: 66740
num of homozygotes: 0

Other
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allele count: 0
allele frequency: 0.0e0
allele num: 900
num of homozygotes: 0

South Asian
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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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num of homozygotes: 0

East Asian
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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: 2.591568762957844e-4
allele num: 11576
num of homozygotes: 0

InbreedingCoeff
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SIO_000300: 5.5e-3

VQSLOD
type: SiteQuality
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ReadPosRankSum
type: SiteQuality
SIO_000300: 7.68e-1

BaseQRankSum
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ClippingRankSum
type: SiteQuality
SIO_000300: 4.47e-1

MQ
type: SiteQuality
SIO_000300: 5.96e1

DP
type: SiteQuality
SIO_000300: 1.67006e6

MQRankSum
type: SiteQuality
SIO_000300: 5.0e-3

FS
type: SiteQuality
SIO_000300: 0.0e0

QD
type: SiteQuality
SIO_000300: 1.358e1

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: 8

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: 66740
num of homozygotes: 0

East Asian
type: Population
allele count: 8
allele frequency: 9.278589654372535e-4
allele num: 8622
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 900
num of homozygotes: 0

African
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allele count: 0
allele frequency: 0.0e0
allele num: 9804
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South Asian
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allele frequency: 0.0e0
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num of homozygotes: 0

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

European (Finnish)
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allele count: 0
allele frequency: 0.0e0
allele num: 6614
num of homozygotes: 0

DP
type: SiteQuality
SIO_000300: 1.667772e6

MQ
type: SiteQuality
SIO_000300: 5.933e1

FS
type: SiteQuality
SIO_000300: 5.43e-1

QD
type: SiteQuality
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ClippingRankSum
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BaseQRankSum
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ReadPosRankSum
type: SiteQuality
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VQSLOD
type: SiteQuality
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MQRankSum
type: SiteQuality
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InbreedingCoeff
type: SiteQuality
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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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GenotypeQuality
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variant carriers: 0

Latino
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allele frequency: 0.0e0
allele num: 11576
num of homozygotes: 0

Other
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allele count: 0
allele frequency: 0.0e0
allele num: 900
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South Asian
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allele frequency: 0.0e0
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num of homozygotes: 0

European (Finnish)
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allele count: 0
allele frequency: 0.0e0
allele num: 6614
num of homozygotes: 0

African
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allele frequency: 0.0e0
allele num: 9804
num of homozygotes: 0

East Asian
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allele count: 0
allele frequency: 0.0e0
allele num: 8624
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European (Non-Finnish)
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allele count: 1
allele frequency: 1.498351813005694e-5
allele num: 66740
num of homozygotes: 0

ReadPosRankSum
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InbreedingCoeff
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ClippingRankSum
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BaseQRankSum
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MQRankSum
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MQ
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FS
type: SiteQuality
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QD
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VQSLOD
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DP
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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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GenotypeQuality
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variant carriers: 0

European (Finnish)
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allele frequency: 0.0e0
allele num: 6614
num of homozygotes: 0

European (Non-Finnish)
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allele count: 1
allele frequency: 1.498351813005694e-5
allele num: 66740
num of homozygotes: 0

South Asian
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allele num: 16512
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Other
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East Asian
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allele frequency: 0.0e0
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Latino
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African
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InbreedingCoeff
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ReadPosRankSum
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QD
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DP
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MQ
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FS
type: SiteQuality
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VQSLOD
type: SiteQuality
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BaseQRankSum
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MQRankSum
type: SiteQuality
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ClippingRankSum
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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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GenotypeQuality
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variant carriers: 0

African
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allele frequency: 0.0e0
allele num: 9804
num of homozygotes: 0

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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Latino
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allele num: 11576
num of homozygotes: 0

East Asian
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Other
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South Asian
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BaseQRankSum
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DP
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ReadPosRankSum
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QD
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MQRankSum
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FS
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ClippingRankSum
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MQ
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InbreedingCoeff
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VQSLOD
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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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GenotypeQuality
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variant carriers: 0

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

European (Finnish)
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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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European (Non-Finnish)
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allele frequency: 0.0e0
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Latino
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South Asian
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allele num: 16512
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African
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ReadPosRankSum
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ClippingRankSum
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BaseQRankSum
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InbreedingCoeff
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FS
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MQ
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DP
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MQRankSum
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QD
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VQSLOD
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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: 8.25e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66740
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9806
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 900
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6614
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11574
num of homozygotes: 0

East Asian
type: Population
allele count: 1
allele frequency: 1.159554730983302e-4
allele num: 8624
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16512
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: 7.36e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.9e-3

DP
type: SiteQuality
SIO_000300: 1.666207e6

BaseQRankSum
type: SiteQuality
SIO_000300: -3.03e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 4.13e-1

FS
type: SiteQuality
SIO_000300: 4.71e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -2.15e-1

VQSLOD
type: SiteQuality
SIO_000300: 1.0e0

MQ
type: SiteQuality
SIO_000300: 5.958e1

QD
type: SiteQuality
SIO_000300: 1.131e1

GenotypeQuality
all individuals: 1067
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 977
bin: 9.75e1
variant carriers: 1

GenotypeQuality
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bin: 2.25e1
variant carriers: 0

GenotypeQuality
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bin: 7.25e1
variant carriers: 0

GenotypeQuality
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bin: 4.25e1
variant carriers: 0

GenotypeQuality
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bin: 4.75e1
variant carriers: 0

GenotypeQuality
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bin: 2.75e1
variant carriers: 0

GenotypeQuality
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bin: 2.5e0
variant carriers: 0

GenotypeQuality
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bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2227
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 8254
bin: 6.75e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9806
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11574
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8624
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 900
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16512
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.498351813005694e-5
allele num: 66740
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6614
num of homozygotes: 0

QD
type: SiteQuality
SIO_000300: 1.131e1

MQRankSum
type: SiteQuality
SIO_000300: 7.36e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -3.03e-1

DP
type: SiteQuality
SIO_000300: 1.666207e6

ReadPosRankSum
type: SiteQuality
SIO_000300: 4.13e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -2.15e-1

FS
type: SiteQuality
SIO_000300: 4.71e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.9e-3

VQSLOD
type: SiteQuality
SIO_000300: 1.0e0

MQ
type: SiteQuality
SIO_000300: 5.958e1

GenotypeQuality
all individuals: 5
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 84
bin: 7.5e0
variant carriers: 0

GenotypeQuality
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bin: 2.25e1
variant carriers: 0

GenotypeQuality
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bin: 2.75e1
variant carriers: 0

GenotypeQuality
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GenotypeQuality
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bin: 5.25e1
variant carriers: 0

GenotypeQuality
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bin: 9.75e1
variant carriers: 4

GenotypeQuality
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bin: 6.25e1
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GenotypeQuality
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bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 6
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 367
bin: 9.25e1
variant carriers: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 900
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66730
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11570
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9806
num of homozygotes: 0

East Asian
type: Population
allele count: 4
allele frequency: 4.642525533890436e-4
allele num: 8616
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6612
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: 1.665333e6

FS
type: SiteQuality
SIO_000300: 6.07e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: -1.83e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.8e-3

MQRankSum
type: SiteQuality
SIO_000300: 9.9e-2

ClippingRankSum
type: SiteQuality
SIO_000300: 1.28e0

BaseQRankSum
type: SiteQuality
SIO_000300: -1.325e0

MQ
type: SiteQuality
SIO_000300: 5.971e1

VQSLOD
type: SiteQuality
SIO_000300: 2.14e0

QD
type: SiteQuality
SIO_000300: 1.396e1

GenotypeQuality
all individuals: 1
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 45006
bin: 6.25e1
variant carriers: 0

GenotypeQuality
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bin: 5.75e1
variant carriers: 0

GenotypeQuality
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bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2080
bin: 7.25e1
variant carriers: 0

GenotypeQuality
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bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 6
bin: 3.75e1
variant carriers: 0

GenotypeQuality
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bin: 1.75e1
variant carriers: 0

GenotypeQuality
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bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 8243
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1063
bin: 8.25e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6612
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9806
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11570
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16508
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66726
num of homozygotes: 0

East Asian
type: Population
allele count: 1
allele frequency: 1.160900859066636e-4
allele num: 8614
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 900
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: 5.3e-1

VQSLOD
type: SiteQuality
SIO_000300: 1.16e0

FS
type: SiteQuality
SIO_000300: 1.911e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.01e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.0e-3

BaseQRankSum
type: SiteQuality
SIO_000300: -9.2e-1

DP
type: SiteQuality
SIO_000300: 1.664902e6

QD
type: SiteQuality
SIO_000300: 8.65e0

ClippingRankSum
type: SiteQuality
SIO_000300: -1.706e0

GenotypeQuality
all individuals: 8210
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 17
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 12
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 11
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 959
bin: 9.75e1
variant carriers: 2

GenotypeQuality
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bin: 5.25e1
variant carriers: 0

GenotypeQuality
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bin: 7.75e1
variant carriers: 0

GenotypeQuality
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bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 15
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 353
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1057
bin: 8.25e1
variant carriers: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 900
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9804
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 2
allele frequency: 2.998141152485459e-5
allele num: 66708
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16508
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8610
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11558
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6608
num of homozygotes: 0

QD
type: SiteQuality
SIO_000300: 1.56e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.5e-3

MQ
type: SiteQuality
SIO_000300: 5.967e1

MQRankSum
type: SiteQuality
SIO_000300: -4.12e-1

VQSLOD
type: SiteQuality
SIO_000300: 6.63e-1

FS
type: SiteQuality
SIO_000300: 0.0e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.04e0

BaseQRankSum
type: SiteQuality
SIO_000300: -7.94e-1

DP
type: SiteQuality
SIO_000300: 1.663276e6

ClippingRankSum
type: SiteQuality
SIO_000300: -9.1e-1

GenotypeQuality
all individuals: 83
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 21
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 18
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 14
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 1050
bin: 8.25e1
variant carriers: 0

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

GenotypeQuality
all individuals: 28
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 352
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 8198
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 360
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2064
bin: 7.25e1
variant carriers: 0

East Asian
type: Population
allele count: 1
allele frequency: 1.162250116225012e-4
allele num: 8604
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9804
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.499250374812594e-5
allele num: 66700
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11556
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 900
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: 16508
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: -1.34e-1

MQ
type: SiteQuality
SIO_000300: 5.923e1

ClippingRankSum
type: SiteQuality
SIO_000300: 9.62e-1

FS
type: SiteQuality
SIO_000300: 1.111e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 8.33e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.4e-3

DP
type: SiteQuality
SIO_000300: 1.662303e6

VQSLOD
type: SiteQuality
SIO_000300: 7.33e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -1.174e0

QD
type: SiteQuality
SIO_000300: 1.126e1

GenotypeQuality
all individuals: 2062
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 115
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 144
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 98
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GenotypeQuality
all individuals: 329
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GenotypeQuality
all individuals: 1956
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variant carriers: 0

GenotypeQuality
all individuals: 928
bin: 9.75e1
variant carriers: 3

GenotypeQuality
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bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 60
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 344
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variant carriers: 0

GenotypeQuality
all individuals: 7928
bin: 6.75e1
variant carriers: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8584
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: 11502
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9768
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6550
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 3
allele frequency: 4.517936206740761e-5
allele num: 66402
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16436
num of homozygotes: 0

DP
type: SiteQuality
SIO_000300: 1.642764e6

MQ
type: SiteQuality
SIO_000300: 5.952e1

FS
type: SiteQuality
SIO_000300: 0.0e0

QD
type: SiteQuality
SIO_000300: 9.76e0

MQRankSum
type: SiteQuality
SIO_000300: -2.1e-2

VQSLOD
type: SiteQuality
SIO_000300: 3.28e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 7.0e-4

ClippingRankSum
type: SiteQuality
SIO_000300: -3.17e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 6.76e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -3.148e0

GenotypeQuality
all individuals: 167
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 190
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 243
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 881
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variant carriers: 1

GenotypeQuality
all individuals: 9
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variant carriers: 0

GenotypeQuality
all individuals: 7502
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variant carriers: 0

GenotypeQuality
all individuals: 75
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
all individuals: 302
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 123
bin: 4.75e1
variant carriers: 0

South Asian
type: Population
allele count: 1
allele frequency: 6.155361319709468e-5
allele num: 16246
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8486
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 65654
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11320
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9684
num of homozygotes: 0

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

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6430
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: -7.47e-1

MQRankSum
type: SiteQuality
SIO_000300: -4.45e-1

DP
type: SiteQuality
SIO_000300: 1.605893e6

FS
type: SiteQuality
SIO_000300: 0.0e0

ReadPosRankSum
type: SiteQuality
SIO_000300: -8.26e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 8.68e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 5.0e-4

QD
type: SiteQuality
SIO_000300: 7.75e0

BaseQRankSum
type: SiteQuality
SIO_000300: -1.926e0

GenotypeQuality
all individuals: 8
bin: 2.5e0
variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 179
bin: 3.75e1
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GenotypeQuality
all individuals: 878
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 221
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GenotypeQuality
all individuals: 1800
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GenotypeQuality
all individuals: 88
bin: 4.25e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6422
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16218
num of homozygotes: 0

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

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9680
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11300
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8478
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.52401853206535e-5
allele num: 65616
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: 1.72e-1

DP
type: SiteQuality
SIO_000300: 1.60392e6

FS
type: SiteQuality
SIO_000300: 1.861e0

MQRankSum
type: SiteQuality
SIO_000300: 1.67e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -9.21e-1

QD
type: SiteQuality
SIO_000300: 9.470000000000001e0

ClippingRankSum
type: SiteQuality
SIO_000300: 7.62e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: -7.11e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 5.0e-4

GenotypeQuality
all individuals: 209
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 47
bin: 7.5e0
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GenotypeQuality
all individuals: 7450
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variant carriers: 0

GenotypeQuality
all individuals: 299
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
all individuals: 15
bin: 1.75e1
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GenotypeQuality
all individuals: 876
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GenotypeQuality
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GenotypeQuality
all individuals: 9
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GenotypeQuality
all individuals: 812
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variant carriers: 0

GenotypeQuality
all individuals: 1792
bin: 7.75e1
variant carriers: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11246
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8454
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6396
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9668
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.527090587013621e-5
allele num: 65484
num of homozygotes: 0

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

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16192
num of homozygotes: 0

BaseQRankSum
type: SiteQuality
SIO_000300: -1.566e0

ClippingRankSum
type: SiteQuality
SIO_000300: 5.29e-1

DP
type: SiteQuality
SIO_000300: 1.598839e6

QD
type: SiteQuality
SIO_000300: 1.138e1

VQSLOD
type: SiteQuality
SIO_000300: -3.011e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

MQRankSum
type: SiteQuality
SIO_000300: 1.63e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 3.1e-3

FS
type: SiteQuality
SIO_000300: 1.225e0

ReadPosRankSum
type: SiteQuality
SIO_000300: -4.63e-1

GenotypeQuality
all individuals: 200
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 7419
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 299
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 43306
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 310
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 872
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 1775
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1695
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 207
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 207
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 800
bin: 8.25e1
variant carriers: 0

Latino
type: Population
allele count: 1
allele frequency: 8.914244963451596e-5
allele num: 11218
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 866
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9654
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8432
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16164
num of homozygotes: 0

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

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 65400
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: -4.6e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

FS
type: SiteQuality
SIO_000300: 3.757e0

VQSLOD
type: SiteQuality
SIO_000300: 1.34e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: -1.248e0

ClippingRankSum
type: SiteQuality
SIO_000300: 1.18e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 5.0e-4

BaseQRankSum
type: SiteQuality
SIO_000300: -1.248e0

QD
type: SiteQuality
SIO_000300: 1.093e1

DP
type: SiteQuality
SIO_000300: 1.595576e6

GenotypeQuality
all individuals: 916
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1546
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 25
bin: 1.25e1
variant carriers: 0

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

GenotypeQuality
all individuals: 17
bin: 2.5e0
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GenotypeQuality
all individuals: 38379
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 264
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 638
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1462
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 6347
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 247
bin: 8.75e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9394
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6108
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10574
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 828
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8098
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 15598
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 4
allele frequency: 6.308352258390108e-5
allele num: 63408
num of homozygotes: 0

FS
type: SiteQuality
SIO_000300: 1.1817e1

VQSLOD
type: SiteQuality
SIO_000300: -1.48e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.0e-4

QD
type: SiteQuality
SIO_000300: 9.949999999999999e0

BaseQRankSum
type: SiteQuality
SIO_000300: 3.98e-1

MQRankSum
type: SiteQuality
SIO_000300: -4.24e-1

DP
type: SiteQuality
SIO_000300: 1.502205e6

MQ
type: SiteQuality
SIO_000300: 6.0e1

ClippingRankSum
type: SiteQuality
SIO_000300: 6.08e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 3.98e-1

GenotypeQuality
all individuals: 6215
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 113
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 689
bin: 8.25e1
variant carriers: 1

GenotypeQuality
all individuals: 21
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 207
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 942
bin: 9.75e1
variant carriers: 115

GenotypeQuality
all individuals: 944
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 496
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 240
bin: 8.75e1
variant carriers: 2

GenotypeQuality
all individuals: 265
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 6671
bin: 2.25e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 23
allele frequency: 3.635099254014414e-4
allele num: 63272
num of homozygotes: 0

Other
type: Population
allele count: 1
allele frequency: 1.207729468599034e-3
allele num: 828
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 15540
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9382
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 83
allele frequency: 1.362442547603414e-2
allele num: 6092
num of homozygotes: 1

Latino
type: Population
allele count: 12
allele frequency: 1.141118295930011e-3
allele num: 10516
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8080
num of homozygotes: 0

InbreedingCoeff
type: SiteQuality
SIO_000300: 3.8e-3

ClippingRankSum
type: SiteQuality
SIO_000300: -2.29e-1

FS
type: SiteQuality
SIO_000300: 7.75e-1

VQSLOD
type: SiteQuality
SIO_000300: 4.46e0

MQRankSum
type: SiteQuality
SIO_000300: 2.06e-1

QD
type: SiteQuality
SIO_000300: 1.343e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 5.03e-1

MQ
type: SiteQuality
SIO_000300: 5.97e1

DP
type: SiteQuality
SIO_000300: 1.493529e6

BaseQRankSum
type: SiteQuality
SIO_000300: 2.04e0

GenotypeQuality
all individuals: 236
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 38493
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 258
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 256
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 676
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 505
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variant carriers: 0

GenotypeQuality
all individuals: 1430
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 6176
bin: 6.75e1
variant carriers: 0

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

GenotypeQuality
all individuals: 1029
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 262
bin: 9.25e1
variant carriers: 0

Latino
type: Population
allele count: 1
allele frequency: 9.573042312847023e-5
allele num: 10446
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 826
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8046
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6046
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9364
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 15494
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 3
allele frequency: 4.7523999619808e-5
allele num: 63126
num of homozygotes: 0

InbreedingCoeff
type: SiteQuality
SIO_000300: -7.0e-4

FS
type: SiteQuality
SIO_000300: 3.281e0

MQ
type: SiteQuality
SIO_000300: 5.952e1

BaseQRankSum
type: SiteQuality
SIO_000300: -1.412e0

VQSLOD
type: SiteQuality
SIO_000300: 1.88e0

QD
type: SiteQuality
SIO_000300: 1.153e1

MQRankSum
type: SiteQuality
SIO_000300: 7.05e-1

DP
type: SiteQuality
SIO_000300: 1.482468e6

ClippingRankSum
type: SiteQuality
SIO_000300: -7.05e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 8.35e-1

GenotypeQuality
all individuals: 287
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 242
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 70
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 278
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 800
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 94
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 32145
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 4799
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variant carriers: 0

GenotypeQuality
all individuals: 938
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1157
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variant carriers: 0

GenotypeQuality
all individuals: 1065
bin: 7.25e1
variant carriers: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7660
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9680
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 14710
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 816
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5738
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9070
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.643115346697338e-5
allele num: 60860
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: 1.71e0

MQ
type: SiteQuality
SIO_000300: 5.899e1

ClippingRankSum
type: SiteQuality
SIO_000300: 7.25e-1

DP
type: SiteQuality
SIO_000300: 1.342349e6

BaseQRankSum
type: SiteQuality
SIO_000300: 3.33e0

FS
type: SiteQuality
SIO_000300: 0.0e0

ReadPosRankSum
type: SiteQuality
SIO_000300: -6.59e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.0e-3

VQSLOD
type: SiteQuality
SIO_000300: -1.534e0

QD
type: SiteQuality
SIO_000300: 8.789999999999999e0

GenotypeQuality
all individuals: 2356
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 212
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 29
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 105
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 4616
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 313
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 13260
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1053
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 288
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 800
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 241
bin: 9.25e1
variant carriers: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7610
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.65180046250413e-5
allele num: 60540
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 14588
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9040
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5714
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9582
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 802
num of homozygotes: 0

ClippingRankSum
type: SiteQuality
SIO_000300: 2.22e-1

MQRankSum
type: SiteQuality
SIO_000300: 9.73e-1

FS
type: SiteQuality
SIO_000300: 5.544e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.1e-3

VQSLOD
type: SiteQuality
SIO_000300: -2.93e-1

DP
type: SiteQuality
SIO_000300: 1.318116e6

MQ
type: SiteQuality
SIO_000300: 5.67e1

ReadPosRankSum
type: SiteQuality
SIO_000300: -4.27e-1

QD
type: SiteQuality
SIO_000300: 1.936e1

BaseQRankSum
type: SiteQuality
SIO_000300: -1.28e0

GenotypeQuality
all individuals: 299
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2505
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 44
bin: 2.5e0
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GenotypeQuality
all individuals: 2501
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variant carriers: 0

GenotypeQuality
all individuals: 323
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 29978
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variant carriers: 0

GenotypeQuality
all individuals: 1116
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 13762
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variant carriers: 0

GenotypeQuality
all individuals: 209
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variant carriers: 0

GenotypeQuality
all individuals: 1011
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 797
bin: 9.75e1
variant carriers: 1

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 60268
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5696
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 802
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7556
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9520
num of homozygotes: 0

African
type: Population
allele count: 1
allele frequency: 1.112347052280312e-4
allele num: 8990
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 14510
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: 1.3e0

MQ
type: SiteQuality
SIO_000300: 5.935e1

BaseQRankSum
type: SiteQuality
SIO_000300: 5.25e-1

FS
type: SiteQuality
SIO_000300: 0.0e0

VQSLOD
type: SiteQuality
SIO_000300: -9.124e-1

DP
type: SiteQuality
SIO_000300: 1.303299e6

QD
type: SiteQuality
SIO_000300: 1.774e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 2.23e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.4e-3

ClippingRankSum
type: SiteQuality
SIO_000300: -9.05e-1

GenotypeQuality
all individuals: 4692
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 346
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 786
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variant carriers: 1

GenotypeQuality
all individuals: 17876
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variant carriers: 0

GenotypeQuality
all individuals: 861
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GenotypeQuality
all individuals: 535
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variant carriers: 0

GenotypeQuality
all individuals: 465
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variant carriers: 0

GenotypeQuality
all individuals: 740
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 3089
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 227
bin: 9.25e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.736834792274559e-5
allele num: 57576
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7148
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8726
num of homozygotes: 0

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

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 13574
num of homozygotes: 0

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

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5420
num of homozygotes: 0

ClippingRankSum
type: SiteQuality
SIO_000300: -4.5e-2

InbreedingCoeff
type: SiteQuality
SIO_000300: -3.2e-3

QD
type: SiteQuality
SIO_000300: 5.63e0

FS
type: SiteQuality
SIO_000300: 2.194e0

VQSLOD
type: SiteQuality
SIO_000300: -1.263e0

BaseQRankSum
type: SiteQuality
SIO_000300: 9.399999999999999e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

MQRankSum
type: SiteQuality
SIO_000300: 9.399999999999999e-1

DP
type: SiteQuality
SIO_000300: 1.102011e6

ReadPosRankSum
type: SiteQuality
SIO_000300: 6.48e-1

GenotypeQuality
all individuals: 388
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 543
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 4804
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GenotypeQuality
all individuals: 18681
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variant carriers: 0

GenotypeQuality
all individuals: 1121
bin: 7.5e0
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GenotypeQuality
all individuals: 782
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variant carriers: 1

GenotypeQuality
all individuals: 752
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 3015
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2921
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 753
bin: 7.25e1
variant carriers: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8662
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8622
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5404
num of homozygotes: 0

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

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7128
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 13526
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.742949768187681e-5
allele num: 57374
num of homozygotes: 0

ClippingRankSum
type: SiteQuality
SIO_000300: 6.6e-2

FS
type: SiteQuality
SIO_000300: 0.0e0

DP
type: SiteQuality
SIO_000300: 1.089762e6

ReadPosRankSum
type: SiteQuality
SIO_000300: -5.12e-1

QD
type: SiteQuality
SIO_000300: 1.34e1

MQ
type: SiteQuality
SIO_000300: 6.0e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 4.2e-3

MQRankSum
type: SiteQuality
SIO_000300: -8.0e-2

VQSLOD
type: SiteQuality
SIO_000300: 1.13e0

BaseQRankSum
type: SiteQuality
SIO_000300: -2.921e0

GenotypeQuality
all individuals: 1121
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 3015
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 830
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 753
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 388
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 543
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 189
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variant carriers: 0

GenotypeQuality
all individuals: 5775
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 226
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 456
bin: 8.25e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5404
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8622
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8662
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 13526
num of homozygotes: 0

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

East Asian
type: Population
allele count: 1
allele frequency: 1.402918069584736e-4
allele num: 7128
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 57374
num of homozygotes: 0

ReadPosRankSum
type: SiteQuality
SIO_000300: -5.12e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 6.6e-2

MQ
type: SiteQuality
SIO_000300: 6.0e1

MQRankSum
type: SiteQuality
SIO_000300: -8.0e-2

VQSLOD
type: SiteQuality
SIO_000300: 1.13e0

FS
type: SiteQuality
SIO_000300: 0.0e0

BaseQRankSum
type: SiteQuality
SIO_000300: -2.921e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 4.2e-3

QD
type: SiteQuality
SIO_000300: 1.34e1

DP
type: SiteQuality
SIO_000300: 1.089762e6

GenotypeQuality
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bin: 2.25e1
variant carriers: 0

GenotypeQuality
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GenotypeQuality
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bin: 1.25e1
variant carriers: 0

GenotypeQuality
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bin: 9.75e1
variant carriers: 1

GenotypeQuality
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bin: 4.75e1
variant carriers: 0

GenotypeQuality
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bin: 9.25e1
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GenotypeQuality
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bin: 7.75e1
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
all individuals: 5642
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variant carriers: 0

GenotypeQuality
all individuals: 687
bin: 5.75e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.830831197363603e-5
allele num: 54620
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6588
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8264
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5104
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 718
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7820
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 12760
num of homozygotes: 0

ReadPosRankSum
type: SiteQuality
SIO_000300: 8.84e-1

QD
type: SiteQuality
SIO_000300: 1.551e1

MQ
type: SiteQuality
SIO_000300: 6.0e1

FS
type: SiteQuality
SIO_000300: 0.0e0

MQRankSum
type: SiteQuality
SIO_000300: 5.9e-2

InbreedingCoeff
type: SiteQuality
SIO_000300: -5.1e-3

VQSLOD
type: SiteQuality
SIO_000300: 3.18e0

BaseQRankSum
type: SiteQuality
SIO_000300: 2.65e0

ClippingRankSum
type: SiteQuality
SIO_000300: -1.12e0

DP
type: SiteQuality
SIO_000300: 9.57066e5

GenotypeQuality
all individuals: 1856
bin: 4.25e1
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
all individuals: 426
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variant carriers: 0

GenotypeQuality
all individuals: 780
bin: 9.75e1
variant carriers: 2

European (Non-Finnish)
type: Population
allele count: 2
allele frequency: 3.661260205762823e-5
allele num: 54626
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 716
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 12752
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8240
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6602
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5114
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7832
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: 1.46e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -3.11e-1

MQ
type: SiteQuality
SIO_000300: 5.906e1

DP
type: SiteQuality
SIO_000300: 9.55806e5

QD
type: SiteQuality
SIO_000300: 1.473e1

InbreedingCoeff
type: SiteQuality
SIO_000300: -5.1e-3

FS
type: SiteQuality
SIO_000300: 1.766e0

VQSLOD
type: SiteQuality
SIO_000300: 9.14e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: -4.4e-2

BaseQRankSum
type: SiteQuality
SIO_000300: 2.09e0

GenotypeQuality
all individuals: 2344
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 13874
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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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variant carriers: 0

GenotypeQuality
all individuals: 1417
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variant carriers: 0

GenotypeQuality
all individuals: 661
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variant carriers: 0

GenotypeQuality
all individuals: 775
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variant carriers: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 684
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6836
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11826
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7864
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6068
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 51480
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4712
num of homozygotes: 0

QD
type: SiteQuality
SIO_000300: 6.55e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

DP
type: SiteQuality
SIO_000300: 8.96443e5

MQRankSum
type: SiteQuality
SIO_000300: -3.06e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 8.68e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -7.1e-3

BaseQRankSum
type: SiteQuality
SIO_000300: 1.56e0

FS
type: SiteQuality
SIO_000300: 2.62e0

ClippingRankSum
type: SiteQuality
SIO_000300: -1.74e-1

VQSLOD
type: SiteQuality
SIO_000300: 1.82e-1

GenotypeQuality
all individuals: 529
bin: 7.25e1
variant carriers: 1

GenotypeQuality
all individuals: 2410
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 5636
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 8289
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variant carriers: 0

GenotypeQuality
all individuals: 2725
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GenotypeQuality
all individuals: 214
bin: 9.25e1
variant carriers: 0

GenotypeQuality
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GenotypeQuality
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bin: 8.75e1
variant carriers: 3

GenotypeQuality
all individuals: 2693
bin: 4.25e1
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GenotypeQuality
all individuals: 1329
bin: 6.75e1
variant carriers: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 672
num of homozygotes: 0

Latino
type: Population
allele count: 3
allele frequency: 4.594180704441041e-4
allele num: 6530
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4604
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7722
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 12
allele frequency: 2.378027030240577e-4
allele num: 50462
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11566
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5932
num of homozygotes: 0

DP
type: SiteQuality
SIO_000300: 8.90349e5

VQSLOD
type: SiteQuality
SIO_000300: 4.95e0

FS
type: SiteQuality
SIO_000300: 0.0e0

MQRankSum
type: SiteQuality
SIO_000300: 1.43e-1

QD
type: SiteQuality
SIO_000300: 1.102e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 3.4e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

ClippingRankSum
type: SiteQuality
SIO_000300: 1.5e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -8.399999999999999e-3

BaseQRankSum
type: SiteQuality
SIO_000300: -1.708e0

GenotypeQuality
all individuals: 2584
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1128
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variant carriers: 0

GenotypeQuality
all individuals: 528
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GenotypeQuality
all individuals: 2046
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GenotypeQuality
all individuals: 209
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GenotypeQuality
all individuals: 3628
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1079
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variant carriers: 0

GenotypeQuality
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bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 4599
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variant carriers: 0

GenotypeQuality
all individuals: 572
bin: 9.75e1
variant carriers: 1

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8258
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11034
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8168
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6214
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.632546445946387e-5
allele num: 61254
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9052
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 728
num of homozygotes: 0

QD
type: SiteQuality
SIO_000300: 4.59e0

ClippingRankSum
type: SiteQuality
SIO_000300: -6.94e-1

DP
type: SiteQuality
SIO_000300: 1.157896e6

MQRankSum
type: SiteQuality
SIO_000300: -1.929e0

FS
type: SiteQuality
SIO_000300: 0.0e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -3.1e-3

VQSLOD
type: SiteQuality
SIO_000300: -3.151e0

BaseQRankSum
type: SiteQuality
SIO_000300: 2.7e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 6.94e-1

MQ
type: SiteQuality
SIO_000300: 5.866e1

GenotypeQuality
all individuals: 1084
bin: 7.25e1
variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 572
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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: 1224
bin: 4.25e1
variant carriers: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 734
num of homozygotes: 0

Latino
type: Population
allele count: 1
allele frequency: 9.010632546404758e-5
allele num: 11098
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9134
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6302
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8234
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8420
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 61694
num of homozygotes: 0

InbreedingCoeff
type: SiteQuality
SIO_000300: -2.9e-3

ReadPosRankSum
type: SiteQuality
SIO_000300: 3.34e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

QD
type: SiteQuality
SIO_000300: 1.532e1

FS
type: SiteQuality
SIO_000300: 0.0e0

BaseQRankSum
type: SiteQuality
SIO_000300: -1.381e0

DP
type: SiteQuality
SIO_000300: 1.234861e6

VQSLOD
type: SiteQuality
SIO_000300: 7.14e-1

MQRankSum
type: SiteQuality
SIO_000300: 8.169999999999999e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 1.38e0

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
all individuals: 703
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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
all individuals: 1092
bin: 7.25e1
variant carriers: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11098
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8230
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8416
num of homozygotes: 0

African
type: Population
allele count: 4
allele frequency: 4.383081306158229e-4
allele num: 9126
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6302
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 736
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 61682
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: 2.22e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 2.4e-2

BaseQRankSum
type: SiteQuality
SIO_000300: 1.08e0

FS
type: SiteQuality
SIO_000300: 3.736e0

MQ
type: SiteQuality
SIO_000300: 5.978e1

DP
type: SiteQuality
SIO_000300: 1.239891e6

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.9e-3

QD
type: SiteQuality
SIO_000300: 1.349e1

ClippingRankSum
type: SiteQuality
SIO_000300: 9.4e-2

VQSLOD
type: SiteQuality
SIO_000300: 1.96e0

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
all individuals: 486
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variant carriers: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8238
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6302
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9142
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11118
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 4
allele frequency: 6.476264490641798e-5
allele num: 61764
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8454
num of homozygotes: 0

Other
type: Population
allele count: 1
allele frequency: 1.358695652173913e-3
allele num: 736
num of homozygotes: 0

ReadPosRankSum
type: SiteQuality
SIO_000300: 3.48e-1

DP
type: SiteQuality
SIO_000300: 1.254655e6

FS
type: SiteQuality
SIO_000300: 6.187e0

QD
type: SiteQuality
SIO_000300: 1.225e1

VQSLOD
type: SiteQuality
SIO_000300: 1.65e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

ClippingRankSum
type: SiteQuality
SIO_000300: 1.41e-1

MQRankSum
type: SiteQuality
SIO_000300: -5.8e-2

BaseQRankSum
type: SiteQuality
SIO_000300: -2.422e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 5.3e-3

GenotypeQuality
all individuals: 416
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2111
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GenotypeQuality
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GenotypeQuality
all individuals: 575
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variant carriers: 5

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 354
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GenotypeQuality
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GenotypeQuality
all individuals: 486
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GenotypeQuality
all individuals: 190
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variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 3
allele frequency: 4.826254826254826e-5
allele num: 62160
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11208
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 734
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8306
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6344
num of homozygotes: 0

African
type: Population
allele count: 2
allele frequency: 2.167786689789725e-4
allele num: 9226
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8638
num of homozygotes: 0

DP
type: SiteQuality
SIO_000300: 1.295425e6

QD
type: SiteQuality
SIO_000300: 9.800000000000001e0

ClippingRankSum
type: SiteQuality
SIO_000300: -8.8e-1

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

BaseQRankSum
type: SiteQuality
SIO_000300: -2.354e0

MQRankSum
type: SiteQuality
SIO_000300: 6.59e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.0e-3

ReadPosRankSum
type: SiteQuality
SIO_000300: 8.51e-1

MQ
type: SiteQuality
SIO_000300: 5.931e1

GenotypeQuality
all individuals: 158
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 4659
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1202
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 505
bin: 4.25e1
variant carriers: 1

GenotypeQuality
all individuals: 1139
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 193
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 996
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 191
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 573
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 545
bin: 4.75e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9238
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8308
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6354
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 2
allele frequency: 3.21429719391855e-5
allele num: 62222
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 738
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8674
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11214
num of homozygotes: 0

FS
type: SiteQuality
SIO_000300: 1.631e0

VQSLOD
type: SiteQuality
SIO_000300: 1.62e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 7.8e-2

MQRankSum
type: SiteQuality
SIO_000300: -1.64e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -1.17e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

DP
type: SiteQuality
SIO_000300: 1.302354e6

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.3e-3

ClippingRankSum
type: SiteQuality
SIO_000300: 1.17e-1

QD
type: SiteQuality
SIO_000300: 1.013e1

GenotypeQuality
all individuals: 1553
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 5306
bin: 6.75e1
variant carriers: 0

GenotypeQuality
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bin: 7.25e1
variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1007
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variant carriers: 0

GenotypeQuality
all individuals: 387
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 497
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variant carriers: 1

GenotypeQuality
all individuals: 193
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 38664
bin: 6.25e1
variant carriers: 0

Other
type: Population
allele count: 1
allele frequency: 1.340482573726542e-3
allele num: 746
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8326
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9262
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6372
num of homozygotes: 0

Latino
type: Population
allele count: 3
allele frequency: 2.668089647812167e-4
allele num: 11244
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 15
allele frequency: 2.404308520869398e-4
allele num: 62388
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 1.138952164009112e-4
allele num: 8780
num of homozygotes: 0

QD
type: SiteQuality
SIO_000300: 9.039999999999999e0

DP
type: SiteQuality
SIO_000300: 1.310685e6

ClippingRankSum
type: SiteQuality
SIO_000300: -7.35e-1

FS
type: SiteQuality
SIO_000300: 3.317e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -9.0e-4

MQRankSum
type: SiteQuality
SIO_000300: 2.59e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 4.81e-1

VQSLOD
type: SiteQuality
SIO_000300: 1.42e0

BaseQRankSum
type: SiteQuality
SIO_000300: -8.61e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

GenotypeQuality
all individuals: 221
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 567
bin: 9.75e1
variant carriers: 2

GenotypeQuality
all individuals: 198
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 309
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 336
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 5498
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variant carriers: 0

GenotypeQuality
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bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 363
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variant carriers: 0

GenotypeQuality
all individuals: 503
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 286
bin: 4.25e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 2
allele frequency: 3.182787485279608e-5
allele num: 62838
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 760
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8384
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9334
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9116
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11288
num of homozygotes: 0

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

VQSLOD
type: SiteQuality
SIO_000300: 5.74e-1

DP
type: SiteQuality
SIO_000300: 1.334374e6

MQRankSum
type: SiteQuality
SIO_000300: -5.89e-1

FS
type: SiteQuality
SIO_000300: 5.393e0

ClippingRankSum
type: SiteQuality
SIO_000300: -4.79e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

QD
type: SiteQuality
SIO_000300: 1.044e1

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.1e-3

BaseQRankSum
type: SiteQuality
SIO_000300: -2.022e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 6.61e-1

GenotypeQuality
all individuals: 677
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 565
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 198
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 222
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 252
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 158
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1273
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variant carriers: 0

GenotypeQuality
all individuals: 42154
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variant carriers: 0

GenotypeQuality
all individuals: 244
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variant carriers: 0

GenotypeQuality
all individuals: 501
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variant carriers: 0

GenotypeQuality
all individuals: 1045
bin: 7.75e1
variant carriers: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9682
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6444
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8456
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.575448215017173e-5
allele num: 63474
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11362
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9438
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 772
num of homozygotes: 0

FS
type: SiteQuality
SIO_000300: 6.701e0

ClippingRankSum
type: SiteQuality
SIO_000300: -4.91e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.44e-1

MQRankSum
type: SiteQuality
SIO_000300: -4.91e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -4.0e-4

QD
type: SiteQuality
SIO_000300: 1.14e1

BaseQRankSum
type: SiteQuality
SIO_000300: -2.685e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

DP
type: SiteQuality
SIO_000300: 1.36414e6

VQSLOD
type: SiteQuality
SIO_000300: 5.76e-1

GenotypeQuality
all individuals: 198
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 4389
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 5729
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 413
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 41921
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 269
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 680
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 441
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 505
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1288
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 203
bin: 4.25e1
variant carriers: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11374
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8466
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9818
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6462
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 774
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9446
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.572920598968164e-5
allele num: 63576
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: -4.41e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: -3.16e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

DP
type: SiteQuality
SIO_000300: 1.368594e6

BaseQRankSum
type: SiteQuality
SIO_000300: -1.306e0

ClippingRankSum
type: SiteQuality
SIO_000300: 3.44e-1

FS
type: SiteQuality
SIO_000300: 1.134e0

VQSLOD
type: SiteQuality
SIO_000300: -6.742e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -4.0e-4

QD
type: SiteQuality
SIO_000300: 6.92e0

GenotypeQuality
all individuals: 1289
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 741
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 195
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 190
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 239
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 566
bin: 9.75e1
variant carriers: 2

GenotypeQuality
all individuals: 274
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 196
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 404
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 241
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 5753
bin: 6.75e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.57035175879397e-5
allele num: 63680
num of homozygotes: 0

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

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10006
num of homozygotes: 0

East Asian
type: Population
allele count: 1
allele frequency: 1.180080245456691e-4
allele num: 8474
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9452
num of homozygotes: 0

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

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6462
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: -1.1e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 0.0e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.51e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

ClippingRankSum
type: SiteQuality
SIO_000300: 2.48e-1

QD
type: SiteQuality
SIO_000300: 1.093e1

FS
type: SiteQuality
SIO_000300: 1.3615e1

DP
type: SiteQuality
SIO_000300: 1.371527e6

BaseQRankSum
type: SiteQuality
SIO_000300: 1.55e0

VQSLOD
type: SiteQuality
SIO_000300: -2.117e0

GenotypeQuality
all individuals: 224
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 675
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 5801
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 168
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 42582
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 353
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variant carriers: 0

GenotypeQuality
all individuals: 508
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 564
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variant carriers: 2

GenotypeQuality
all individuals: 702
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 425
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 240
bin: 4.75e1
variant carriers: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8482
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 788
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6480
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 2
allele frequency: 3.137156481365291e-5
allele num: 63752
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11382
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10138
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9460
num of homozygotes: 0

QD
type: SiteQuality
SIO_000300: 1.159e1

MQRankSum
type: SiteQuality
SIO_000300: 1.3e0

ClippingRankSum
type: SiteQuality
SIO_000300: -9.5e-2

BaseQRankSum
type: SiteQuality
SIO_000300: -3.76e-1

MQ
type: SiteQuality
SIO_000300: 5.97e1

VQSLOD
type: SiteQuality
SIO_000300: 5.629999999999999e-1

FS
type: SiteQuality
SIO_000300: 1.293e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 4.0e-4

DP
type: SiteQuality
SIO_000300: 1.374052e6

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.47e0

GenotypeQuality
all individuals: 651
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 191
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 190
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1102
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 557
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variant carriers: 0

GenotypeQuality
all individuals: 5850
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 43063
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variant carriers: 0

GenotypeQuality
all individuals: 254
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 500
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 200
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 600
bin: 2.75e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9506
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 802
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11398
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10674
num of homozygotes: 0

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

East Asian
type: Population
allele count: 1
allele frequency: 1.176193836744295e-4
allele num: 8502
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 64014
num of homozygotes: 0

QD
type: SiteQuality
SIO_000300: 1.232e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 4.0e-4

FS
type: SiteQuality
SIO_000300: 0.0e0

MQRankSum
type: SiteQuality
SIO_000300: -4.36e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 1.13e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 2.44e-1

DP
type: SiteQuality
SIO_000300: 1.386987e6

VQSLOD
type: SiteQuality
SIO_000300: 7.73e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 4.67e-1

MQ
type: SiteQuality
SIO_000300: 5.94e1

GenotypeQuality
all individuals: 129
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 191
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1104
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 4201
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 76
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 504
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variant carriers: 0

GenotypeQuality
all individuals: 227
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 546
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variant carriers: 0

GenotypeQuality
all individuals: 1306
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 43712
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 147
bin: 4.25e1
variant carriers: 0

South Asian
type: Population
allele count: 1
allele frequency: 8.979885057471264e-5
allele num: 11136
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11416
num of homozygotes: 0

African
type: Population
allele count: 1
allele frequency: 1.047339757017176e-4
allele num: 9548
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.557001837262168e-5
allele num: 64226
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8522
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6522
num of homozygotes: 0

Other
type: Population
allele count: 1
allele frequency: 1.234567901234568e-3
allele num: 810
num of homozygotes: 0

DP
type: SiteQuality
SIO_000300: 1.395154e6

VQSLOD
type: SiteQuality
SIO_000300: 4.94e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: -1.95e-1

FS
type: SiteQuality
SIO_000300: 3.151e0

MQ
type: SiteQuality
SIO_000300: 5.937e1

ClippingRankSum
type: SiteQuality
SIO_000300: 0.0e0

QD
type: SiteQuality
SIO_000300: 1.075e1

MQRankSum
type: SiteQuality
SIO_000300: -5.44e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 4.93e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.0e-3

GenotypeQuality
all individuals: 197
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1316
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1106
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 64
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 553
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variant carriers: 0

GenotypeQuality
all individuals: 5978
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variant carriers: 0

GenotypeQuality
all individuals: 215
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 399
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 562
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variant carriers: 1

GenotypeQuality
all individuals: 399
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 43674
bin: 6.25e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9592
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 828
num of homozygotes: 0

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

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.546264225630876e-5
allele num: 64672
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6538
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 12168
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8546
num of homozygotes: 0

DP
type: SiteQuality
SIO_000300: 1.409947e6

ReadPosRankSum
type: SiteQuality
SIO_000300: 2.39e0

MQ
type: SiteQuality
SIO_000300: 5.893e1

BaseQRankSum
type: SiteQuality
SIO_000300: 6.44e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -2.558e0

MQRankSum
type: SiteQuality
SIO_000300: 4.79e-1

VQSLOD
type: SiteQuality
SIO_000300: -7.985e-1

FS
type: SiteQuality
SIO_000300: 0.0e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 3.4e-3

QD
type: SiteQuality
SIO_000300: 1.247e1

GenotypeQuality
all individuals: 2198
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 457
bin: 3.75e1
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GenotypeQuality
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GenotypeQuality
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bin: 2.5e0
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GenotypeQuality
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GenotypeQuality
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bin: 9.75e1
variant carriers: 1

GenotypeQuality
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GenotypeQuality
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bin: 6.25e1
variant carriers: 0

GenotypeQuality
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bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 6056
bin: 6.75e1
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GenotypeQuality
all individuals: 289
bin: 4.25e1
variant carriers: 1

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6534
num of homozygotes: 0

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

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8562
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9648
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.527557130636686e-5
allele num: 65464
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 7.028394714647174e-5
allele num: 14228
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 858
num of homozygotes: 0

InbreedingCoeff
type: SiteQuality
SIO_000300: 4.0e-3

MQRankSum
type: SiteQuality
SIO_000300: -3.11e-1

QD
type: SiteQuality
SIO_000300: 4.72e0

ReadPosRankSum
type: SiteQuality
SIO_000300: -3.3e-2

FS
type: SiteQuality
SIO_000300: 2.379e0

BaseQRankSum
type: SiteQuality
SIO_000300: -7.33e-1

MQ
type: SiteQuality
SIO_000300: 5.911e1

VQSLOD
type: SiteQuality
SIO_000300: -2.161e0

DP
type: SiteQuality
SIO_000300: 1.441069e6

ClippingRankSum
type: SiteQuality
SIO_000300: 2.57e-1

GenotypeQuality
all individuals: 456
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 510
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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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bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 196
bin: 9.25e1
variant carriers: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8562
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 14228
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: 858
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9648
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.527557130636686e-5
allele num: 65464
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6534
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 5.911e1

BaseQRankSum
type: SiteQuality
SIO_000300: -7.33e-1

DP
type: SiteQuality
SIO_000300: 1.441069e6

FS
type: SiteQuality
SIO_000300: 2.379e0

VQSLOD
type: SiteQuality
SIO_000300: -2.161e0

ClippingRankSum
type: SiteQuality
SIO_000300: 2.57e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 4.0e-3

MQRankSum
type: SiteQuality
SIO_000300: -3.11e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: -3.3e-2

QD
type: SiteQuality
SIO_000300: 4.72e0

GenotypeQuality
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bin: 7.5e0
variant carriers: 0

GenotypeQuality
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bin: 3.75e1
variant carriers: 0

GenotypeQuality
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GenotypeQuality
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bin: 2.5e0
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GenotypeQuality
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GenotypeQuality
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bin: 5.25e1
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: 0

GenotypeQuality
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bin: 9.75e1
variant carriers: 1

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 14374
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.526344709689236e-5
allele num: 65516
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11494
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9660
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: 8566
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 856
num of homozygotes: 0

ReadPosRankSum
type: SiteQuality
SIO_000300: 4.06e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.8e-3

VQSLOD
type: SiteQuality
SIO_000300: -6.279e-1

DP
type: SiteQuality
SIO_000300: 1.442645e6

ClippingRankSum
type: SiteQuality
SIO_000300: -9.409999999999999e-1

MQRankSum
type: SiteQuality
SIO_000300: 1.32e0

FS
type: SiteQuality
SIO_000300: 6.789e0

BaseQRankSum
type: SiteQuality
SIO_000300: -3.28e-1

MQ
type: SiteQuality
SIO_000300: 5.937e1

QD
type: SiteQuality
SIO_000300: 8.550000000000001e0

GenotypeQuality
all individuals: 20
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 478
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
all individuals: 190
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variant carriers: 0

GenotypeQuality
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bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 6112
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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: 194
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 263
bin: 4.25e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.520357588104722e-5
allele num: 65774
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9670
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8562
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 15132
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 866
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11502
num of homozygotes: 0

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

InbreedingCoeff
type: SiteQuality
SIO_000300: 3.0e-4

ClippingRankSum
type: SiteQuality
SIO_000300: -9.9e-2

DP
type: SiteQuality
SIO_000300: 1.453813e6

BaseQRankSum
type: SiteQuality
SIO_000300: 4.23e0

MQ
type: SiteQuality
SIO_000300: 5.965e1

MQRankSum
type: SiteQuality
SIO_000300: 1.27e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 5.29e-1

FS
type: SiteQuality
SIO_000300: 1.996e0

VQSLOD
type: SiteQuality
SIO_000300: -9.831e-1

QD
type: SiteQuality
SIO_000300: 1.911e1

GenotypeQuality
all individuals: 420
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1665
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 505
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variant carriers: 0

GenotypeQuality
all individuals: 6134
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variant carriers: 0

GenotypeQuality
all individuals: 459
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GenotypeQuality
all individuals: 1311
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variant carriers: 0

GenotypeQuality
all individuals: 437
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GenotypeQuality
all individuals: 46081
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
all individuals: 1105
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variant carriers: 0

GenotypeQuality
all individuals: 193
bin: 9.25e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 65814
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 6.588483331137172e-5
allele num: 15178
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 868
num of homozygotes: 0

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

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11500
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9680
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8564
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 5.298e1

ClippingRankSum
type: SiteQuality
SIO_000300: -2.95e-1

QD
type: SiteQuality
SIO_000300: 4.97e0

MQRankSum
type: SiteQuality
SIO_000300: -1.12e0

ReadPosRankSum
type: SiteQuality
SIO_000300: -2.95e-1

FS
type: SiteQuality
SIO_000300: 2.187e0

VQSLOD
type: SiteQuality
SIO_000300: -1.658e0

DP
type: SiteQuality
SIO_000300: 1.454529e6

BaseQRankSum
type: SiteQuality
SIO_000300: 2.95e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 4.0e-4

GenotypeQuality
all individuals: 562
bin: 9.75e1
variant carriers: 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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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
all individuals: 191
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variant carriers: 0

GenotypeQuality
all individuals: 427
bin: 3.25e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9682
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 872
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6516
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 65832
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 15358
num of homozygotes: 0

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

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

BaseQRankSum
type: SiteQuality
SIO_000300: -4.088e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 7.31e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -1.03e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

MQRankSum
type: SiteQuality
SIO_000300: 8.0e-2

FS
type: SiteQuality
SIO_000300: 2.482e0

QD
type: SiteQuality
SIO_000300: 9.279999999999999e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.8e-3

VQSLOD
type: SiteQuality
SIO_000300: 6.23e-1

DP
type: SiteQuality
SIO_000300: 1.456064e6

GenotypeQuality
all individuals: 27
bin: 1.75e1
variant carriers: 0

GenotypeQuality
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bin: 2.25e1
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: 1

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
all individuals: 251
bin: 4.25e1
variant carriers: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11502
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 15358
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6516
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9682
num of homozygotes: 0

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

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 872
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.519018106695832e-5
allele num: 65832
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: 6.23e-1

FS
type: SiteQuality
SIO_000300: 2.482e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.8e-3

DP
type: SiteQuality
SIO_000300: 1.456064e6

MQRankSum
type: SiteQuality
SIO_000300: 8.0e-2

ReadPosRankSum
type: SiteQuality
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QD
type: SiteQuality
SIO_000300: 9.279999999999999e0

BaseQRankSum
type: SiteQuality
SIO_000300: -4.088e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

ClippingRankSum
type: SiteQuality
SIO_000300: -1.03e-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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variant carriers: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 15402
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.51828009231143e-5
allele num: 65864
num of homozygotes: 0

European (Finnish)
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allele count: 0
allele frequency: 0.0e0
allele num: 6500
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8560
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11502
num of homozygotes: 0

African
type: Population
allele count: 0
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allele num: 9682
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Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 872
num of homozygotes: 0

DP
type: SiteQuality
SIO_000300: 1.456209e6

InbreedingCoeff
type: SiteQuality
SIO_000300: 5.0e-4

ReadPosRankSum
type: SiteQuality
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FS
type: SiteQuality
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MQ
type: SiteQuality
SIO_000300: 5.967e1

QD
type: SiteQuality
SIO_000300: 1.41e1

VQSLOD
type: SiteQuality
SIO_000300: 8.68e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 1.31e-1

MQRankSum
type: SiteQuality
SIO_000300: -3.3e-2

ClippingRankSum
type: SiteQuality
SIO_000300: -1.263e0

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: 28

GenotypeQuality
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GenotypeQuality
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bin: 7.75e1
variant carriers: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 15456
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
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Other
type: Population
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allele num: 872
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East Asian
type: Population
allele count: 1
allele frequency: 1.16795141322121e-4
allele num: 8562
num of homozygotes: 0

Latino
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allele count: 0
allele frequency: 0.0e0
allele num: 11504
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European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6500
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 27
allele frequency: 4.099605223200729e-4
allele num: 65860
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 6.0e1

ClippingRankSum
type: SiteQuality
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QD
type: SiteQuality
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InbreedingCoeff
type: SiteQuality
SIO_000300: -2.0e-4

FS
type: SiteQuality
SIO_000300: 5.23e-1

MQRankSum
type: SiteQuality
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DP
type: SiteQuality
SIO_000300: 1.457685e6

VQSLOD
type: SiteQuality
SIO_000300: 2.96e0

BaseQRankSum
type: SiteQuality
SIO_000300: -1.3e-2

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.18e-1

GenotypeQuality
all individuals: 32
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 169
bin: 7.5e0
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GenotypeQuality
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bin: 6.75e1
variant carriers: 0

GenotypeQuality
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bin: 8.75e1
variant carriers: 0

GenotypeQuality
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bin: 5.25e1
variant carriers: 0

GenotypeQuality
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bin: 3.75e1
variant carriers: 0

GenotypeQuality
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bin: 7.25e1
variant carriers: 0

GenotypeQuality
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bin: 9.75e1
variant carriers: 1

GenotypeQuality
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bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 599
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1087
bin: 7.75e1
variant carriers: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11494
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9688
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 15482
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6500
num of homozygotes: 0

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

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8562
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.518372304889159e-5
allele num: 65860
num of homozygotes: 0

QD
type: SiteQuality
SIO_000300: 1.441e1

DP
type: SiteQuality
SIO_000300: 1.457963e6

ClippingRankSum
type: SiteQuality
SIO_000300: -4.13e-1

MQRankSum
type: SiteQuality
SIO_000300: 6.929999999999999e-1

FS
type: SiteQuality
SIO_000300: 0.0e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.55e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 4.0e-4

BaseQRankSum
type: SiteQuality
SIO_000300: -1.107e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

VQSLOD
type: SiteQuality
SIO_000300: 1.89e0

GenotypeQuality
all individuals: 450
bin: 3.75e1
variant carriers: 0

GenotypeQuality
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bin: 3.25e1
variant carriers: 0

GenotypeQuality
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GenotypeQuality
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bin: 1.25e1
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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bin: 6.25e1
variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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bin: 9.75e1
variant carriers: 1

GenotypeQuality
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bin: 4.75e1
variant carriers: 0

GenotypeQuality
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bin: 5.25e1
variant carriers: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 15512
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9696
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6500
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.517634917744187e-5
allele num: 65892
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8568
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11494
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 872
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: -1.664e-1

QD
type: SiteQuality
SIO_000300: 1.188e1

FS
type: SiteQuality
SIO_000300: 1.446e0

MQ
type: SiteQuality
SIO_000300: 5.95e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 4.0e-4

ReadPosRankSum
type: SiteQuality
SIO_000300: -1.103e0

DP
type: SiteQuality
SIO_000300: 1.458788e6

MQRankSum
type: SiteQuality
SIO_000300: -1.15e0

ClippingRankSum
type: SiteQuality
SIO_000300: 1.12e0

BaseQRankSum
type: SiteQuality
SIO_000300: -1.488e0

GenotypeQuality
all individuals: 6072
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 440
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variant carriers: 0

GenotypeQuality
all individuals: 179
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GenotypeQuality
all individuals: 25
bin: 2.5e0
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GenotypeQuality
all individuals: 271
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variant carriers: 0

GenotypeQuality
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bin: 2.25e1
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: 516
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variant carriers: 0

GenotypeQuality
all individuals: 191
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 482
bin: 8.25e1
variant carriers: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 15524
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9690
num of homozygotes: 0

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

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

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11500
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8554
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.517404631118934e-5
allele num: 65902
num of homozygotes: 0

ClippingRankSum
type: SiteQuality
SIO_000300: 3.7e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 3.36e0

MQRankSum
type: SiteQuality
SIO_000300: -1.67e-1

QD
type: SiteQuality
SIO_000300: 2.308e1

VQSLOD
type: SiteQuality
SIO_000300: -1.004e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 4.17e-1

FS
type: SiteQuality
SIO_000300: 4.437e0

DP
type: SiteQuality
SIO_000300: 1.460618e6

InbreedingCoeff
type: SiteQuality
SIO_000300: 0.0e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

GenotypeQuality
all individuals: 46178
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 23
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1092
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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bin: 4.25e1
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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: 561
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variant carriers: 1

GenotypeQuality
all individuals: 190
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 483
bin: 8.25e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 65890
num of homozygotes: 0

East Asian
type: Population
allele count: 1
allele frequency: 1.16795141322121e-4
allele num: 8562
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11498
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9692
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6500
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 15552
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 872
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: -1.494e0

BaseQRankSum
type: SiteQuality
SIO_000300: -9.67e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -4.5e-1

DP
type: SiteQuality
SIO_000300: 1.461057e6

MQ
type: SiteQuality
SIO_000300: 6.0e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 0.0e0

FS
type: SiteQuality
SIO_000300: 1.1988e1

MQRankSum
type: SiteQuality
SIO_000300: -3.65e-1

QD
type: SiteQuality
SIO_000300: 1.118e1

ReadPosRankSum
type: SiteQuality
SIO_000300: -1.56e-1

GenotypeQuality
all individuals: 363
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 448
bin: 3.25e1
variant carriers: 0

GenotypeQuality
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bin: 5.25e1
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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variant carriers: 0

GenotypeQuality
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bin: 2.75e1
variant carriers: 1

GenotypeQuality
all individuals: 45592
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variant carriers: 0

GenotypeQuality
all individuals: 189
bin: 9.25e1
variant carriers: 0

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

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 15524
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6492
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.518372304889159e-5
allele num: 65860
num of homozygotes: 0

East Asian
type: Population
allele count: 1
allele frequency: 1.168497312456181e-4
allele num: 8558
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11498
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9684
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 6.0e1

FS
type: SiteQuality
SIO_000300: 1.5882e1

ClippingRankSum
type: SiteQuality
SIO_000300: 6.73e-1

DP
type: SiteQuality
SIO_000300: 1.458842e6

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.56e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -1.155e0

VQSLOD
type: SiteQuality
SIO_000300: -2.119e0

MQRankSum
type: SiteQuality
SIO_000300: 1.35e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.0e-4

QD
type: SiteQuality
SIO_000300: 1.139e1

GenotypeQuality
all individuals: 17
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 1300
bin: 7.25e1
variant carriers: 0

GenotypeQuality
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GenotypeQuality
all individuals: 1754
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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: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
all individuals: 584
bin: 5.25e1
variant carriers: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11496
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 65880
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9684
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8552
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 15518
num of homozygotes: 0

Other
type: Population
allele count: 1
allele frequency: 1.146788990825688e-3
allele num: 872
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6490
num of homozygotes: 0

DP
type: SiteQuality
SIO_000300: 1.458239e6

BaseQRankSum
type: SiteQuality
SIO_000300: 9.96e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 7.92e-1

VQSLOD
type: SiteQuality
SIO_000300: -2.083e0

MQRankSum
type: SiteQuality
SIO_000300: 1.9e0

MQ
type: SiteQuality
SIO_000300: 5.871e1

FS
type: SiteQuality
SIO_000300: 1.3048e1

QD
type: SiteQuality
SIO_000300: 1.021e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 9.0e-4

ClippingRankSum
type: SiteQuality
SIO_000300: -3.96e-1

GenotypeQuality
all individuals: 1319
bin: 7.25e1
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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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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variant carriers: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 15444
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6468
num of homozygotes: 0

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

East Asian
type: Population
allele count: 3
allele frequency: 3.507951356407858e-4
allele num: 8552
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 65830
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9656
num of homozygotes: 0

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

FS
type: SiteQuality
SIO_000300: 3.303e0

ReadPosRankSum
type: SiteQuality
SIO_000300: -1.87e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -2.0e-4

VQSLOD
type: SiteQuality
SIO_000300: -1.645e0

ClippingRankSum
type: SiteQuality
SIO_000300: 4.1e-1

DP
type: SiteQuality
SIO_000300: 1.456027e6

MQ
type: SiteQuality
SIO_000300: 5.845e1

BaseQRankSum
type: SiteQuality
SIO_000300: -3.788e0

MQRankSum
type: SiteQuality
SIO_000300: 6.03e-1

QD
type: SiteQuality
SIO_000300: 1.058e1