X-123196892-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123196892
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123196892
    reference: chr 0
allele count: 8
allele frequency: 9.394964299135663e-5
allele num: 85152
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1731+48T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000471107
  gene symbol: STAG2
  hgvsc: ENST00000471107.1:n.619+48T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1524+48T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.639+48T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1731+48T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1731+48T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1731+48T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+59295T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1731+48T>C
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 359
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 244
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6681
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1946
  bin: 7.5e0
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 14396
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1037
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 192
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 578
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8965
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 759
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3973
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2500
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1609
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 376
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 470
  bin: 6.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 9593
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 295
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5764
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 180
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 780
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 11273
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 95
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 283
  bin: 1.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 2030
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4074
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4173
  bin: 3.75e1
  variant carriers: 0
num of homozygotes: 1
population: South Asian
population: African
population: Other
population: European (Non-Finnish)
population: European (Finnish)
population: Latino
population: East Asian
reference allele: T
site quality: ReadPosRankSum
site quality: ClippingRankSum
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: DP
site quality: FS
site quality: MQRankSum
site quality: VQSLOD
site quality: QD
site quality: MQ

X-123196918-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123196918
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123196918
    reference: chr 0
allele count: 1
allele frequency: 1.209599380685117e-5
allele num: 82672
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1732-48A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1732-48A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1732-48A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1732-48A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1732-48A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+59321A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000471107
  gene symbol: STAG2
  hgvsc: ENST00000471107.1:n.620-48A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1525-48A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.640-48A>G
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 578
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 303
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11841
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 360
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 271
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4224
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 553
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16186
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 166
  bin: 6.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 5261
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 418
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 205
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 155
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9435
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 107
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9256
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 98
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1112
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 387
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2520
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4443
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 192
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6125
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4172
  bin: 3.25e1
  variant carriers: 0
num of homozygotes: 0
population: South Asian
population: East Asian
population: European (Finnish)
population: Latino
population: Other
population: African
population: European (Non-Finnish)
reference allele: A
site quality: MQRankSum
site quality: DP
site quality: QD
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: MQ
site quality: ReadPosRankSum
site quality: FS
site quality: ClippingRankSum
site quality: VQSLOD

X-123196927-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123196927
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123196927
    reference: chr 0
allele count: 1
allele frequency: 1.211680600993578e-5
allele num: 82530
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000471107
  gene symbol: STAG2
  hgvsc: ENST00000471107.1:n.620-39T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1732-39T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1732-39T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1732-39T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1525-39T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1732-39T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+59330T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.640-39T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1732-39T>C
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 4406
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 98
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 418
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 351
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 270
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 15954
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 578
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 155
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9177
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  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 546
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  variant carriers: 0
genotype depth: GenotypeDepth
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  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
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  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 107
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 303
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 205
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8468
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 165
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1085
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1883
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4181
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 480
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
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  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 68
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1360
  bin: 5.25e1
  variant carriers: 0
num of homozygotes: 0
population: South Asian
population: European (Non-Finnish)
population: Other
population: African
population: Latino
population: East Asian
population: European (Finnish)
reference allele: T
site quality: InbreedingCoeff
site quality: DP
site quality: ClippingRankSum
site quality: VQSLOD
site quality: MQ
site quality: ReadPosRankSum
site quality: FS
site quality: MQRankSum
site quality: BaseQRankSum
site quality: QD

X-123196930-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123196930
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123196930
    reference: chr 0
allele count: 5
allele frequency: 6.064869847893065e-5
allele num: 82442
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+59333T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1732-36T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1732-36T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1732-36T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.640-36T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000471107
  gene symbol: STAG2
  hgvsc: ENST00000471107.1:n.620-36T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1732-36T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1732-36T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1525-36T>C
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 9072
  bin: 1.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 4471
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1081
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 303
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 165
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7984
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 98
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 205
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13733
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 419
  bin: 4.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 15924
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 332
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 155
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 544
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 578
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 270
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 107
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5090
  bin: 3.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 26010
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4166
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2350
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3934
  bin: 3.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 294
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1424
  bin: 5.25e1
  variant carriers: 0
num of homozygotes: 0
population: South Asian
population: European (Finnish)
population: African
population: East Asian
population: Other
population: Latino
population: European (Non-Finnish)
reference allele: T
site quality: ClippingRankSum
site quality: FS
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: MQ
site quality: DP
site quality: VQSLOD
site quality: MQRankSum
site quality: BaseQRankSum
site quality: QD

X-123196933-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123196933
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123196933
    reference: chr 0
allele count: 14
allele frequency: 1.697525250688104e-4
allele num: 82473
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1732-33T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1732-33T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1525-33T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000471107
  gene symbol: STAG2
  hgvsc: ENST00000471107.1:n.620-33T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1732-33T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.640-33T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1732-33T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+59336T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1732-33T>C
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 7119
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8907
  bin: 1.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 14656
  bin: 2.25e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 165
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 419
  bin: 4.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 155
  bin: 7.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 545
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 303
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4477
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 315
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 205
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 107
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16050
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1080
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 97
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 270
  bin: 5.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 579
  bin: 9.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 5084
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1907
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 59
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 339
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1619
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 944
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 360
  bin: 7.5e0
  variant carriers: 0
num of homozygotes: 0
population: East Asian
population: Latino
population: Other
population: European (Non-Finnish)
population: South Asian
population: African
population: European (Finnish)
reference allele: T
site quality: QD
site quality: FS
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: VQSLOD
site quality: MQRankSum
site quality: DP
site quality: MQ
site quality: ClippingRankSum
site quality: InbreedingCoeff

X-123196935-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123196935
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123196935
    reference: chr 0
allele count: 1
allele frequency: 1.211754013935171e-5
allele num: 82525
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1732-31A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1525-31A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000471107
  gene symbol: STAG2
  hgvsc: ENST00000471107.1:n.620-31A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.640-31A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1732-31A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1732-31A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1732-31A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+59338A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1732-31A>G
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 8761
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 206
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 304
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4500
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16091
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6757
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 15130
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 267
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 303
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1078
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 97
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 154
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5075
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 544
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 165
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 418
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 577
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 107
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 28612
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1511
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 51
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 295
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 555
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3549
  bin: 3.75e1
  variant carriers: 0
num of homozygotes: 0
population: African
population: South Asian
population: East Asian
population: Latino
population: Other
population: European (Finnish)
population: European (Non-Finnish)
reference allele: A
site quality: VQSLOD
site quality: MQ
site quality: FS
site quality: InbreedingCoeff
site quality: DP
site quality: QD

X-123196944-A-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123196944
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123196944
    reference: chr 0
allele count: 1
allele frequency: 1.211078950236766e-5
allele num: 82571
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1732-22A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1525-22A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.640-22A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+59347A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000471107
  gene symbol: STAG2
  hgvsc: ENST00000471107.1:n.620-22A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1732-22A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1732-22A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1732-22A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1732-22A>C
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: VQSRTrancheSNP99.60to99.80
genotype depth: GenotypeDepth
  all individuals: 417
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5047
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 154
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 107
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7912
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 267
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 230
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 165
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1076
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4514
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5089
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 303
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17455
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 543
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 577
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 97
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16375
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 206
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 295
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 422
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1084
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2182
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1219
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4168
  bin: 6.75e1
  variant carriers: 0
num of homozygotes: 0
population: European (Finnish)
population: European (Non-Finnish)
population: South Asian
population: African
population: East Asian
population: Latino
population: Other
reference allele: A
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: MQRankSum
site quality: MQ
site quality: QD
site quality: DP
site quality: InbreedingCoeff
site quality: FS
site quality: VQSLOD

X-123196945-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123196945
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123196945
    reference: chr 0
allele count: 2
allele frequency: 2.424771465289396e-5
allele num: 82482
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1732-21C>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.640-21C>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1732-21C>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1732-21C>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1732-21C>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1525-21C>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+59348C>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1732-21C>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000471107
  gene symbol: STAG2
  hgvsc: ENST00000471107.1:n.620-21C>T
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 165
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 154
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7757
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17723
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16441
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5112
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 225
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4865
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 206
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 549
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 577
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4488
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 108
  bin: 7.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 303
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 267
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1082
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 417
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 184
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2784
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 295
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 294
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 90
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6616
  bin: 2.25e1
  variant carriers: 0
num of homozygotes: 0
population: East Asian
population: Latino
population: African
population: South Asian
population: European (Non-Finnish)
population: European (Finnish)
population: Other
reference allele: C
site quality: MQ
site quality: FS
site quality: VQSLOD
site quality: QD
site quality: ClippingRankSum
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: DP
site quality: ReadPosRankSum

X-123196946-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123196946
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123196946
    reference: chr 0
allele count: 2
allele frequency: 2.421248880172393e-5
allele num: 82602
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1732-20G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1732-20G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000471107
  gene symbol: STAG2
  hgvsc: ENST00000471107.1:n.620-20G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1732-20G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1732-20G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+59349G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1732-20G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.640-20G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1525-20G>A
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 211
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4467
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7552
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1080
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 303
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4616
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 165
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16541
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18126
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5103
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 107
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 154
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 577
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 206
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 418
  bin: 4.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 267
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 546
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 545
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 740
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 275
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 166
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 900
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 32252
  bin: 6.25e1
  variant carriers: 0
num of homozygotes: 0
population: European (Finnish)
population: South Asian
population: African
population: European (Non-Finnish)
population: Other
population: East Asian
population: Latino
reference allele: G
site quality: ClippingRankSum
site quality: DP
site quality: MQ
site quality: FS
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: BaseQRankSum
site quality: VQSLOD
site quality: QD

X-123196948-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123196948
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123196948
    reference: chr 0
allele count: 1
allele frequency: 1.20918984280532e-5
allele num: 82700
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000471107
  gene symbol: STAG2
  hgvsc: ENST00000471107.1:n.620-18G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1525-18G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1732-18G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1732-18G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1732-18G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1732-18G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+59351G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.640-18G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1732-18G>A
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 5122
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18766
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 165
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4249
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 206
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 303
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 107
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4453
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16619
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 199
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 154
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 419
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 545
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 577
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1074
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7217
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 267
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 191
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 140
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 706
  bin: 5.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 2370
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 887
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 383
  bin: 5.75e1
  variant carriers: 0
num of homozygotes: 0
population: East Asian
population: European (Finnish)
population: South Asian
population: Latino
population: African
population: Other
population: European (Non-Finnish)
reference allele: G
site quality: QD
site quality: DP
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: FS
site quality: MQ

X-123196949-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123196949
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123196949
    reference: chr 0
allele count: 32
allele frequency: 3.866602223296278e-4
allele num: 82760
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000471107
  gene symbol: STAG2
  hgvsc: ENST00000471107.1:n.620-17A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1732-17A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1732-17A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1732-17A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1525-17A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+59352A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1732-17A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1732-17A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.640-17A>G
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 19030
  bin: 2.25e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 190
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16672
  bin: 2.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 417
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 107
  bin: 7.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 549
  bin: 4.25e1
  variant carriers: 6
genotype depth: GenotypeDepth
  all individuals: 305
  bin: 5.25e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 1073
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4112
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 4443
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7086
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5087
  bin: 3.25e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 266
  bin: 5.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 578
  bin: 9.75e1
  variant carriers: 5
genotype depth: GenotypeDepth
  all individuals: 165
  bin: 6.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 157
  bin: 7.25e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 80
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 206
  bin: 6.25e1
  variant carriers: 2
genotype quality: GenotypeQuality
  all individuals: 989
  bin: 7.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 175
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 220
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2280
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 33
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1944
  bin: 2.75e1
  variant carriers: 0
num of homozygotes: 0
population: East Asian
population: European (Finnish)
population: European (Non-Finnish)
population: African
population: South Asian
population: Latino
population: Other
reference allele: A
site quality: QD
site quality: MQ
site quality: InbreedingCoeff
site quality: FS
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: ClippingRankSum
site quality: VQSLOD
site quality: BaseQRankSum
site quality: DP

X-123196957-A-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123196957
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123196957
    reference: chr 0
allele count: 2
allele frequency: 2.410655095522208e-5
allele num: 82965
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1732-9A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1732-9A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000471107
  gene symbol: STAG2
  hgvsc: ENST00000471107.1:n.620-9A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1732-9A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+59360A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1732-9A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1732-9A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1525-9A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.640-9A>C
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 156
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 303
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 418
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20964
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 106
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16947
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 543
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 575
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1072
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 265
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3150
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 205
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 155
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5098
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6026
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4296
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 80
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 164
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 806
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 31
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 978
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 180
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4275
  bin: 6.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 35541
  bin: 6.25e1
  variant carriers: 0
num of homozygotes: 0
population: Latino
population: South Asian
population: East Asian
population: European (Non-Finnish)
population: Other
population: European (Finnish)
population: African
reference allele: A
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: MQ
site quality: BaseQRankSum
site quality: VQSLOD
site quality: ClippingRankSum
site quality: FS
site quality: QD
site quality: DP
site quality: ReadPosRankSum

X-123196963-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123196963
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123196963
    reference: chr 0
allele count: 5
allele frequency: 6.013735371588709e-5
allele num: 83143
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000471107
  gene symbol: STAG2
  hgvsc: ENST00000471107.1:n.620-3C>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1732-3C>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1732-3C>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1525-3C>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1732-3C>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1732-3C>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1732-3C>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+59366C>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.640-3C>T
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: splice region
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 4082
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 135
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22115
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 80
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1071
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17277
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 154
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 545
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 206
  bin: 6.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 5165
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 5270
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 303
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 265
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2589
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 420
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 164
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 576
  bin: 9.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 106
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 553
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5992
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2050
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 292
  bin: 9.25e1
  variant carriers: 1
hgvs: c.1732-3C>T
num of homozygotes: 0
population: African
population: European (Finnish)
population: East Asian
population: Other
population: South Asian
population: Latino
population: European (Non-Finnish)
reference allele: C
site quality: VQSLOD
site quality: MQ
site quality: ReadPosRankSum
site quality: ClippingRankSum
site quality: FS
site quality: QD
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: BaseQRankSum
site quality: DP

X-123196968-C-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123196968
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123196968
    reference: chr 0
allele count: 1
allele frequency: 1.199256460994184e-5
allele num: 83385
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.642C>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: stop_gained
  consequence: splice_region_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1734C>G
  hgvsp: ENSP00000360186.3:p.Tyr578Ter
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000471107
  gene symbol: STAG2
  hgvsc: ENST00000471107.1:n.622C>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: stop_gained
  consequence: splice_region_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1734C>G
  hgvsp: ENSP00000218089.9:p.Tyr578Ter
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: stop_gained
  consequence: splice_region_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1527C>G
  hgvsp: ENSP00000346555.5:p.Tyr509Ter
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: stop_gained
  consequence: splice_region_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1734C>G
  hgvsp: ENSP00000360187.3:p.Tyr578Ter
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: stop_gained
  consequence: splice_region_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1734C>G
  hgvsp: ENSP00000360202.1:p.Tyr578Ter
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: stop_gained
  consequence: splice_region_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1734C>G
  hgvsp: ENSP00000360199.3:p.Tyr578Ter
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+59371C>G
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: stop gained
filter: VQSRTrancheSNP99.60to99.80
genotype depth: GenotypeDepth
  all individuals: 544
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 107
  bin: 7.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 22968
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 303
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 113
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5164
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 154
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 205
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 418
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 164
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17653
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2199
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 575
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1069
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3941
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4602
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 80
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 265
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 729
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 550
  bin: 8.25e1
  variant carriers: 0
hgvs: p.Tyr578Ter
num of homozygotes: 0
population: South Asian
population: Other
population: Latino
population: European (Finnish)
population: East Asian
population: African
population: European (Non-Finnish)
reference allele: C
site quality: DP
site quality: BaseQRankSum
site quality: FS
site quality: MQRankSum
site quality: MQ
site quality: VQSLOD
site quality: ClippingRankSum
site quality: ReadPosRankSum
site quality: QD
site quality: InbreedingCoeff

X-123196996-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123196996
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123196996
    reference: chr 0
allele count: 1
allele frequency: 1.19159685895068e-5
allele num: 83921
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1555T>C
  hgvsp: ENST00000354548.5:c.1555T>C(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1762T>C
  hgvsp: ENST00000371145.3:c.1762T>C(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1762T>C
  hgvsp: ENST00000371144.3:c.1762T>C(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1762T>C
  hgvsp: ENST00000218089.9:c.1762T>C(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.670T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+59399T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1762T>C
  hgvsp: ENST00000371160.1:c.1762T>C(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1762T>C
  hgvsp: ENST00000371157.3:c.1762T>C(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000471107
  gene symbol: STAG2
  hgvsc: ENST00000471107.1:n.650T>C
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: synonymous
filter: VQSRTrancheSNP99.60to99.80
genotype depth: GenotypeDepth
  all individuals: 18678
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2429
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 205
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 164
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 80
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 154
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5229
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 106
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 873
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3570
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 575
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 265
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25785
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 80
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 544
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 302
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1066
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 418
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 183
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 332
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 87
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 480
  bin: 2.75e1
  variant carriers: 0
hgvs: p.Leu588Leu
num of homozygotes: 0
population: European (Finnish)
population: Latino
population: African
population: European (Non-Finnish)
population: East Asian
population: Other
population: South Asian
reference allele: T
site quality: MQRankSum
site quality: ClippingRankSum
site quality: FS
site quality: VQSLOD
site quality: QD
site quality: MQ
site quality: DP
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: InbreedingCoeff

X-123197003-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197003
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197003
    reference: chr 0
allele count: 3
allele frequency: 3.583844031107766e-5
allele num: 83709
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1769A>G
  hgvsp: ENSP00000360202.1:p.Gln590Arg
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000471107
  gene symbol: STAG2
  hgvsc: ENST00000471107.1:n.657A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.677A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1769A>G
  hgvsp: ENSP00000360186.3:p.Gln590Arg
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1769A>G
  hgvsp: ENSP00000218089.9:p.Gln590Arg
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1562A>G
  hgvsp: ENSP00000346555.5:p.Gln521Arg
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1769A>G
  hgvsp: ENSP00000360199.3:p.Gln590Arg
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1769A>G
  hgvsp: ENSP00000360187.3:p.Gln590Arg
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+59406A>G
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 18799
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 88
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 418
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3757
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 205
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 766
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5237
  bin: 3.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 302
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 265
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2554
  bin: 1.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1066
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 154
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 542
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25445
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 80
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 106
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 575
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 164
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 407
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 20
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 280
  bin: 3.75e1
  variant carriers: 0
hgvs: p.Gln590Arg
num of homozygotes: 0
population: African
population: East Asian
population: South Asian
population: European (Non-Finnish)
population: European (Finnish)
population: Latino
population: Other
reference allele: A
site quality: InbreedingCoeff
site quality: FS
site quality: MQ
site quality: DP
site quality: QD
site quality: VQSLOD

X-123197013-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197013
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197013
    reference: chr 0
allele count: 3
allele frequency: 3.610499332057624e-5
allele num: 83091
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1779G>A
  hgvsp: ENST00000371157.3:c.1779G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1779G>A
  hgvsp: ENST00000218089.9:c.1779G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000471107
  gene symbol: STAG2
  hgvsc: ENST00000471107.1:n.667G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.687G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1572G>A
  hgvsp: ENST00000354548.5:c.1572G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1779G>A
  hgvsp: ENST00000371160.1:c.1779G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1779G>A
  hgvsp: ENST00000371144.3:c.1779G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+59416G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1779G>A
  hgvsp: ENST00000371145.3:c.1779G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 786
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 108
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24345
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 419
  bin: 4.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3023
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 302
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 205
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 80
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5219
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 265
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18845
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 106
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1071
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4313
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 164
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 542
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 575
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 154
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4426
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 30
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 262
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 11
  bin: 2.5e0
  variant carriers: 0
hgvs: p.Gln593Gln
num of homozygotes: 0
population: South Asian
population: Latino
population: European (Non-Finnish)
population: African
population: European (Finnish)
population: East Asian
population: Other
reference allele: G
site quality: InbreedingCoeff
site quality: MQ
site quality: ClippingRankSum
site quality: VQSLOD
site quality: DP
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: FS
site quality: QD
site quality: BaseQRankSum

X-123197026-G-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197026
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197026
    reference: chr 0
allele count: 1
allele frequency: 1.221941175751799e-5
allele num: 81837
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1792G>C
  hgvsp: ENSP00000360187.3:p.Glu598Gln
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1792G>C
  hgvsp: ENSP00000360199.3:p.Glu598Gln
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1792G>C
  hgvsp: ENSP00000360186.3:p.Glu598Gln
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1792G>C
  hgvsp: ENSP00000360202.1:p.Glu598Gln
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+59429G>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000471107
  gene symbol: STAG2
  hgvsc: ENST00000471107.1:n.680G>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1792G>C
  hgvsp: ENSP00000218089.9:p.Glu598Gln
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1585G>C
  hgvsp: ENSP00000346555.5:p.Glu529Gln
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.700G>C
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 541
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 868
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22052
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18662
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 419
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 157
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 575
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5209
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 80
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1063
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 164
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4273
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 265
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5424
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 205
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 107
  bin: 7.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 154
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 303
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 559
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 43
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 923
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 71
  bin: 1.75e1
  variant carriers: 0
hgvs: p.Glu598Gln
num of homozygotes: 0
population: European (Finnish)
population: European (Non-Finnish)
population: African
population: Latino
population: East Asian
population: Other
population: South Asian
reference allele: G
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: ClippingRankSum
site quality: FS
site quality: ReadPosRankSum
site quality: DP
site quality: VQSLOD
site quality: BaseQRankSum
site quality: MQ
site quality: QD

X-123197059-AG-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197059
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197058
    reference: chr 0
allele count: 1
allele frequency: 1.381845316235301e-5
allele num: 72367
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1821+5delG
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.729+5delG
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1614+5delG
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1821+5delG
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1821+5delG
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1821+5delG
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1821+5delG
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+59463delG
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: splice region
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 1021
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 8890
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 538
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 302
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13503
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4547
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 154
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2653
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12015
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 80
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 106
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13543
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 575
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 417
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 205
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1522
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 265
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 164
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 940
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 69
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2421
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 169
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1691
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 21396
  bin: 2.25e1
  variant carriers: 0
hgvs: c.1821+5delG
num of homozygotes: 0
population: African
population: Other
population: European (Finnish)
population: Latino
population: European (Non-Finnish)
population: South Asian
population: East Asian
reference allele: AG
site quality: ClippingRankSum
site quality: BaseQRankSum
site quality: QD
site quality: FS
site quality: DP
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: MQ
site quality: MQRankSum
site quality: VQSLOD

X-123197062-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197062
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197062
    reference: chr 0
allele count: 5
allele frequency: 7.112577882727816e-5
allele num: 70298
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+59465T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1821+7T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1821+7T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1821+7T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1821+7T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.729+7T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1614+7T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1821+7T>C
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: splice region
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 12888
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 154
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3034
  bin: 1.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 15136
  bin: 1.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 164
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12058
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 80
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1000
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 205
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 265
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7209
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 106
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2069
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4290
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 302
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 416
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 536
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 575
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2835
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 353
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2304
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 286
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 404
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 684
  bin: 7.25e1
  variant carriers: 0
hgvs: c.1821+7T>C
num of homozygotes: 0
population: Other
population: East Asian
population: South Asian
population: European (Finnish)
population: African
population: Latino
population: European (Non-Finnish)
reference allele: T
site quality: BaseQRankSum
site quality: MQRankSum
site quality: MQ
site quality: ClippingRankSum
site quality: FS
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: DP
site quality: QD
site quality: ReadPosRankSum

X-123197072-T-TA
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197072
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197073
    reference: chr 0
allele count: 6
allele frequency: 9.332565989018681e-5
allele num: 64291
alternate allele: TA
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+59483dupA
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1821+25dupA
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.729+25dupA
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1821+25dupA
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1614+25dupA
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1821+25dupA
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1821+25dupA
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1821+25dupA
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: VQSRTrancheINDEL99.50to99.90
genotype depth: GenotypeDepth
  all individuals: 5298
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3476
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3397
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 415
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 575
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 925
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 162
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 518
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14333
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9208
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 265
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17499
  bin: 1.25e1
  variant carriers: 5
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 208
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 80
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 106
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3508
  bin: 1.75e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 305
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 154
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3339
  bin: 3.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 146
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 369
  bin: 5.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 397
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 416
  bin: 4.25e1
  variant carriers: 2
genotype quality: GenotypeQuality
  all individuals: 3459
  bin: 2.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 2728
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 12608
  bin: 6.25e1
  variant carriers: 0
num of homozygotes: 0
population: South Asian
population: Latino
population: European (Non-Finnish)
population: African
population: Other
population: East Asian
population: European (Finnish)
reference allele: T
site quality: MQ
site quality: VQSLOD
site quality: MQRankSum
site quality: BaseQRankSum
site quality: QD
site quality: DP
site quality: FS
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: ClippingRankSum

X-123197072-TA-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197072
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197071
    reference: chr 0
allele count: 2
allele frequency: 3.110855329672894e-5
allele num: 64291
alternate allele: T
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1821+25delA
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1821+25delA
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+59483delA
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1821+25delA
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1821+25delA
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.729+25delA
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1821+25delA
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1614+25delA
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: VQSRTrancheINDEL99.50to99.90
genotype depth: GenotypeDepth
  all individuals: 3476
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 575
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17499
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3397
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3508
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 265
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14333
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 305
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 925
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9208
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 106
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 154
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5298
  bin: 2.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 208
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 162
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 415
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 518
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 80
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 416
  bin: 4.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 2728
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3339
  bin: 3.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 537
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2386
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 411
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1300
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 146
  bin: 8.75e1
  variant carriers: 0
num of homozygotes: 0
population: European (Finnish)
population: East Asian
population: South Asian
population: African
population: Other
population: Latino
population: European (Non-Finnish)
reference allele: TA
site quality: FS
site quality: DP
site quality: InbreedingCoeff
site quality: MQ
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: VQSLOD
site quality: MQRankSum
site quality: ClippingRankSum
site quality: QD

X-123197077-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197077
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197077
    reference: chr 0
allele count: 4
allele frequency: 6.313230953771366e-5
allele num: 63359
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1821+22A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1821+22A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1821+22A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1821+22A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+59480A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1614+22A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1821+22A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.729+22A>G
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 401
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 15258
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 777
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 296
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2677
  bin: 3.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 161
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 80
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7374
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4988
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3550
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 152
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 574
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4053
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18967
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 265
  bin: 5.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 487
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 104
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5286
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 268
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 499
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1225
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2056
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4027
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4296
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 146
  bin: 8.75e1
  variant carriers: 0
num of homozygotes: 0
population: South Asian
population: European (Finnish)
population: Latino
population: African
population: European (Non-Finnish)
population: Other
population: East Asian
reference allele: A
site quality: FS
site quality: BaseQRankSum
site quality: QD
site quality: VQSLOD
site quality: MQRankSum
site quality: ClippingRankSum
site quality: DP
site quality: ReadPosRankSum
site quality: MQ
site quality: InbreedingCoeff

X-123197080-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197080
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197080
    reference: chr 0
allele count: 1
allele frequency: 1.61178537465951e-5
allele num: 62043
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1821+25A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1821+25A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1614+25A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1821+25A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1821+25A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1821+25A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+59483A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.729+25A>G
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6483
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 485
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4077
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 104
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3638
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2403
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 750
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 80
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 400
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5640
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 264
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19136
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  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 152
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 161
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 297
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 574
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 15482
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 405
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 257
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1811
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 23513
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4156
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  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2082
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4676
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 477
  bin: 4.25e1
  variant carriers: 0
num of homozygotes: 0
population: Other
population: European (Finnish)
population: East Asian
population: South Asian
population: Latino
population: European (Non-Finnish)
population: African
reference allele: A
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: VQSLOD
site quality: FS
site quality: QD
site quality: MQRankSum
site quality: DP
site quality: MQ
site quality: InbreedingCoeff

X-123197091-A-AG
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197091
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197092
    reference: chr 0
allele count: 0
allele frequency: 0.0e0
allele num: 57356
alternate allele: AG
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1821+36_1821+37insG
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1821+36_1821+37insG
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1614+36_1614+37insG
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1821+36_1821+37insG
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+59494_453+59495insG
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1821+36_1821+37insG
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.729+36_729+37insG
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1821+36_1821+37insG
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: VQSRTrancheINDEL99.00to99.50
genotype depth: GenotypeDepth
  all individuals: 17615
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7400
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 161
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 651
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 461
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 264
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 574
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6258
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1492
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 152
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2729
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 396
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3807
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 104
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17527
  bin: 7.5e0
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 296
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 80
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 140
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3009
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7886
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 390
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4302
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5403
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 20364
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5291
  bin: 6.25e1
  variant carriers: 0
num of homozygotes: 0
population: Other
population: East Asian
population: European (Non-Finnish)
population: African
population: South Asian
population: Latino
population: European (Finnish)
reference allele: A
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: DP
site quality: FS
site quality: ClippingRankSum
site quality: VQSLOD
site quality: BaseQRankSum
site quality: MQ
site quality: QD

X-123197092-A-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197092
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197092
    reference: chr 0
allele count: 0
allele frequency: 0.0e0
allele num: 56519
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1821+37A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1614+37A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+59495A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1821+37A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1821+37A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1821+37A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1821+37A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.729+37A>C
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: VQSRTrancheSNP99.60to99.80
genotype depth: GenotypeDepth
  all individuals: 2646
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 396
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17735
  bin: 7.5e0
  variant carriers: 1
genotype depth: GenotypeDepth
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  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 80
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 152
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17382
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
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  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3594
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1451
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 460
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 646
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 296
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 161
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 104
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 574
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 264
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3197
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8014
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 957
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4254
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2726
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 274
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5377
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2692
  bin: 1.75e1
  variant carriers: 0
num of homozygotes: 0
population: Other
population: East Asian
population: European (Non-Finnish)
population: African
population: Latino
population: European (Finnish)
population: South Asian
reference allele: A
site quality: DP
site quality: ReadPosRankSum
site quality: QD
site quality: MQRankSum
site quality: VQSLOD
site quality: FS
site quality: MQ
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: ClippingRankSum

X-123197649-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197649
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197649
    reference: chr 0
allele count: 1
allele frequency: 1.271342664988494e-5
allele num: 78657
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1822-49A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1822-49A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1822-49A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1822-49A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1822-49A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+60052A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1615-49A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.730-49A>G
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 117
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 917
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 259
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 51
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11075
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13100
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 328
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3312
  bin: 3.25e1
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genotype depth: GenotypeDepth
  all individuals: 66
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 670
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 89
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
  all individuals: 86
  bin: 9.75e1
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genotype depth: GenotypeDepth
  all individuals: 30
  bin: 8.75e1
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genotype depth: GenotypeDepth
  all individuals: 167
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6082
  bin: 2.25e1
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genotype quality: GenotypeQuality
  all individuals: 2682
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 147
  bin: 8.75e1
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genotype quality: GenotypeQuality
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  bin: 4.75e1
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genotype quality: GenotypeQuality
  all individuals: 1675
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
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  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3239
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 679
  bin: 7.75e1
  variant carriers: 0
num of homozygotes: 0
population: South Asian
population: Latino
population: East Asian
population: European (Non-Finnish)
population: European (Finnish)
population: Other
population: African
reference allele: A
site quality: MQ
site quality: QD
site quality: BaseQRankSum
site quality: FS
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: DP

X-123197656-A-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197656
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197656
    reference: chr 0
allele count: 0
allele frequency: 0.0e0
allele num: 78912
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1822-42A>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1822-42A>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1822-42A>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+60059A>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1615-42A>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1822-42A>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
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  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1822-42A>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.730-42A>T
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: AC_Adj0_Filter
genotype depth: GenotypeDepth
  all individuals: 789
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 324
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
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  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
  all individuals: 15173
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genotype depth: GenotypeDepth
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  variant carriers: 0
genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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  bin: 3.25e1
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 24711
  bin: 6.25e1
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 629
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 577
  bin: 7.75e1
  variant carriers: 0
num of homozygotes: 0
population: European (Non-Finnish)
population: Latino
population: European (Finnish)
population: South Asian
population: Other
population: East Asian
population: African
reference allele: A
site quality: FS
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: MQ
site quality: QD
site quality: BaseQRankSum
site quality: MQRankSum
site quality: DP
site quality: VQSLOD
site quality: ClippingRankSum

X-123197657-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197657
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197657
    reference: chr 0
allele count: 0
allele frequency: 0.0e0
allele num: 79000
alternate allele: C
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1822-41T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1615-41T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1822-41T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1822-41T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1822-41T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1822-41T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+60060T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.730-41T>C
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: AC_Adj0_Filter
genotype depth: GenotypeDepth
  all individuals: 115
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
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  bin: 7.75e1
  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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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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genotype depth: GenotypeDepth
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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
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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  variant carriers: 0
genotype depth: GenotypeDepth
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  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
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genotype quality: GenotypeQuality
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  bin: 7.25e1
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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  variant carriers: 0
genotype quality: GenotypeQuality
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  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 3173
  bin: 2.75e1
  variant carriers: 0
num of homozygotes: 0
population: European (Non-Finnish)
population: African
population: East Asian
population: Latino
population: European (Finnish)
population: Other
population: South Asian
reference allele: T
site quality: MQ
site quality: MQRankSum
site quality: FS
site quality: DP
site quality: ClippingRankSum
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: QD
site quality: BaseQRankSum

X-123197658-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197658
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197658
    reference: chr 0
allele count: 1
allele frequency: 1.265598501531374e-5
allele num: 79014
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+60061A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1822-40A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1822-40A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1822-40A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1615-40A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1822-40A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1822-40A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.730-40A>G
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 168
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 730
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16468
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
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  variant carriers: 0
genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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  bin: 4.25e1
  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: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
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  variant carriers: 0
genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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  variant carriers: 0
genotype depth: GenotypeDepth
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  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
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  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
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  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 115
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
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  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 296
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
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  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 138
  bin: 8.75e1
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genotype quality: GenotypeQuality
  all individuals: 26153
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3153
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 570
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2408
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 584
  bin: 7.75e1
  variant carriers: 0
num of homozygotes: 0
population: Latino
population: Other
population: European (Finnish)
population: South Asian
population: African
population: East Asian
population: European (Non-Finnish)
reference allele: A
site quality: FS
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: DP
site quality: MQRankSum
site quality: MQ
site quality: QD
site quality: ClippingRankSum
site quality: VQSLOD

X-123197673-G-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197673
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197673
    reference: chr 0
allele count: 1
allele frequency: 1.242004595417003e-5
allele num: 80515
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+60076G>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1615-25G>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1822-25G>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1822-25G>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1822-25G>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1822-25G>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1822-25G>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.730-25G>T
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: VQSRTrancheSNP99.60to99.80
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 89
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  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 115
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  variant carriers: 0
genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
  all individuals: 6513
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  variant carriers: 0
genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
  all individuals: 50
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genotype depth: GenotypeDepth
  all individuals: 253
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genotype depth: GenotypeDepth
  all individuals: 168
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
  all individuals: 3509
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
  all individuals: 255
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
  all individuals: 1546
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genotype depth: GenotypeDepth
  all individuals: 331
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genotype depth: GenotypeDepth
  all individuals: 86
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genotype depth: GenotypeDepth
  all individuals: 20
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genotype depth: GenotypeDepth
  all individuals: 30
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genotype depth: GenotypeDepth
  all individuals: 13298
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 335
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  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 130
  bin: 1.75e1
  variant carriers: 0
num of homozygotes: 0
population: Other
population: European (Finnish)
population: European (Non-Finnish)
population: East Asian
population: Latino
population: African
population: South Asian
reference allele: G
site quality: MQRankSum
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: QD
site quality: MQ
site quality: DP
site quality: ClippingRankSum
site quality: FS

X-123197677-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197677
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197677
    reference: chr 0
allele count: 1
allele frequency: 1.226527333161619e-5
allele num: 81531
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1822-21A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1822-21A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1822-21A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1615-21A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+60080A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1822-21A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1822-21A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.730-21A>G
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 171
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
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  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1015
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  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 89
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  variant carriers: 0
genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
  all individuals: 330
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  variant carriers: 0
genotype depth: GenotypeDepth
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  variant carriers: 0
genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
  all individuals: 3509
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genotype depth: GenotypeDepth
  all individuals: 29
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  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 665
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 87
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
  all individuals: 78
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
  all individuals: 199
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  variant carriers: 0
num of homozygotes: 0
population: East Asian
population: South Asian
population: European (Finnish)
population: European (Non-Finnish)
population: African
population: Latino
population: Other
reference allele: A
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: DP
site quality: MQ
site quality: ClippingRankSum
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: FS
site quality: QD

X-123197684-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197684
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197684
    reference: chr 0
allele count: 1
allele frequency: 1.205894411885295e-5
allele num: 82926
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1822-14T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.730-14T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1822-14T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+60087T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1822-14T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1822-14T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1615-14T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1822-14T>C
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 257
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  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2784
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
  all individuals: 329
  bin: 8.25e1
  variant carriers: 0
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: T
site quality: FS
site quality: MQRankSum
site quality: BaseQRankSum
site quality: VQSLOD
site quality: DP
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: ClippingRankSum
site quality: QD
site quality: MQ

X-123197687-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197687
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197687
    reference: chr 0
allele count: 4
allele frequency: 4.792829926430061e-5
allele num: 83458
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1822-11T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1615-11T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1822-11T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1822-11T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1822-11T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1822-11T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.730-11T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+60090T>C
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 324
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  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 86
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  variant carriers: 0
genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
  all individuals: 14368
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 665
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 257
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 493
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2275
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 170
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3555
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34035
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30
  bin: 7.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 30
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 45838
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 946
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 187
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 91
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 319
  bin: 8.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 47
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1370
  bin: 9.75e1
  variant carriers: 3
genotype quality: GenotypeQuality
  all individuals: 19
  bin: 2.5e0
  variant carriers: 0
num of homozygotes: 0
population: European (Finnish)
population: European (Non-Finnish)
population: Other
population: South Asian
population: African
population: Latino
population: East Asian
reference allele: T
site quality: VQSLOD
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: DP
site quality: FS
site quality: ClippingRankSum
site quality: QD
site quality: BaseQRankSum
site quality: MQ

X-123197689-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197689
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197689
    reference: chr 0
allele count: 2
allele frequency: 2.384614467455974e-5
allele num: 83871
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1822-9A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1822-9A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1822-9A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+60092A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1615-9A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1822-9A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1822-9A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.730-9A>G
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 50
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3575
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 447
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34562
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1957
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 69
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 667
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 64
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 114
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 325
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 169
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3610
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 89
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14566
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 256
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 87
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 54
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 817
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 701
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 37
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3762
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 75
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 755
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 511
  bin: 5.75e1
  variant carriers: 0
num of homozygotes: 0
population: East Asian
population: South Asian
population: European (Finnish)
population: Other
population: African
population: Latino
population: European (Non-Finnish)
reference allele: A
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: FS
site quality: InbreedingCoeff
site quality: ClippingRankSum
site quality: MQ
site quality: VQSLOD
site quality: MQRankSum
site quality: QD
site quality: DP

X-123197725-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197725
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197725
    reference: chr 0
allele count: 2
allele frequency: 2.285949411939514e-5
allele num: 87491
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1849C>T
  hgvsp: ENSP00000360202.1:p.Arg617Trp
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1849C>T
  hgvsp: ENSP00000360186.3:p.Arg617Trp
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.757C>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1849C>T
  hgvsp: ENSP00000360187.3:p.Arg617Trp
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1849C>T
  hgvsp: ENSP00000218089.9:p.Arg617Trp
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1642C>T
  hgvsp: ENSP00000346555.5:p.Arg548Trp
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+60128C>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1849C>T
  hgvsp: ENSP00000360199.3:p.Arg617Trp
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 168
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 243
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 329
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 38318
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 65
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 87
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3764
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 82
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 60
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 114
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16294
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 50
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 257
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 90
  bin: 6.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 30
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 679
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 37
  bin: 2.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 31
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 796
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 9
  bin: 7.5e0
  variant carriers: 0
hgvs: p.Arg617Trp
num of homozygotes: 0
population: Other
population: African
population: European (Finnish)
population: Latino
population: South Asian
population: European (Non-Finnish)
population: East Asian
reference allele: C
site quality: MQRankSum
site quality: DP
site quality: FS
site quality: QD
site quality: VQSLOD
site quality: ClippingRankSum
site quality: MQ
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: BaseQRankSum

X-123197726-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197726
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197726
    reference: chr 0
allele count: 1
allele frequency: 1.142804900347413e-5
allele num: 87504
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.758G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1850G>A
  hgvsp: ENSP00000360199.3:p.Arg617Gln
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1850G>A
  hgvsp: ENSP00000360202.1:p.Arg617Gln
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1850G>A
  hgvsp: ENSP00000360186.3:p.Arg617Gln
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1643G>A
  hgvsp: ENSP00000346555.5:p.Arg548Gln
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+60129G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1850G>A
  hgvsp: ENSP00000360187.3:p.Arg617Gln
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1850G>A
  hgvsp: ENSP00000218089.9:p.Arg617Gln
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 674
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 168
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 65
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 56
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 77
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 327
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 230
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 89
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 38318
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 50
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 87
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 114
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 258
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3764
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16323
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 31
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 18
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 143
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1369
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 186
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 29
  bin: 2.75e1
  variant carriers: 0
hgvs: p.Arg617Gln
num of homozygotes: 0
population: European (Non-Finnish)
population: Latino
population: African
population: East Asian
population: Other
population: European (Finnish)
population: South Asian
reference allele: G
site quality: VQSLOD
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: FS
site quality: ClippingRankSum
site quality: MQ
site quality: BaseQRankSum
site quality: QD
site quality: ReadPosRankSum
site quality: DP

X-123197731-A-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197731
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197731
    reference: chr 0
allele count: 1
allele frequency: 1.142400182784029e-5
allele num: 87535
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.763A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1855A>C
  hgvsp: ENSP00000360199.3:p.Ile619Leu
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1855A>C
  hgvsp: ENSP00000360187.3:p.Ile619Leu
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1855A>C
  hgvsp: ENSP00000218089.9:p.Ile619Leu
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1648A>C
  hgvsp: ENSP00000346555.5:p.Ile550Leu
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1855A>C
  hgvsp: ENSP00000360186.3:p.Ile619Leu
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+60134A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1855A>C
  hgvsp: ENSP00000360202.1:p.Ile619Leu
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: missense
filter: VQSRTrancheSNP99.60to99.80
genotype depth: GenotypeDepth
  all individuals: 56
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 168
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16366
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3755
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 326
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 38326
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 114
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 89
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 255
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 50
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 65
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 87
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 670
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 70
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 186
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1369
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 145
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 52485
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 233
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 1.25e1
  variant carriers: 0
hgvs: p.Ile619Leu
num of homozygotes: 0
population: Latino
population: East Asian
population: Other
population: European (Non-Finnish)
population: European (Finnish)
population: African
population: South Asian
reference allele: A
site quality: InbreedingCoeff
site quality: MQ
site quality: FS
site quality: QD
site quality: ReadPosRankSum
site quality: VQSLOD
site quality: DP
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: MQRankSum

X-123197736-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197736
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197736
    reference: chr 0
allele count: 18
allele frequency: 2.055897570614371e-4
allele num: 87553
alternate allele: G
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1860A>G
  hgvsp: ENST00000218089.9:c.1860A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1860A>G
  hgvsp: ENST00000371157.3:c.1860A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1860A>G
  hgvsp: ENST00000371145.3:c.1860A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1860A>G
  hgvsp: ENST00000371144.3:c.1860A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+60139A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1860A>G
  hgvsp: ENST00000371160.1:c.1860A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1653A>G
  hgvsp: ENST00000354548.5:c.1653A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.768A>G
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 3752
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 672
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 38285
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 90
  bin: 6.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 189
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 49
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 65
  bin: 6.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 19
  bin: 9.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 16415
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 72
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 256
  bin: 4.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 168
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 325
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 21
  bin: 8.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 51
  bin: 7.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 9.75e1
  variant carriers: 10
genotype depth: GenotypeDepth
  all individuals: 115
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 221
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 21
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 13
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 19
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 39
  bin: 5.25e1
  variant carriers: 0
hgvs: p.Val620Val
num of homozygotes: 0
population: European (Non-Finnish)
population: South Asian
population: East Asian
population: African
population: Latino
population: European (Finnish)
population: Other
reference allele: A
site quality: FS
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: QD
site quality: MQ
site quality: ClippingRankSum
site quality: VQSLOD
site quality: DP
site quality: BaseQRankSum
site quality: InbreedingCoeff

X-123197738-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197738
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197738
    reference: chr 0
allele count: 1
allele frequency: 1.142126182100598e-5
allele num: 87556
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1862A>G
  hgvsp: ENSP00000360187.3:p.Glu621Gly
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1862A>G
  hgvsp: ENSP00000360199.3:p.Glu621Gly
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1862A>G
  hgvsp: ENSP00000218089.9:p.Glu621Gly
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1862A>G
  hgvsp: ENSP00000360186.3:p.Glu621Gly
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+60141A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.770A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1862A>G
  hgvsp: ENSP00000360202.1:p.Glu621Gly
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1655A>G
  hgvsp: ENSP00000346555.5:p.Glu552Gly
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 76
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 64
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16448
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 87
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 167
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 671
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 58
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3751
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 38258
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 325
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 50
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 115
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 188
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 255
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 89
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 26
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 221
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 66
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 21
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 338
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 187
  bin: 9.25e1
  variant carriers: 0
hgvs: p.Glu621Gly
num of homozygotes: 0
population: Latino
population: African
population: European (Finnish)
population: European (Non-Finnish)
population: Other
population: East Asian
population: South Asian
reference allele: A
site quality: DP
site quality: FS
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: MQ
site quality: QD

X-123197747-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197747
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197747
    reference: chr 0
allele count: 1
allele frequency: 1.142060963214216e-5
allele num: 87561
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1871C>T
  hgvsp: ENSP00000360186.3:p.Thr624Ile
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1871C>T
  hgvsp: ENSP00000360187.3:p.Thr624Ile
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1871C>T
  hgvsp: ENSP00000360199.3:p.Thr624Ile
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.779C>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1664C>T
  hgvsp: ENSP00000346555.5:p.Thr555Ile
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1871C>T
  hgvsp: ENSP00000360202.1:p.Thr624Ile
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1871C>T
  hgvsp: ENSP00000218089.9:p.Thr624Ile
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+60150C>T
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 167
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 84
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 324
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 673
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 255
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 64
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 115
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 180
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 38194
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16505
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 89
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 87
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 50
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3761
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 53
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 216
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 18
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1364
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 29
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 52493
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 30
  bin: 4.75e1
  variant carriers: 0
hgvs: p.Thr624Ile
num of homozygotes: 0
population: Other
population: South Asian
population: Latino
population: East Asian
population: European (Finnish)
population: African
population: European (Non-Finnish)
reference allele: C
site quality: MQ
site quality: DP
site quality: FS
site quality: QD
site quality: InbreedingCoeff
site quality: VQSLOD

X-123197763-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197763
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197763
    reference: chr 0
allele count: 1
allele frequency: 1.143209904770615e-5
allele num: 87473
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1887G>A
  hgvsp: ENST00000371144.3:c.1887G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1887G>A
  hgvsp: ENST00000371145.3:c.1887G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.795G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+60166G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1680G>A
  hgvsp: ENST00000354548.5:c.1680G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1887G>A
  hgvsp: ENST00000218089.9:c.1887G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1887G>A
  hgvsp: ENST00000371157.3:c.1887G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1887G>A
  hgvsp: ENST00000371160.1:c.1887G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 677
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16540
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3767
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 168
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 51
  bin: 7.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 86
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 236
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 148
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 328
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 261
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 115
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 37810
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 89
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 257
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 65
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 68
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 82
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 186
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 381
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 52142
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 71
  bin: 2.75e1
  variant carriers: 0
hgvs: p.Leu629Leu
num of homozygotes: 0
population: African
population: European (Finnish)
population: Other
population: European (Non-Finnish)
population: East Asian
population: South Asian
population: Latino
reference allele: G
site quality: FS
site quality: QD
site quality: MQ
site quality: MQRankSum
site quality: VQSLOD
site quality: BaseQRankSum
site quality: DP
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: ClippingRankSum

X-123197795-G-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197795
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197795
    reference: chr 0
allele count: 1
allele frequency: 1.15304345820794e-5
allele num: 86727
alternate allele: C
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1919G>C
  hgvsp: ENSP00000218089.9:p.Cys640Ser
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1919G>C
  hgvsp: ENSP00000360199.3:p.Cys640Ser
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1919G>C
  hgvsp: ENSP00000360187.3:p.Cys640Ser
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1919G>C
  hgvsp: ENSP00000360202.1:p.Cys640Ser
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1919G>C
  hgvsp: ENSP00000360186.3:p.Cys640Ser
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1712G>C
  hgvsp: ENSP00000346555.5:p.Cys571Ser
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+60198G>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.827G>C
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 15
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 50
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 325
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 168
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 35710
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 672
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 827
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3759
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 959
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 979
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 90
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16532
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 114
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 257
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 64
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 86
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 286
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 24
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 10
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 622
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1364
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 1632
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 18
  bin: 7.5e0
  variant carriers: 0
hgvs: p.Cys640Ser
num of homozygotes: 0
population: European (Non-Finnish)
population: Latino
population: Other
population: East Asian
population: South Asian
population: European (Finnish)
population: African
reference allele: G
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: DP
site quality: FS
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: MQ
site quality: VQSLOD
site quality: QD

X-123197802-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197802
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197802
    reference: chr 0
allele count: 3
allele frequency: 3.468809620165347e-5
allele num: 86485
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1926A>G
  hgvsp: ENST00000371157.3:c.1926A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1926A>G
  hgvsp: ENST00000218089.9:c.1926A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1926A>G
  hgvsp: ENST00000371145.3:c.1926A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+60205A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1926A>G
  hgvsp: ENST00000371144.3:c.1926A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1719A>G
  hgvsp: ENST00000354548.5:c.1719A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1926A>G
  hgvsp: ENST00000371160.1:c.1926A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.834A>G
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 669
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 64
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1154
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 167
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 86
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16497
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 15
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 256
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 35281
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3705
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1202
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19
  bin: 9.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 114
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 932
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 324
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 50
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 90
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2022
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 49045
  bin: 6.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 140
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 9
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 359
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 17
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 375
  bin: 4.75e1
  variant carriers: 0
hgvs: p.Glu642Glu
num of homozygotes: 0
population: African
population: European (Non-Finnish)
population: South Asian
population: East Asian
population: European (Finnish)
population: Latino
population: Other
reference allele: A
site quality: FS
site quality: ClippingRankSum
site quality: DP
site quality: ReadPosRankSum
site quality: MQ
site quality: MQRankSum
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: QD
site quality: BaseQRankSum

X-123197809-A-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197809
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197809
    reference: chr 0
allele count: 1
allele frequency: 1.163724383517008e-5
allele num: 85931
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.841A>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1933A>T
  hgvsp: ENSP00000360187.3:p.Thr645Ser
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1726A>T
  hgvsp: ENSP00000346555.5:p.Thr576Ser
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+60212A>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1933A>T
  hgvsp: ENSP00000218089.9:p.Thr645Ser
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1933A>T
  hgvsp: ENSP00000360186.3:p.Thr645Ser
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1933A>T
  hgvsp: ENSP00000360199.3:p.Thr645Ser
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1933A>T
  hgvsp: ENSP00000360202.1:p.Thr645Ser
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: missense
filter: VQSRTrancheSNP99.60to99.80
genotype depth: GenotypeDepth
  all individuals: 166
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 90
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1573
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34027
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1201
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 256
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3726
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1726
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 323
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 21
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16511
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 50
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 87
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 64
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 672
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 114
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 716
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 13
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2843
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 435
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 598
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 280
  bin: 4.25e1
  variant carriers: 0
hgvs: p.Thr645Ser
num of homozygotes: 0
population: South Asian
population: East Asian
population: Latino
population: European (Finnish)
population: African
population: Other
population: European (Non-Finnish)
reference allele: A
site quality: InbreedingCoeff
site quality: FS
site quality: MQ
site quality: QD
site quality: VQSLOD
site quality: DP
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: MQRankSum
site quality: ReadPosRankSum

X-123197828-A-AAGCCAGACAGACTGAGACAAC
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197828
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197849
    reference: chr 0
allele count: 0
allele frequency: 0.0e0
allele num: 84851
alternate allele: AAGCCAGACAGACTGAGACAAC
annotation: Annotation
  canonical: false
  consequence: protein_altering_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: protein_altering_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: protein_altering_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: protein_altering_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: protein_altering_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: protein_altering_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: protein altering
filter: VQSRTrancheINDEL99.00to99.50
genotype depth: GenotypeDepth
  all individuals: 255
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1318
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16129
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 91
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2360
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 32560
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2758
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 667
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 64
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 41
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 167
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 114
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3624
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 323
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 50
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 86
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 709
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 37
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 473
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3911
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 460
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4518
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1364
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 601
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 53
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 250
  bin: 4.25e1
  variant carriers: 0
hgvs: p.Asp651delinsGluAlaArgGlnThrGluThrThr
num of homozygotes: 0
population: European (Non-Finnish)
population: Other
population: African
population: East Asian
population: Latino
population: European (Finnish)
population: South Asian
reference allele: A
site quality: BaseQRankSum
site quality: MQRankSum
site quality: FS
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: ClippingRankSum
site quality: DP
site quality: MQ
site quality: ReadPosRankSum
site quality: QD

X-123197830-A-ACCTAAATGTTATTT
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197830
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197844
    reference: chr 0
allele count: 0
allele frequency: 0.0e0
allele num: 84751
alternate allele: ACCTAAATGTTATTT
annotation: Annotation
  canonical: false
  consequence: frameshift_variant
  consequence: stop_gained
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsp: ENSP00000360186.3:p.Ile652ThrfsTer2
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: frameshift_variant
  consequence: stop_gained
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsp: ENSP00000360199.3:p.Ile652ThrfsTer2
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: frameshift_variant
  consequence: stop_gained
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsp: ENSP00000360187.3:p.Ile652ThrfsTer2
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: frameshift_variant
  consequence: stop_gained
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsp: ENSP00000218089.9:p.Ile652ThrfsTer2
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: frameshift_variant
  consequence: stop_gained
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsp: ENSP00000360202.1:p.Ile652ThrfsTer2
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: frameshift_variant
  consequence: stop_gained
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsp: ENSP00000346555.5:p.Ile583ThrfsTer2
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: stop gained
filter: VQSRTrancheINDEL97.00to99.00
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16101
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 114
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 86
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 64
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2853
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3625
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 32445
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 323
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 167
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 665
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1287
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2437
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 50
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 91
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 255
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 317
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 709
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 593
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 218
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 514
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 238
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 464
  bin: 3.75e1
  variant carriers: 0
hgvs: p.Ile652ThrfsTer2
num of homozygotes: 0
population: South Asian
population: Other
population: East Asian
population: European (Non-Finnish)
population: Latino
population: African
population: European (Finnish)
reference allele: A
site quality: FS
site quality: MQRankSum
site quality: MQ
site quality: QD
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: DP
site quality: ClippingRankSum
site quality: BaseQRankSum

X-123197839-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197839
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197839
    reference: chr 0
allele count: 1
allele frequency: 1.191809882487546e-5
allele num: 83906
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1963A>G
  hgvsp: ENSP00000360187.3:p.Ser655Gly
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1963A>G
  hgvsp: ENSP00000360186.3:p.Ser655Gly
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000466748
  gene symbol: STAG2
  hgvsc: ENST00000466748.1:n.871A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1963A>G
  hgvsp: ENSP00000360202.1:p.Ser655Gly
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1963A>G
  hgvsp: ENSP00000218089.9:p.Ser655Gly
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1963A>G
  hgvsp: ENSP00000360199.3:p.Ser655Gly
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+60242A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1756A>G
  hgvsp: ENSP00000346555.5:p.Ser586Gly
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 167
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 64
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3638
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 50
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31207
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 15942
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 86
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 665
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 324
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3614
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 64
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1228
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 91
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 114
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3096
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 255
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30
  bin: 7.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 504
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6022
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 440
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 453
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 73
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 217
  bin: 5.75e1
  variant carriers: 0
hgvs: p.Ser655Gly
num of homozygotes: 0
population: South Asian
population: Latino
population: Other
population: East Asian
population: European (Finnish)
population: African
population: European (Non-Finnish)
reference allele: A
site quality: VQSLOD
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: FS
site quality: DP
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: MQ
site quality: QD
site quality: ClippingRankSum

X-123197875-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197875
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197875
    reference: chr 0
allele count: 1
allele frequency: 1.321946963487825e-5
allele num: 75646
alternate allele: T
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.1999C>T
  hgvsp: ENSP00000218089.9:p.Arg667Trp
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.1999C>T
  hgvsp: ENSP00000360199.3:p.Arg667Trp
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.1999C>T
  hgvsp: ENSP00000360202.1:p.Arg667Trp
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+60278C>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.1999C>T
  hgvsp: ENSP00000360186.3:p.Arg667Trp
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.1999C>T
  hgvsp: ENSP00000360187.3:p.Arg667Trp
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1792C>T
  hgvsp: ENSP00000346555.5:p.Arg598Trp
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 679
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 168
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 653
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3522
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10005
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10078
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  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19187
  bin: 2.25e1
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genotype depth: GenotypeDepth
  all individuals: 91
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  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 114
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 64
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 50
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  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13868
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
  all individuals: 1440
  bin: 1.75e1
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
  all individuals: 30
  bin: 8.75e1
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genotype depth: GenotypeDepth
  all individuals: 20
  bin: 8.25e1
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genotype quality: GenotypeQuality
  all individuals: 1101
  bin: 2.75e1
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genotype quality: GenotypeQuality
  all individuals: 748
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
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  bin: 6.25e1
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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  bin: 9.75e1
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 538
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 125
  bin: 1.25e1
  variant carriers: 0
hgvs: p.Arg667Trp
num of homozygotes: 0
population: East Asian
population: European (Non-Finnish)
population: South Asian
population: European (Finnish)
population: African
population: Latino
population: Other
reference allele: C
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: QD
site quality: MQ
site quality: VQSLOD
site quality: DP
site quality: FS
site quality: ClippingRankSum

X-123197876-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197876
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197876
    reference: chr 0
allele count: 1
allele frequency: 1.3269462984833e-5
allele num: 75361
alternate allele: A
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.2000G>A
  hgvsp: ENSP00000218089.9:p.Arg667Gln
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.2000G>A
  hgvsp: ENSP00000360202.1:p.Arg667Gln
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+60279G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1793G>A
  hgvsp: ENSP00000346555.5:p.Arg598Gln
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.2000G>A
  hgvsp: ENSP00000360187.3:p.Arg667Gln
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.2000G>A
  hgvsp: ENSP00000360199.3:p.Arg667Gln
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.2000G>A
  hgvsp: ENSP00000360186.3:p.Arg667Gln
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 10321
  bin: 7.5e0
  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: 13749
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
  all individuals: 176
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  variant carriers: 0
hgvs: p.Arg667Gln
num of homozygotes: 0
population: Other
population: European (Finnish)
population: East Asian
population: European (Non-Finnish)
population: South Asian
population: Latino
population: African
reference allele: G
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: QD
site quality: FS
site quality: MQ
site quality: DP
site quality: ClippingRankSum

X-123197881-C-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197881
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197881
    reference: chr 0
allele count: 1
allele frequency: 1.359046492980525e-5
allele num: 73581
alternate allele: A
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.2005C>A
  hgvsp: ENSP00000218089.9:p.Leu669Ile
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.2005C>A
  hgvsp: ENSP00000360199.3:p.Leu669Ile
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.2005C>A
  hgvsp: ENSP00000360187.3:p.Leu669Ile
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1798C>A
  hgvsp: ENSP00000346555.5:p.Leu600Ile
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.2005C>A
  hgvsp: ENSP00000360186.3:p.Leu669Ile
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.2005C>A
  hgvsp: ENSP00000360202.1:p.Leu669Ile
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+60284C>A
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 11570
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
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  variant carriers: 0
genotype depth: GenotypeDepth
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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
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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
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
  all individuals: 518
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  variant carriers: 0
hgvs: p.Leu669Ile
num of homozygotes: 0
population: South Asian
population: European (Finnish)
population: African
population: Latino
population: Other
population: East Asian
population: European (Non-Finnish)
reference allele: C
site quality: MQ
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: VQSLOD
site quality: FS
site quality: QD
site quality: DP

X-123197893-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197893
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197893
    reference: chr 0
allele count: 5
allele frequency: 7.466029565477079e-5
allele num: 66970
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+60296C>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.2017C>T
  hgvsp: ENST00000371157.3:c.2017C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.2017C>T
  hgvsp: ENST00000218089.9:c.2017C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.2017C>T
  hgvsp: ENST00000371144.3:c.2017C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1810C>T
  hgvsp: ENST00000354548.5:c.1810C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.2017C>T
  hgvsp: ENST00000371160.1:c.2017C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.2017C>T
  hgvsp: ENST00000371145.3:c.2017C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 50
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 114
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
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  variant carriers: 0
genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
  all individuals: 91
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 493
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
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  bin: 5.75e1
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1891
  bin: 2.75e1
  variant carriers: 0
hgvs: p.Leu673Leu
num of homozygotes: 0
population: Other
population: South Asian
population: East Asian
population: European (Finnish)
population: Latino
population: European (Non-Finnish)
population: African
reference allele: C
site quality: InbreedingCoeff
site quality: DP
site quality: MQRankSum
site quality: FS
site quality: MQ
site quality: VQSLOD
site quality: ClippingRankSum
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: QD

X-123197908-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197908
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197908
    reference: chr 0
allele count: 9
allele frequency: 1.681111775254035e-4
allele num: 53536
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1818+7A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.2025+7A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+60311A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.2025+7A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.2025+7A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.2025+7A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.2025+7A>G
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: splice region
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 298
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1991
  bin: 1.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5399
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 19203
  bin: 7.5e0
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 164
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 91
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 113
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1696
  bin: 3.25e1
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genotype depth: GenotypeDepth
  all individuals: 7512
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 86
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19204
  bin: 1.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 495
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genotype depth: GenotypeDepth
  all individuals: 3715
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genotype depth: GenotypeDepth
  all individuals: 50
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genotype depth: GenotypeDepth
  all individuals: 248
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  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 64
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 538
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 292
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2698
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 421
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 167
  bin: 9.25e1
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genotype quality: GenotypeQuality
  all individuals: 124
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2318
  bin: 3.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 1791
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1362
  bin: 9.75e1
  variant carriers: 8
hgvs: c.2025+7A>G
num of homozygotes: 0
population: European (Non-Finnish)
population: South Asian
population: Other
population: European (Finnish)
population: African
population: East Asian
population: Latino
reference allele: A
site quality: VQSLOD
site quality: DP
site quality: FS
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: MQ
site quality: InbreedingCoeff
site quality: ClippingRankSum
site quality: QD

X-123197943-C-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197943
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197943
    reference: chr 0
allele count: 4
allele frequency: 1.226053639846743e-4
allele num: 32625
alternate allele: G
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.2025+42C>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.2025+42C>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.2025+42C>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+60346C>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1818+42C>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.2025+42C>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.2025+42C>G
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 30
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 86
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  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3300
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  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 286
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  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 90
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  variant carriers: 0
genotype depth: GenotypeDepth
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  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29
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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
  all individuals: 11430
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  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 50
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genotype depth: GenotypeDepth
  all individuals: 816
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  variant carriers: 0
genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
  all individuals: 18
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  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 164
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  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 2954
  bin: 2.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 1062
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  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 183
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
  all individuals: 5301
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  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 38
  bin: 5.75e1
  variant carriers: 0
num of homozygotes: 0
population: East Asian
population: South Asian
population: African
population: European (Finnish)
population: Latino
population: Other
population: European (Non-Finnish)
reference allele: C
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: QD
site quality: ReadPosRankSum
site quality: FS
site quality: DP
site quality: VQSLOD
site quality: MQRankSum
site quality: MQ
site quality: ClippingRankSum

X-123197944-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197944
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197944
    reference: chr 0
allele count: 1
allele frequency: 3.0970299482796e-5
allele num: 32289
alternate allele: T
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.2025+43C>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.2025+43C>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.2025+43C>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+60347C>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.2025+43C>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1818+43C>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.2025+43C>T
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 1071
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23748
  bin: 7.5e0
  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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  variant carriers: 0
genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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  variant carriers: 1
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
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype quality: GenotypeQuality
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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
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
  all individuals: 33
  bin: 5.75e1
  variant carriers: 0
num of homozygotes: 0
population: European (Finnish)
population: African
population: South Asian
population: European (Non-Finnish)
population: East Asian
population: Other
population: Latino
reference allele: C
site quality: InbreedingCoeff
site quality: MQ
site quality: QD
site quality: BaseQRankSum
site quality: FS
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: VQSLOD
site quality: DP
site quality: ClippingRankSum

X-123197949-C-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123197949
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123197949
    reference: chr 0
allele count: 1
allele frequency: 3.339232644338331e-5
allele num: 29947
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1818+48C>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.2025+48C>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+60352C>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.2025+48C>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.2025+48C>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.2025+48C>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.2025+48C>G
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 679
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
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  variant carriers: 0
genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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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
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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  variant carriers: 0
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype depth: GenotypeDepth
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genotype quality: GenotypeQuality
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  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
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1683
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2878
  bin: 2.75e1
  variant carriers: 0
num of homozygotes: 0
population: East Asian
population: European (Finnish)
population: African
population: European (Non-Finnish)
population: Latino
population: South Asian
population: Other
reference allele: C
site quality: VQSLOD
site quality: FS
site quality: InbreedingCoeff
site quality: DP
site quality: QD
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: MQ

X-123199676-C-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123199676
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123199676
    reference: chr 0
allele count: 18
allele frequency: 2.211084905660377e-4
allele num: 81408
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.2026-50C>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.2026-50C>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+62079C>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.2026-50C>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1819-50C>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.2026-50C>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.2026-50C>G
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 2070
  bin: 4.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2993
  bin: 4.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 476
  bin: 6.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 9369
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1404
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 4557
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8090
  bin: 2.75e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 7896
  bin: 1.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 9460
  bin: 2.25e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 681
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3938
  bin: 3.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 198
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 910
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 189
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 242
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1238
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 422
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 950
  bin: 5.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 5309
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 282
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1185
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 646
  bin: 7.5e0
  variant carriers: 3
genotype quality: GenotypeQuality
  all individuals: 3714
  bin: 4.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 11559
  bin: 9.75e1
  variant carriers: 14
genotype quality: GenotypeQuality
  all individuals: 3090
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1125
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2618
  bin: 7.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 1756
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1868
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4371
  bin: 6.75e1
  variant carriers: 1
num of homozygotes: 0
population: East Asian
population: Other
population: South Asian
population: European (Finnish)
population: African
population: European (Non-Finnish)
population: Latino
reference allele: C
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: VQSLOD
site quality: ClippingRankSum
site quality: MQRankSum
site quality: QD
site quality: MQ
site quality: FS
site quality: BaseQRankSum
site quality: DP

X-123199692-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123199692
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123199692
    reference: chr 0
allele count: 331
allele frequency: 4.038506118763802e-3
allele num: 81961
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.2026-34T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.2026-34T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+62095T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1819-34T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.2026-34T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.2026-34T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.2026-34T>C
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 246
  bin: 8.25e1
  variant carriers: 7
genotype depth: GenotypeDepth
  all individuals: 3007
  bin: 4.25e1
  variant carriers: 30
genotype depth: GenotypeDepth
  all individuals: 484
  bin: 6.75e1
  variant carriers: 17
genotype depth: GenotypeDepth
  all individuals: 8932
  bin: 2.75e1
  variant carriers: 32
genotype depth: GenotypeDepth
  all individuals: 645
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4555
  bin: 7.5e0
  variant carriers: 9
genotype depth: GenotypeDepth
  all individuals: 186
  bin: 9.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2068
  bin: 4.75e1
  variant carriers: 21
genotype depth: GenotypeDepth
  all individuals: 6389
  bin: 1.25e1
  variant carriers: 10
genotype depth: GenotypeDepth
  all individuals: 283
  bin: 7.75e1
  variant carriers: 8
genotype depth: GenotypeDepth
  all individuals: 1400
  bin: 5.25e1
  variant carriers: 12
genotype depth: GenotypeDepth
  all individuals: 1249
  bin: 9.75e1
  variant carriers: 27
genotype depth: GenotypeDepth
  all individuals: 3014
  bin: 1.75e1
  variant carriers: 31
genotype depth: GenotypeDepth
  all individuals: 16519
  bin: 2.25e1
  variant carriers: 22
genotype depth: GenotypeDepth
  all individuals: 3961
  bin: 3.75e1
  variant carriers: 32
genotype depth: GenotypeDepth
  all individuals: 200
  bin: 8.75e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 432
  bin: 7.25e1
  variant carriers: 13
genotype depth: GenotypeDepth
  all individuals: 960
  bin: 5.75e1
  variant carriers: 19
genotype depth: GenotypeDepth
  all individuals: 690
  bin: 6.25e1
  variant carriers: 17
genotype depth: GenotypeDepth
  all individuals: 5464
  bin: 3.25e1
  variant carriers: 31
genotype quality: GenotypeQuality
  all individuals: 1660
  bin: 2.75e1
  variant carriers: 5
genotype quality: GenotypeQuality
  all individuals: 603
  bin: 5.75e1
  variant carriers: 2
genotype quality: GenotypeQuality
  all individuals: 4270
  bin: 2.25e1
  variant carriers: 2
genotype quality: GenotypeQuality
  all individuals: 2681
  bin: 3.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 1213
  bin: 4.75e1
  variant carriers: 7
genotype quality: GenotypeQuality
  all individuals: 410
  bin: 1.75e1
  variant carriers: 3
genotype quality: GenotypeQuality
  all individuals: 19100
  bin: 6.25e1
  variant carriers: 5
genotype quality: GenotypeQuality
  all individuals: 268
  bin: 1.25e1
  variant carriers: 3
genotype quality: GenotypeQuality
  all individuals: 539
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 67
  bin: 2.5e0
  variant carriers: 2
num of homozygotes: 2
population: East Asian
population: European (Finnish)
population: Other
population: African
population: Latino
population: European (Non-Finnish)
population: South Asian
reference allele: T
site quality: FS
site quality: MQRankSum
site quality: ClippingRankSum
site quality: ReadPosRankSum
site quality: DP
site quality: QD
site quality: MQ
site quality: VQSLOD
site quality: BaseQRankSum
site quality: InbreedingCoeff

X-123199697-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123199697
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123199697
    reference: chr 0
allele count: 1
allele frequency: 1.217329908578524e-5
allele num: 82147
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.2026-29G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+62100G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1819-29G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.2026-29G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.2026-29G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.2026-29G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.2026-29G>A
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 202
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 957
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1405
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5540
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5354
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9406
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3974
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
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  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 432
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
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  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 247
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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: 7.5e0
  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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genotype depth: GenotypeDepth
  all individuals: 2040
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 688
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  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4373
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  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 21562
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
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  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
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  variant carriers: 0
genotype quality: GenotypeQuality
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  bin: 6.75e1
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genotype quality: GenotypeQuality
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  bin: 4.25e1
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
  all individuals: 55
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 200
  bin: 1.25e1
  variant carriers: 0
num of homozygotes: 0
population: Other
population: European (Finnish)
population: Latino
population: East Asian
population: African
population: European (Non-Finnish)
population: South Asian
reference allele: G
site quality: ReadPosRankSum
site quality: FS
site quality: MQRankSum
site quality: ClippingRankSum
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: DP
site quality: QD
site quality: MQ
site quality: BaseQRankSum

X-123199712-A-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123199712
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123199712
    reference: chr 0
allele count: 116
allele frequency: 1.392339730894338e-3
allele num: 83313
alternate allele: T
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.2026-14A>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.2026-14A>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.2026-14A>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.2026-14A>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.2026-14A>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1819-14A>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+62115A>T
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 188
  bin: 9.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3750
  bin: 7.5e0
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 284
  bin: 7.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 279
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2600
  bin: 1.25e1
  variant carriers: 12
genotype depth: GenotypeDepth
  all individuals: 3973
  bin: 3.75e1
  variant carriers: 6
genotype depth: GenotypeDepth
  all individuals: 5629
  bin: 3.25e1
  variant carriers: 15
genotype depth: GenotypeDepth
  all individuals: 22226
  bin: 2.25e1
  variant carriers: 13
genotype depth: GenotypeDepth
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  bin: 7.25e1
  variant carriers: 6
genotype depth: GenotypeDepth
  all individuals: 249
  bin: 8.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 10348
  bin: 2.75e1
  variant carriers: 9
genotype depth: GenotypeDepth
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  bin: 5.25e1
  variant carriers: 4
genotype depth: GenotypeDepth
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  bin: 1.75e1
  variant carriers: 18
genotype depth: GenotypeDepth
  all individuals: 956
  bin: 5.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 486
  bin: 6.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 8.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 2083
  bin: 4.75e1
  variant carriers: 12
genotype depth: GenotypeDepth
  all individuals: 691
  bin: 6.25e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 3002
  bin: 4.25e1
  variant carriers: 5
genotype depth: GenotypeDepth
  all individuals: 1249
  bin: 9.75e1
  variant carriers: 2
genotype quality: GenotypeQuality
  all individuals: 199
  bin: 4.25e1
  variant carriers: 3
genotype quality: GenotypeQuality
  all individuals: 11676
  bin: 9.75e1
  variant carriers: 64
genotype quality: GenotypeQuality
  all individuals: 326
  bin: 5.25e1
  variant carriers: 7
genotype quality: GenotypeQuality
  all individuals: 26
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 268
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2181
  bin: 8.25e1
  variant carriers: 3
genotype quality: GenotypeQuality
  all individuals: 913
  bin: 2.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 4912
  bin: 6.75e1
  variant carriers: 4
genotype quality: GenotypeQuality
  all individuals: 1791
  bin: 7.25e1
  variant carriers: 2
genotype quality: GenotypeQuality
  all individuals: 3781
  bin: 2.25e1
  variant carriers: 3
num of homozygotes: 1
population: African
population: Latino
population: East Asian
population: South Asian
population: European (Finnish)
population: European (Non-Finnish)
population: Other
reference allele: A
site quality: QD
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: DP
site quality: MQRankSum
site quality: VQSLOD
site quality: FS
site quality: MQ

X-123199718-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123199718
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123199718
    reference: chr 0
allele count: 1
allele frequency: 1.191256179641432e-5
allele num: 83945
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1819-8A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.2026-8A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+62121A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.2026-8A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.2026-8A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.2026-8A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.2026-8A>G
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: splice region
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 2999
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 436
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 202
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23460
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10647
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3274
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1248
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5656
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 690
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 247
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1825
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 432
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1406
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 210
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 283
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3980
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 188
  bin: 9.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 484
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 958
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2071
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 70
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4981
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 119
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1802
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 746
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genotype quality: GenotypeQuality
  all individuals: 684
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genotype quality: GenotypeQuality
  all individuals: 45
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 402
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2184
  bin: 8.25e1
  variant carriers: 0
hgvs: c.2026-8A>G
num of homozygotes: 0
population: European (Finnish)
population: East Asian
population: African
population: European (Non-Finnish)
population: South Asian
population: Latino
population: Other
reference allele: A
site quality: ClippingRankSum
site quality: FS
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: MQ
site quality: MQRankSum
site quality: BaseQRankSum
site quality: DP
site quality: QD

X-123199752-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123199752
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123199752
    reference: chr 0
allele count: 2
allele frequency: 2.320724065908563e-5
allele num: 86180
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.2052A>G
  hgvsp: ENST00000371145.3:c.2052A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.2052A>G
  hgvsp: ENST00000371160.1:c.2052A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.2052A>G
  hgvsp: ENST00000371157.3:c.2052A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+62155A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.2052A>G
  hgvsp: ENST00000371144.3:c.2052A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1845A>G
  hgvsp: ENST00000354548.5:c.1845A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.2052A>G
  hgvsp: ENST00000218089.9:c.2052A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 247
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1249
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1405
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 283
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2999
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 187
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 53
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 690
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11632
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 139
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 202
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5782
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26019
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1423
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3989
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2071
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 432
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 454
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 959
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 484
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 15
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2695
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 111
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 55
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 106
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1627
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 31987
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  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1127
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  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5220
  bin: 6.75e1
  variant carriers: 0
hgvs: p.Ala684Ala
num of homozygotes: 0
population: Latino
population: South Asian
population: East Asian
population: European (Finnish)
population: European (Non-Finnish)
population: African
population: Other
reference allele: A
site quality: InbreedingCoeff
site quality: MQ
site quality: VQSLOD
site quality: ClippingRankSum
site quality: BaseQRankSum
site quality: MQRankSum
site quality: QD
site quality: DP
site quality: ReadPosRankSum
site quality: FS

X-123199776-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123199776
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123199776
    reference: chr 0
allele count: 1
allele frequency: 1.16199351607618e-5
allele num: 86059
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1869G>A
  hgvsp: ENST00000354548.5:c.1869G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.2076G>A
  hgvsp: ENST00000371144.3:c.2076G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.2076G>A
  hgvsp: ENST00000218089.9:c.2076G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.2076G>A
  hgvsp: ENST00000371160.1:c.2076G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.2076G>A
  hgvsp: ENST00000371157.3:c.2076G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.2076G>A
  hgvsp: ENST00000371145.3:c.2076G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+62179G>A
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 202
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5793
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1405
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 432
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3001
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 780
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 169
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 959
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2071
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 690
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11832
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1545
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1249
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 53
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25326
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 484
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 247
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 283
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 187
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3988
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 30
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2683
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 28
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2191
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 58
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 133
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5225
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2036
  bin: 2.25e1
  variant carriers: 0
hgvs: p.Lys692Lys
num of homozygotes: 0
population: South Asian
population: African
population: Latino
population: East Asian
population: European (Finnish)
population: Other
population: European (Non-Finnish)
reference allele: G
site quality: VQSLOD
site quality: DP
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: MQ
site quality: QD
site quality: BaseQRankSum
site quality: MQRankSum
site quality: FS
site quality: ClippingRankSum

X-123199782-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123199782
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123199782
    reference: chr 0
allele count: 667
allele frequency: 7.764933235544069e-3
allele num: 85899
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.2082C>T
  hgvsp: ENST00000371145.3:c.2082C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.2082C>T
  hgvsp: ENST00000371144.3:c.2082C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+62185C>T
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.2082C>T
  hgvsp: ENST00000371157.3:c.2082C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.2082C>T
  hgvsp: ENST00000371160.1:c.2082C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.2082C>T
  hgvsp: ENST00000218089.9:c.2082C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1875C>T
  hgvsp: ENST00000354548.5:c.1875C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 1417
  bin: 5.25e1
  variant carriers: 39
genotype depth: GenotypeDepth
  all individuals: 71
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11808
  bin: 2.75e1
  variant carriers: 9
genotype depth: GenotypeDepth
  all individuals: 5737
  bin: 3.25e1
  variant carriers: 13
genotype depth: GenotypeDepth
  all individuals: 1500
  bin: 9.75e1
  variant carriers: 284
genotype depth: GenotypeDepth
  all individuals: 3947
  bin: 3.75e1
  variant carriers: 17
genotype depth: GenotypeDepth
  all individuals: 299
  bin: 7.75e1
  variant carriers: 26
genotype depth: GenotypeDepth
  all individuals: 2987
  bin: 4.25e1
  variant carriers: 31
genotype depth: GenotypeDepth
  all individuals: 1662
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1065
  bin: 1.25e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 972
  bin: 5.75e1
  variant carriers: 36
genotype depth: GenotypeDepth
  all individuals: 207
  bin: 1.75e1
  variant carriers: 11
genotype depth: GenotypeDepth
  all individuals: 24674
  bin: 2.25e1
  variant carriers: 7
genotype depth: GenotypeDepth
  all individuals: 440
  bin: 7.25e1
  variant carriers: 28
genotype depth: GenotypeDepth
  all individuals: 686
  bin: 6.25e1
  variant carriers: 21
genotype depth: GenotypeDepth
  all individuals: 207
  bin: 9.25e1
  variant carriers: 25
genotype depth: GenotypeDepth
  all individuals: 255
  bin: 8.25e1
  variant carriers: 19
genotype depth: GenotypeDepth
  all individuals: 229
  bin: 8.75e1
  variant carriers: 34
genotype depth: GenotypeDepth
  all individuals: 481
  bin: 6.75e1
  variant carriers: 22
genotype depth: GenotypeDepth
  all individuals: 2052
  bin: 4.75e1
  variant carriers: 28
genotype quality: GenotypeQuality
  all individuals: 1689
  bin: 9.25e1
  variant carriers: 5
genotype quality: GenotypeQuality
  all individuals: 1795
  bin: 7.25e1
  variant carriers: 2
genotype quality: GenotypeQuality
  all individuals: 35
  bin: 1.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 188
  bin: 3.25e1
  variant carriers: 4
genotype quality: GenotypeQuality
  all individuals: 5142
  bin: 6.75e1
  variant carriers: 3
genotype quality: GenotypeQuality
  all individuals: 2650
  bin: 7.75e1
  variant carriers: 4
genotype quality: GenotypeQuality
  all individuals: 82
  bin: 7.5e0
  variant carriers: 2
genotype quality: GenotypeQuality
  all individuals: 12
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2335
  bin: 2.25e1
  variant carriers: 0
hgvs: p.Ile694Ile
num of homozygotes: 16
population: East Asian
population: European (Finnish)
population: European (Non-Finnish)
population: African
population: South Asian
population: Latino
population: Other
reference allele: C
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: MQ
site quality: ClippingRankSum
site quality: ReadPosRankSum
site quality: VQSLOD
site quality: FS
site quality: DP
site quality: QD
site quality: BaseQRankSum

X-123199820-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123199820
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123199820
    reference: chr 0
allele count: 1
allele frequency: 1.189428360729833e-5
allele num: 84074
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+62223G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.2096+24G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.2096+24G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1889+24G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.2096+24G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.2096+24G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.2096+24G>A
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 2761
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6044
  bin: 1.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3994
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 471
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5776
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16970
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2513
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 555
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10888
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2999
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 186
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1406
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 683
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 431
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2066
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 954
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 287
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 242
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1257
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 11529
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 362
  bin: 4.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 48
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2107
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1756
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 640
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 217
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 202
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1257
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 217
  bin: 1.75e1
  variant carriers: 0
num of homozygotes: 0
population: Latino
population: South Asian
population: Other
population: European (Finnish)
population: African
population: East Asian
population: European (Non-Finnish)
reference allele: G
site quality: VQSLOD
site quality: FS
site quality: MQ
site quality: DP
site quality: InbreedingCoeff
site quality: QD

X-123199824-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123199824
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123199824
    reference: chr 0
allele count: 1
allele frequency: 1.19161105815062e-5
allele num: 83920
alternate allele: C
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.2096+28T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.2096+28T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.2096+28T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1889+28T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+62227T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.2096+28T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.2096+28T>C
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 645
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2860
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1406
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 186
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3586
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10550
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1257
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 15433
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 287
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 431
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 242
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5736
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 471
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3000
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6696
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3991
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 954
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 683
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2066
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 20478
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 215
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4749
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5550
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 46
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 261
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2660
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2645
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2194
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1706
  bin: 9.25e1
  variant carriers: 0
num of homozygotes: 0
population: European (Non-Finnish)
population: African
population: Other
population: Latino
population: European (Finnish)
population: East Asian
population: South Asian
reference allele: T
site quality: MQ
site quality: MQRankSum
site quality: FS
site quality: ClippingRankSum
site quality: DP
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: QD

X-123199829-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123199829
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123199829
    reference: chr 0
allele count: 1
allele frequency: 1.198207481607515e-5
allele num: 83458
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1889+33A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.2096+33A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.2096+33A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.2096+33A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+62232A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.2096+33A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.2096+33A>G
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 3983
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 431
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5614
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 765
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 954
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 682
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7192
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 287
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2066
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12238
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9657
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3109
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1405
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1257
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6931
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 471
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 243
  bin: 8.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3000
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 186
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 205
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 890
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2092
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3066
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1698
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 15633
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 429
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3609
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 719
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genotype quality: GenotypeQuality
  all individuals: 5439
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4295
  bin: 6.75e1
  variant carriers: 0
num of homozygotes: 0
population: Other
population: Latino
population: European (Finnish)
population: European (Non-Finnish)
population: South Asian
population: African
population: East Asian
reference allele: A
site quality: VQSLOD
site quality: QD
site quality: InbreedingCoeff
site quality: ClippingRankSum
site quality: ReadPosRankSum
site quality: MQ
site quality: BaseQRankSum
site quality: DP
site quality: FS
site quality: MQRankSum

X-123199834-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123199834
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123199834
    reference: chr 0
allele count: 1
allele frequency: 1.201576468326444e-5
allele num: 83224
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.2096+38G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.2096+38G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.2096+38G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1889+38G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.2096+38G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.2096+38G>A
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+62237G>A
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 5532
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 205
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 682
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 186
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3243
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7773
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3003
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 783
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 287
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11740
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2066
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 431
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7192
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1257
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
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  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
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  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
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  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
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  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 471
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 242
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 15303
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 102
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4232
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1705
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
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  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
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  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1326
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2139
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5515
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3372
  bin: 3.75e1
  variant carriers: 0
num of homozygotes: 0
population: African
population: European (Finnish)
population: European (Non-Finnish)
population: South Asian
population: East Asian
population: Other
population: Latino
reference allele: G
site quality: ReadPosRankSum
site quality: MQ
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: FS
site quality: MQRankSum
site quality: QD
site quality: DP

X-123199981-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123199981
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123199981
    reference: chr 0
allele count: 3
allele frequency: 6.245576050297706e-5
allele num: 48034
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+62384T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.2097-44T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1890-44T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.2097-44T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.2097-44T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.2097-44T>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.2097-44T>C
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 3458
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 4903
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 39
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  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6864
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
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  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
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  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 67
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
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  bin: 7.5e0
  variant carriers: 1
genotype depth: GenotypeDepth
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  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
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  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 473
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
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  bin: 1.25e1
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genotype depth: GenotypeDepth
  all individuals: 234
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
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  variant carriers: 0
genotype depth: GenotypeDepth
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  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
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  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31
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  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 141
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 309
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3536
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1371
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
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  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 9335
  bin: 7.5e0
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 3869
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
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  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 604
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4584
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3823
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1554
  bin: 6.75e1
  variant carriers: 0
num of homozygotes: 0
population: European (Non-Finnish)
population: Latino
population: South Asian
population: African
population: European (Finnish)
population: East Asian
population: Other
reference allele: T
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: VQSLOD
site quality: MQRankSum
site quality: FS
site quality: MQ
site quality: InbreedingCoeff
site quality: ClippingRankSum
site quality: DP
site quality: QD

X-123199985-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123199985
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123199985
    reference: chr 0
allele count: 2
allele frequency: 4.002561639449247e-5
allele num: 49968
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.2097-40A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.2097-40A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1890-40A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.2097-40A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.2097-40A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.2097-40A>G
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+62388A>G
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 15397
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 114
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6089
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 245
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 356
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 69
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12825
  bin: 1.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 4591
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5527
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 8359
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 139
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
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  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
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  variant carriers: 0
genotype depth: GenotypeDepth
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  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
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  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 475
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2473
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1191
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 299
  bin: 5.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 303
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2575
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1805
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3727
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
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  bin: 7.25e1
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genotype quality: GenotypeQuality
  all individuals: 4142
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 364
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 934
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 9455
  bin: 7.5e0
  variant carriers: 0
num of homozygotes: 0
population: East Asian
population: Latino
population: Other
population: South Asian
population: European (Non-Finnish)
population: European (Finnish)
population: African
reference allele: A
site quality: ReadPosRankSum
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: QD
site quality: ClippingRankSum
site quality: BaseQRankSum
site quality: MQ
site quality: FS
site quality: MQRankSum
site quality: DP

X-123199988-A-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 24123199988
    reference: chr 0
  end: Position
    type: ExactPosition
    position: 24123199988
    reference: chr 0
allele count: 1
allele frequency: 1.929794090970494e-5
allele num: 51819
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000346555
  ensembl transcript: ENST00000354548
  gene symbol: STAG2
  hgvsc: ENST00000354548.5:c.1890-37A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360202
  ensembl transcript: ENST00000371160
  gene symbol: STAG2
  hgvsc: ENST00000371160.1:c.2097-37A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360186
  ensembl transcript: ENST00000371144
  gene symbol: STAG2
  hgvsc: ENST00000371144.3:c.2097-37A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360187
  ensembl transcript: ENST00000371145
  gene symbol: STAG2
  hgvsc: ENST00000371145.3:c.2097-37A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000360199
  ensembl transcript: ENST00000371157
  gene symbol: STAG2
  hgvsc: ENST00000371157.3:c.2097-37A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl transcript: ENST00000469481
  gene symbol: STAG2
  hgvsc: ENST00000469481.1:n.453+62391A>C
  variant of: http://identifiers.org/hgnc/11355
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000101972
  ensembl protein: ENSP00000218089
  ensembl transcript: ENST00000218089
  gene symbol: STAG2
  hgvsc: ENST00000218089.9:c.2097-37A>C
  variant of: http://identifiers.org/hgnc/11355
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 726
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 83
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 45
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 275
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2954
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12064
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5351
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
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  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
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  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
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  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 39
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4699
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7202
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 117
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 144
  bin: 5.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1354
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 427
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 69
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7718
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 475
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3508
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1873
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1316
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 875
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2477
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 16572
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 376
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3278
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3558
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1948
  bin: 3.75e1
  variant carriers: 0
num of homozygotes: 0
population: Latino
reference allele: A

GenotypeQuality
all individuals: 2087
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 4161
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2256
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1742
bin: 9.25e1
variant carriers: 1

GenotypeQuality
all individuals: 3402
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 317
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 10781
bin: 9.75e1
variant carriers: 5

GenotypeQuality
all individuals: 547
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 535
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1210
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2326
bin: 5.25e1
variant carriers: 1

GenotypeQuality
all individuals: 2702
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 4134
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2569
bin: 2.75e1
variant carriers: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9588
num of homozygotes: 0

African
type: Population
allele count: 5
allele frequency: 5.983008256551394e-4
allele num: 8357
num of homozygotes: 1

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 616
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 2
allele frequency: 4.299595837991229e-5
allele num: 46516
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4477
num of homozygotes: 0

Latino
type: Population
allele count: 1
allele frequency: 1.090869422930075e-4
allele num: 9167
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6431
num of homozygotes: 0

ReadPosRankSum
type: SiteQuality
SIO_000300: -2.9e-2

ClippingRankSum
type: SiteQuality
SIO_000300: -4.03e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 2.41e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 5.28e-2

DP
type: SiteQuality
SIO_000300: 1.699951e6

FS
type: SiteQuality
SIO_000300: 4.38e-1

MQRankSum
type: SiteQuality
SIO_000300: 6.51e-1

VQSLOD
type: SiteQuality
SIO_000300: -6.589e-1

QD
type: SiteQuality
SIO_000300: 1.936e1

MQ
type: SiteQuality
SIO_000300: 6.0e1

GenotypeQuality
all individuals: 84
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 3128
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 4131
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1933
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2797
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 2225
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 613
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 597
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 331
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 423
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 24060
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1157
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1064
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 309
bin: 9.25e1
variant carriers: 0

South Asian
type: Population
allele count: 1
allele frequency: 1.098056440101021e-4
allele num: 9107
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6388
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4443
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9034
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 602
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8136
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 44962
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: 5.11e-1

DP
type: SiteQuality
SIO_000300: 1.430545e6

QD
type: SiteQuality
SIO_000300: 2.151e1

InbreedingCoeff
type: SiteQuality
SIO_000300: -7.0e-4

BaseQRankSum
type: SiteQuality
SIO_000300: 4.2e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.75e0

FS
type: SiteQuality
SIO_000300: 6.829e0

ClippingRankSum
type: SiteQuality
SIO_000300: -1.76e0

VQSLOD
type: SiteQuality
SIO_000300: -2.27e0

GenotypeQuality
all individuals: 382
bin: 7.5e0
variant carriers: 1

GenotypeQuality
all individuals: 6439
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2659
bin: 4.75e1
variant carriers: 0

GenotypeQuality
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bin: 3.75e1
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GenotypeQuality
all individuals: 1045
bin: 7.75e1
variant carriers: 0

GenotypeQuality
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bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2793
bin: 9.75e1
variant carriers: 1

GenotypeQuality
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bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 4210
bin: 6.75e1
variant carriers: 0

GenotypeQuality
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bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2519
bin: 2.75e1
variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
all individuals: 362
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 184
bin: 8.75e1
variant carriers: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9085
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 2.229058000089162e-5
allele num: 44862
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 598
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8121
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9029
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6394
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4441
num of homozygotes: 0

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.6e-3

DP
type: SiteQuality
SIO_000300: 1.430403e6

ClippingRankSum
type: SiteQuality
SIO_000300: 1.42e0

VQSLOD
type: SiteQuality
SIO_000300: 1.7e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 6.8e-1

FS
type: SiteQuality
SIO_000300: 0.0e0

MQRankSum
type: SiteQuality
SIO_000300: 7.17e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 1.36e0

QD
type: SiteQuality
SIO_000300: 1.644e1

GenotypeQuality
all individuals: 84
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 183
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1818
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 367
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variant carriers: 0

GenotypeQuality
all individuals: 519
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 951
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variant carriers: 0

GenotypeQuality
all individuals: 6467
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1033
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 789
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variant carriers: 1

GenotypeQuality
all individuals: 4174
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 273
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2505
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 558
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2794
bin: 9.75e1
variant carriers: 3

South Asian
type: Population
allele count: 4
allele frequency: 4.414523783246882e-4
allele num: 9061
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4441
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8113
num of homozygotes: 0

East Asian
type: Population
allele count: 1
allele frequency: 1.564455569461827e-4
allele num: 6392
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 596
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9021
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 44818
num of homozygotes: 0

ClippingRankSum
type: SiteQuality
SIO_000300: -4.0e-1

FS
type: SiteQuality
SIO_000300: 7.277e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.09e-2

ReadPosRankSum
type: SiteQuality
SIO_000300: 4.0e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

DP
type: SiteQuality
SIO_000300: 1.432766e6

VQSLOD
type: SiteQuality
SIO_000300: -3.803e-1

MQRankSum
type: SiteQuality
SIO_000300: 8.52e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 3.32e0

QD
type: SiteQuality
SIO_000300: 1.743e1

GenotypeQuality
all individuals: 248
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 3686
bin: 3.75e1
variant carriers: 1

GenotypeQuality
all individuals: 6641
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 4050
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2447
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 364
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1022
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 4148
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 183
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 925
bin: 7.25e1
variant carriers: 1

GenotypeQuality
all individuals: 292
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variant carriers: 0

GenotypeQuality
all individuals: 28109
bin: 6.25e1
variant carriers: 1

GenotypeQuality
all individuals: 2794
bin: 9.75e1
variant carriers: 12

GenotypeQuality
all individuals: 558
bin: 8.25e1
variant carriers: 0

East Asian
type: Population
allele count: 12
allele frequency: 1.878816345702208e-3
allele num: 6387
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9025
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 595
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 44845
num of homozygotes: 0

South Asian
type: Population
allele count: 2
allele frequency: 2.206044562100154e-4
allele num: 9066
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8110
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4445
num of homozygotes: 0

QD
type: SiteQuality
SIO_000300: 1.881e1

FS
type: SiteQuality
SIO_000300: 5.22e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 3.45e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 8.88e-1

VQSLOD
type: SiteQuality
SIO_000300: 1.58e0

MQRankSum
type: SiteQuality
SIO_000300: 3.87e-1

DP
type: SiteQuality
SIO_000300: 1.439526e6

MQ
type: SiteQuality
SIO_000300: 5.968e1

ClippingRankSum
type: SiteQuality
SIO_000300: -3.87e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 4.39e-2

GenotypeQuality
all individuals: 6657
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2786
bin: 9.75e1
variant carriers: 0

GenotypeQuality
all individuals: 222
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 432
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variant carriers: 0

GenotypeQuality
all individuals: 337
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 178
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variant carriers: 0

GenotypeQuality
all individuals: 3972
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 341
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 1008
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variant carriers: 0

GenotypeQuality
all individuals: 919
bin: 5.25e1
variant carriers: 1

GenotypeQuality
all individuals: 916
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1781
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 4170
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2404
bin: 2.75e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8115
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9076
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6393
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9031
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 596
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4445
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 2.228710245380998e-5
allele num: 44869
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: 1.73e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

FS
type: SiteQuality
SIO_000300: 0.0e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 7.8e-3

DP
type: SiteQuality
SIO_000300: 1.442196e6

QD
type: SiteQuality
SIO_000300: 3.124e1

GenotypeQuality
all individuals: 283
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 2785
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 6676
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 31309
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 3490
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 256
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 990
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 172
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2817
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 865
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variant carriers: 0

GenotypeQuality
all individuals: 52
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 548
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 180
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 903
bin: 7.25e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4445
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 2.227766886472999e-5
allele num: 44888
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9064
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8130
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6420
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9031
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 593
num of homozygotes: 0

ReadPosRankSum
type: SiteQuality
SIO_000300: 3.16e0

BaseQRankSum
type: SiteQuality
SIO_000300: 1.29e0

ClippingRankSum
type: SiteQuality
SIO_000300: -2.005e0

MQRankSum
type: SiteQuality
SIO_000300: -2.362e0

MQ
type: SiteQuality
SIO_000300: 5.945e1

QD
type: SiteQuality
SIO_000300: 1.49e1

DP
type: SiteQuality
SIO_000300: 1.461873e6

InbreedingCoeff
type: SiteQuality
SIO_000300: 8.0e-4

FS
type: SiteQuality
SIO_000300: 0.0e0

VQSLOD
type: SiteQuality
SIO_000300: -3.666e0

GenotypeQuality
all individuals: 290
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 2721
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 543
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 984
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 4150
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1047
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 834
bin: 5.25e1
variant carriers: 1

GenotypeQuality
all individuals: 1178
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 177
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2145
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 895
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 3410
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 483
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 31577
bin: 6.25e1
variant carriers: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6419
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9034
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8128
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 1.10938540048813e-4
allele num: 9014
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 2.22960469108827e-5
allele num: 44851
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4442
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 594
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 6.0e1

FS
type: SiteQuality
SIO_000300: 0.0e0

VQSLOD
type: SiteQuality
SIO_000300: 5.610000000000001e-1

QD
type: SiteQuality
SIO_000300: 1.67e1

ClippingRankSum
type: SiteQuality
SIO_000300: -4.68e-1

MQRankSum
type: SiteQuality
SIO_000300: 1.13e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.24e-2

BaseQRankSum
type: SiteQuality
SIO_000300: 1.2e-1

DP
type: SiteQuality
SIO_000300: 1.465526e6

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.47e-1

GenotypeQuality
all individuals: 177
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 295
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 4188
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 3305
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 6614
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 982
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2087
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 69
bin: 2.5e0
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GenotypeQuality
all individuals: 225
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2786
bin: 9.75e1
variant carriers: 2

GenotypeQuality
all individuals: 984
bin: 4.25e1
variant carriers: 0

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

GenotypeQuality
all individuals: 1100
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2594
bin: 3.75e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4445
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9059
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8129
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 2
allele frequency: 4.453450310628159e-5
allele num: 44909
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 595
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6428
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9037
num of homozygotes: 0

ClippingRankSum
type: SiteQuality
SIO_000300: -7.12e-1

DP
type: SiteQuality
SIO_000300: 1.469579e6

MQ
type: SiteQuality
SIO_000300: 5.957e1

FS
type: SiteQuality
SIO_000300: 1.2453e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.16e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.0e-4

MQRankSum
type: SiteQuality
SIO_000300: -1.13e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 1.54e0

VQSLOD
type: SiteQuality
SIO_000300: -1.474e0

QD
type: SiteQuality
SIO_000300: 1.327e1

GenotypeQuality
all individuals: 2784
bin: 9.75e1
variant carriers: 0

GenotypeQuality
all individuals: 903
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 47
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 991
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 296
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 984
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 3128
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 6601
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 549
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 179
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1984
bin: 2.75e1
variant carriers: 0

GenotypeQuality
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bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 33119
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 4226
bin: 6.75e1
variant carriers: 0

East Asian
type: Population
allele count: 1
allele frequency: 1.55448468832582e-4
allele num: 6433
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4446
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9087
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9043
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8130
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 597
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 44964
num of homozygotes: 0

QD
type: SiteQuality
SIO_000300: 2.913e1

DP
type: SiteQuality
SIO_000300: 1.475618e6

InbreedingCoeff
type: SiteQuality
SIO_000300: 7.7e-3

VQSLOD
type: SiteQuality
SIO_000300: 1.46e0

FS
type: SiteQuality
SIO_000300: 0.0e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

GenotypeQuality
all individuals: 125
bin: 1.25e1
variant carriers: 0

GenotypeQuality
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bin: 5.75e1
variant carriers: 0

GenotypeQuality
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bin: 4.75e1
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GenotypeQuality
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bin: 5.25e1
variant carriers: 0

GenotypeQuality
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bin: 8.25e1
variant carriers: 0

GenotypeQuality
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bin: 2.25e1
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GenotypeQuality
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bin: 3.25e1
variant carriers: 0

GenotypeQuality
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bin: 6.75e1
variant carriers: 0

GenotypeQuality
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bin: 9.75e1
variant carriers: 30

GenotypeQuality
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bin: 9.25e1
variant carriers: 0

GenotypeQuality
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bin: 6.25e1
variant carriers: 1

GenotypeQuality
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bin: 7.25e1
variant carriers: 0

GenotypeQuality
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bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 179
bin: 8.75e1
variant carriers: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6440
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4449
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 45004
num of homozygotes: 0

African
type: Population
allele count: 32
allele frequency: 3.934103761986722e-3
allele num: 8134
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9092
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9044
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 597
num of homozygotes: 0

QD
type: SiteQuality
SIO_000300: 1.656e1

MQ
type: SiteQuality
SIO_000300: 6.0e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 6.22e-2

FS
type: SiteQuality
SIO_000300: 0.0e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.28e-1

MQRankSum
type: SiteQuality
SIO_000300: 1.26e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -7.199999999999999e-2

VQSLOD
type: SiteQuality
SIO_000300: 4.44e0

BaseQRankSum
type: SiteQuality
SIO_000300: 2.18e0

DP
type: SiteQuality
SIO_000300: 1.477864e6

GenotypeQuality
all individuals: 2775
bin: 9.75e1
variant carriers: 1

GenotypeQuality
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bin: 8.75e1
variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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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: 902
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GenotypeQuality
all individuals: 794
bin: 5.25e1
variant carriers: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9053
num of homozygotes: 0

South Asian
type: Population
allele count: 2
allele frequency: 2.193944712593243e-4
allele num: 9116
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6456
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 45150
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 594
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4449
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8147
num of homozygotes: 0

InbreedingCoeff
type: SiteQuality
SIO_000300: 7.6e-3

MQRankSum
type: SiteQuality
SIO_000300: 7.4e-2

MQ
type: SiteQuality
SIO_000300: 6.0e1

BaseQRankSum
type: SiteQuality
SIO_000300: 2.89e0

VQSLOD
type: SiteQuality
SIO_000300: 8.97e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -6.17e-1

FS
type: SiteQuality
SIO_000300: 1.792e0

QD
type: SiteQuality
SIO_000300: 2.041e1

DP
type: SiteQuality
SIO_000300: 1.495793e6

ReadPosRankSum
type: SiteQuality
SIO_000300: 4.19e-1

GenotypeQuality
all individuals: 180
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 174
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variant carriers: 0

GenotypeQuality
all individuals: 48
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 4

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 1379
bin: 3.75e1
variant carriers: 0

African
type: Population
allele count: 2
allele frequency: 2.451280794214978e-4
allele num: 8159
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4455
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6481
num of homozygotes: 0

Other
type: Population
allele count: 1
allele frequency: 1.672240802675585e-3
allele num: 598
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9150
num of homozygotes: 0

Latino
type: Population
allele count: 2
allele frequency: 2.207749199690915e-4
allele num: 9059
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 45241
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: 3.19e0

MQ
type: SiteQuality
SIO_000300: 5.963e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 5.75e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -7.69e-1

FS
type: SiteQuality
SIO_000300: 1.878e0

QD
type: SiteQuality
SIO_000300: 1.572e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.55e-2

MQRankSum
type: SiteQuality
SIO_000300: 9.3e-2

BaseQRankSum
type: SiteQuality
SIO_000300: -2.374e0

DP
type: SiteQuality
SIO_000300: 1.512565e6

GenotypeQuality
all individuals: 182
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1172
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 28
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GenotypeQuality
all individuals: 150
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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: 1

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
all individuals: 922
bin: 7.25e1
variant carriers: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9200
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 597
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9077
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4459
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6495
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8196
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 2.20453693701638e-5
allele num: 45361
num of homozygotes: 0

DP
type: SiteQuality
SIO_000300: 1.525724e6

BaseQRankSum
type: SiteQuality
SIO_000300: -3.82e-1

FS
type: SiteQuality
SIO_000300: 0.0e0

MQRankSum
type: SiteQuality
SIO_000300: 6.81e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

VQSLOD
type: SiteQuality
SIO_000300: -3.518e0

ClippingRankSum
type: SiteQuality
SIO_000300: -1.325e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 2.28e0

QD
type: SiteQuality
SIO_000300: 1.01e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 4.6e-3

GenotypeQuality
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bin: 2.5e0
variant carriers: 0

GenotypeQuality
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variant carriers: 0

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

GenotypeQuality
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GenotypeQuality
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bin: 9.75e1
variant carriers: 1

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4450
num of homozygotes: 0

Latino
type: Population
allele count: 1
allele frequency: 1.100352112676056e-4
allele num: 9088
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8292
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 45560
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6521
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 610
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9400
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: 3.38e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 1.72e0

FS
type: SiteQuality
SIO_000300: 2.5135e1

VQSLOD
type: SiteQuality
SIO_000300: -4.935e0

QD
type: SiteQuality
SIO_000300: 5.13e0

MQ
type: SiteQuality
SIO_000300: 5.944e1

DP
type: SiteQuality
SIO_000300: 1.565428e6

ReadPosRankSum
type: SiteQuality
SIO_000300: -1.045e0

BaseQRankSum
type: SiteQuality
SIO_000300: 2.75e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -7.0e-4

GenotypeQuality
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bin: 9.25e1
variant carriers: 2

GenotypeQuality
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bin: 9.75e1
variant carriers: 0

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

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 1

GenotypeQuality
all individuals: 129
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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: 924
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variant carriers: 0

GenotypeQuality
all individuals: 4505
bin: 6.75e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8291
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6510
num of homozygotes: 0

South Asian
type: Population
allele count: 2
allele frequency: 2.129698647641359e-4
allele num: 9391
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 2.202691689244256e-5
allele num: 45399
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4436
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9074
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 608
num of homozygotes: 0

InbreedingCoeff
type: SiteQuality
SIO_000300: 4.39e-2

FS
type: SiteQuality
SIO_000300: 0.0e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

DP
type: SiteQuality
SIO_000300: 1.562935e6

QD
type: SiteQuality
SIO_000300: 2.767e1

VQSLOD
type: SiteQuality
SIO_000300: 1.24e-1

GenotypeQuality
all individuals: 61
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 545
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 122
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GenotypeQuality
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GenotypeQuality
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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: 2776
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variant carriers: 3

GenotypeQuality
all individuals: 902
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GenotypeQuality
all individuals: 219
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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bin: 7.75e1
variant carriers: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9303
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9029
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 3
allele frequency: 6.669186136985083e-5
allele num: 44983
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8272
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4411
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6488
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 605
num of homozygotes: 0

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.29e-2

MQ
type: SiteQuality
SIO_000300: 6.0e1

ClippingRankSum
type: SiteQuality
SIO_000300: 4.42e-1

VQSLOD
type: SiteQuality
SIO_000300: -5.23e-1

DP
type: SiteQuality
SIO_000300: 1.550579e6

MQRankSum
type: SiteQuality
SIO_000300: -1.229e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 5.85e-1

FS
type: SiteQuality
SIO_000300: 0.0e0

QD
type: SiteQuality
SIO_000300: 1.693e1

BaseQRankSum
type: SiteQuality
SIO_000300: -1.124e0

GenotypeQuality
all individuals: 364
bin: 5.25e1
variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 175
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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bin: 9.75e1
variant carriers: 1

GenotypeQuality
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GenotypeQuality
all individuals: 262
bin: 5.75e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4358
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 2.263467632412856e-5
allele num: 44180
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8218
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8944
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6434
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 594
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9109
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: 1.59e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -4.0e-4

ClippingRankSum
type: SiteQuality
SIO_000300: -8.43e-1

FS
type: SiteQuality
SIO_000300: 9.55e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 7.16e-1

DP
type: SiteQuality
SIO_000300: 1.519692e6

VQSLOD
type: SiteQuality
SIO_000300: 2.77e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 8.64e-1

MQ
type: SiteQuality
SIO_000300: 5.952e1

QD
type: SiteQuality
SIO_000300: 1.229e1

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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bin: 6.75e1
variant carriers: 0

African
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allele count: 0
allele frequency: 0.0e0
allele num: 7652
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 534
num of homozygotes: 0

European (Finnish)
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allele count: 0
allele frequency: 0.0e0
allele num: 3953
num of homozygotes: 0

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

European (Non-Finnish)
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allele count: 1
allele frequency: 2.59511081123164e-5
allele num: 38534
num of homozygotes: 0

South Asian
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allele frequency: 0.0e0
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East Asian
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allele frequency: 0.0e0
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ClippingRankSum
type: SiteQuality
SIO_000300: 8.51e-1

BaseQRankSum
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QD
type: SiteQuality
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FS
type: SiteQuality
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DP
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InbreedingCoeff
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ReadPosRankSum
type: SiteQuality
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MQ
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SIO_000300: 5.888e1

MQRankSum
type: SiteQuality
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VQSLOD
type: SiteQuality
SIO_000300: 2.81e0

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

Other
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allele frequency: 0.0e0
allele num: 524
num of homozygotes: 0

East Asian
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allele frequency: 0.0e0
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South Asian
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allele frequency: 0.0e0
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European (Finnish)
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allele count: 0
allele frequency: 0.0e0
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num of homozygotes: 0

African
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allele frequency: 0.0e0
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num of homozygotes: 0

Latino
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allele count: 2
allele frequency: 2.474941220146022e-4
allele num: 8081
num of homozygotes: 0

European (Non-Finnish)
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allele count: 3
allele frequency: 8.046778606297945e-5
allele num: 37282
num of homozygotes: 0

BaseQRankSum
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MQRankSum
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MQ
type: SiteQuality
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ClippingRankSum
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FS
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InbreedingCoeff
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SIO_000300: 5.999999999999999e-4

VQSLOD
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DP
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QD
type: SiteQuality
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ReadPosRankSum
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SIO_000300: 2.22e-1

GenotypeQuality
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variant carriers: 1

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 1

South Asian
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allele count: 2
allele frequency: 3.102218085931441e-4
allele num: 6447
num of homozygotes: 0

Latino
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allele count: 0
allele frequency: 0.0e0
allele num: 7526
num of homozygotes: 0

European (Non-Finnish)
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allele frequency: 1.183256914657595e-4
allele num: 33805
num of homozygotes: 0

African
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allele count: 0
allele frequency: 0.0e0
allele num: 7050
num of homozygotes: 0

Other
type: Population
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allele frequency: 0.0e0
allele num: 498
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East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5281
num of homozygotes: 0

European (Finnish)
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allele count: 0
allele frequency: 0.0e0
allele num: 3684
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 6.0e1

VQSLOD
type: SiteQuality
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MQRankSum
type: SiteQuality
SIO_000300: 1.93e-1

BaseQRankSum
type: SiteQuality
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QD
type: SiteQuality
SIO_000300: 1.84e0

DP
type: SiteQuality
SIO_000300: 1.108452e6

FS
type: SiteQuality
SIO_000300: 2.0925e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.19e-2

ReadPosRankSum
type: SiteQuality
SIO_000300: 0.0e0

ClippingRankSum
type: SiteQuality
SIO_000300: -5.6e-2

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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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: 3684
num of homozygotes: 0

East Asian
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allele count: 0
allele frequency: 0.0e0
allele num: 5281
num of homozygotes: 0

South Asian
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allele frequency: 1.551109042965721e-4
allele num: 6447
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7050
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 498
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7526
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 2.958142286643988e-5
allele num: 33805
num of homozygotes: 0

FS
type: SiteQuality
SIO_000300: 2.0925e1

DP
type: SiteQuality
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InbreedingCoeff
type: SiteQuality
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MQ
type: SiteQuality
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BaseQRankSum
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ReadPosRankSum
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SIO_000300: 0.0e0

VQSLOD
type: SiteQuality
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MQRankSum
type: SiteQuality
SIO_000300: 1.93e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -5.6e-2

QD
type: SiteQuality
SIO_000300: 1.84e0

GenotypeQuality
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GenotypeQuality
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variant carriers: 3

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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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: 6454
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3635
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7490
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6914
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 4
allele frequency: 1.204601578028067e-4
allele num: 33206
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 481
num of homozygotes: 0

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

FS
type: SiteQuality
SIO_000300: 2.426e0

BaseQRankSum
type: SiteQuality
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QD
type: SiteQuality
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VQSLOD
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MQRankSum
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ClippingRankSum
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DP
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ReadPosRankSum
type: SiteQuality
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MQ
type: SiteQuality
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InbreedingCoeff
type: SiteQuality
SIO_000300: -7.5e-3

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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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

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 474
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European (Finnish)
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allele count: 0
allele frequency: 0.0e0
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East Asian
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allele frequency: 0.0e0
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South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6320
num of homozygotes: 0

Latino
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allele count: 0
allele frequency: 0.0e0
allele num: 7396
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 3.090234857849197e-5
allele num: 32360
num of homozygotes: 0

African
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allele count: 0
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num of homozygotes: 0

ReadPosRankSum
type: SiteQuality
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BaseQRankSum
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ClippingRankSum
type: SiteQuality
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VQSLOD
type: SiteQuality
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FS
type: SiteQuality
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QD
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MQRankSum
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DP
type: SiteQuality
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MQ
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InbreedingCoeff
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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bin: 9.75e1
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Other
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East Asian
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allele frequency: 0.0e0
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num of homozygotes: 0

European (Non-Finnish)
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num of homozygotes: 0

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

Other
type: Population
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num of homozygotes: 0

East Asian
type: Population
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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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African
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allele frequency: 0.0e0
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Latino
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European (Finnish)
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num of homozygotes: 0

South Asian
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DP
type: SiteQuality
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ReadPosRankSum
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QD
type: SiteQuality
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MQRankSum
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VQSLOD
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FS
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MQ
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InbreedingCoeff
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BaseQRankSum
type: SiteQuality
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ClippingRankSum
type: SiteQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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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 frequency: 0.0e0
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num of homozygotes: 0

East Asian
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allele frequency: 0.0e0
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European (Non-Finnish)
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allele frequency: 2.31101661620947e-5
allele num: 43271
num of homozygotes: 0

European (Finnish)
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Other
type: Population
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allele num: 561
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African
type: Population
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MQ
type: SiteQuality
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QD
type: SiteQuality
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BaseQRankSum
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FS
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ClippingRankSum
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SIO_000300: -1.743e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.0e-3

VQSLOD
type: SiteQuality
SIO_000300: -2.421e0

MQRankSum
type: SiteQuality
SIO_000300: 1.74e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.59e0

DP
type: SiteQuality
SIO_000300: 1.167183e6

GenotypeQuality
all individuals: 704
bin: 1.75e1
variant carriers: 0

GenotypeQuality
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bin: 8.25e1
variant carriers: 0

GenotypeQuality
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bin: 4.25e1
variant carriers: 0

GenotypeQuality
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bin: 3.75e1
variant carriers: 0

GenotypeQuality
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bin: 1.25e1
variant carriers: 0

GenotypeQuality
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bin: 9.75e1
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: 9.25e1
variant carriers: 0

GenotypeQuality
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bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 7081
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 3295
bin: 6.75e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 43393
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8942
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4384
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7388
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 562
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6263
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7980
num of homozygotes: 0

FS
type: SiteQuality
SIO_000300: 0.0e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.2e-3

ReadPosRankSum
type: SiteQuality
SIO_000300: 6.78e-1

MQ
type: SiteQuality
SIO_000300: 5.899e1

QD
type: SiteQuality
SIO_000300: 2.818e1

BaseQRankSum
type: SiteQuality
SIO_000300: 1.28e0

MQRankSum
type: SiteQuality
SIO_000300: 9.8e-1

DP
type: SiteQuality
SIO_000300: 1.190656e6

VQSLOD
type: SiteQuality
SIO_000300: -2.31e0

ClippingRankSum
type: SiteQuality
SIO_000300: -9.8e-1

GenotypeQuality
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bin: 3.25e1
variant carriers: 0

GenotypeQuality
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bin: 6.25e1
variant carriers: 0

GenotypeQuality
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bin: 7.5e0
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GenotypeQuality
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bin: 9.25e1
variant carriers: 0

GenotypeQuality
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bin: 3.75e1
variant carriers: 0

GenotypeQuality
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bin: 4.25e1
variant carriers: 0

GenotypeQuality
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bin: 6.75e1
variant carriers: 0

GenotypeQuality
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bin: 4.75e1
variant carriers: 0

GenotypeQuality
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bin: 5.75e1
variant carriers: 0

GenotypeQuality
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bin: 9.75e1
variant carriers: 0

GenotypeQuality
all individuals: 994
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 583
bin: 7.75e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 43437
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7985
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6273
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8946
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4384
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 562
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7413
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 5.903e1

MQRankSum
type: SiteQuality
SIO_000300: 4.33e-1

FS
type: SiteQuality
SIO_000300: 0.0e0

DP
type: SiteQuality
SIO_000300: 1.194786e6

ClippingRankSum
type: SiteQuality
SIO_000300: -8.67e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 7.22e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 3.0e-4

VQSLOD
type: SiteQuality
SIO_000300: -2.737e-1

QD
type: SiteQuality
SIO_000300: 2.832e1

BaseQRankSum
type: SiteQuality
SIO_000300: 1.16e0

GenotypeQuality
all individuals: 2041
bin: 4.25e1
variant carriers: 0

GenotypeQuality
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bin: 8.25e1
variant carriers: 0

GenotypeQuality
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bin: 7.5e0
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GenotypeQuality
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bin: 6.75e1
variant carriers: 0

GenotypeQuality
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bin: 3.25e1
variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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bin: 3.75e1
variant carriers: 0

GenotypeQuality
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bin: 2.25e1
variant carriers: 1

GenotypeQuality
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bin: 7.25e1
variant carriers: 0

GenotypeQuality
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bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 190
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1369
bin: 9.75e1
variant carriers: 1

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8952
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 557
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4383
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7407
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7990
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6270
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 2.301231158669889e-5
allele num: 43455
num of homozygotes: 0

FS
type: SiteQuality
SIO_000300: 0.0e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 4.4e-3

ReadPosRankSum
type: SiteQuality
SIO_000300: 2.82e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 3.53e0

DP
type: SiteQuality
SIO_000300: 1.200207e6

MQRankSum
type: SiteQuality
SIO_000300: -8.94e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

QD
type: SiteQuality
SIO_000300: 1.5e1

ClippingRankSum
type: SiteQuality
SIO_000300: 0.0e0

VQSLOD
type: SiteQuality
SIO_000300: 3.61e-1

GenotypeQuality
all individuals: 582
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 3589
bin: 6.75e1
variant carriers: 0

GenotypeQuality
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bin: 1.25e1
variant carriers: 0

GenotypeQuality
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bin: 2.5e0
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GenotypeQuality
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bin: 9.75e1
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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bin: 3.25e1
variant carriers: 0

GenotypeQuality
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bin: 8.75e1
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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bin: 4.75e1
variant carriers: 1

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 573
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4418
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 44297
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6381
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9041
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8092
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 1.296512381693245e-4
allele num: 7713
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: -3.203e0

BaseQRankSum
type: SiteQuality
SIO_000300: -2.349e0

ReadPosRankSum
type: SiteQuality
SIO_000300: -1.739e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.1e-2

VQSLOD
type: SiteQuality
SIO_000300: -4.201e0

QD
type: SiteQuality
SIO_000300: 1.193e1

MQ
type: SiteQuality
SIO_000300: 6.0e1

DP
type: SiteQuality
SIO_000300: 1.308507e6

ClippingRankSum
type: SiteQuality
SIO_000300: -2.349e0

FS
type: SiteQuality
SIO_000300: 0.0e0

GenotypeQuality
all individuals: 33
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 208
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1097
bin: 3.75e1
variant carriers: 0

GenotypeQuality
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bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 73
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1371
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 321
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 141
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 605
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GenotypeQuality
all individuals: 2079
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 3715
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 189
bin: 9.25e1
variant carriers: 0

East Asian
type: Population
allele count: 1
allele frequency: 1.551831160769708e-4
allele num: 6444
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7915
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4441
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 44915
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8133
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9104
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 579
num of homozygotes: 0

BaseQRankSum
type: SiteQuality
SIO_000300: 6.02e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 4.89e-1

MQRankSum
type: SiteQuality
SIO_000300: -1.6e-2

DP
type: SiteQuality
SIO_000300: 1.345372e6

MQ
type: SiteQuality
SIO_000300: 5.979e1

ClippingRankSum
type: SiteQuality
SIO_000300: -5.39e-1

VQSLOD
type: SiteQuality
SIO_000300: 4.09e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.5e-3

FS
type: SiteQuality
SIO_000300: 0.0e0

QD
type: SiteQuality
SIO_000300: 1.618e1

GenotypeQuality
all individuals: 347
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 3836
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variant carriers: 0

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

GenotypeQuality
all individuals: 43
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variant carriers: 0

GenotypeQuality
all individuals: 1054
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variant carriers: 0

GenotypeQuality
all individuals: 56
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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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bin: 9.75e1
variant carriers: 1

GenotypeQuality
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variant carriers: 0

GenotypeQuality
all individuals: 611
bin: 7.75e1
variant carriers: 0

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

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 45677
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9168
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8221
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4468
num of homozygotes: 0

East Asian
type: Population
allele count: 1
allele frequency: 1.532801961986511e-4
allele num: 6524
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 596
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8272
num of homozygotes: 0

FS
type: SiteQuality
SIO_000300: 3.911e0

MQRankSum
type: SiteQuality
SIO_000300: 2.22e0

BaseQRankSum
type: SiteQuality
SIO_000300: 6.1e0

VQSLOD
type: SiteQuality
SIO_000300: -6.385999999999999e-1

DP
type: SiteQuality
SIO_000300: 1.386865e6

InbreedingCoeff
type: SiteQuality
SIO_000300: 4.8e-3

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.53e0

ClippingRankSum
type: SiteQuality
SIO_000300: -7.44e-1

QD
type: SiteQuality
SIO_000300: 1.237e1

MQ
type: SiteQuality
SIO_000300: 5.937e1

GenotypeQuality
all individuals: 616
bin: 7.75e1
variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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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: 508
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variant carriers: 0

GenotypeQuality
all individuals: 375
bin: 5.25e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4477
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 45961
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 600
num of homozygotes: 0

South Asian
type: Population
allele count: 4
allele frequency: 4.747774480712166e-4
allele num: 8425
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8249
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9195
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6551
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: -9.52e-1

MQRankSum
type: SiteQuality
SIO_000300: 1.51e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: -7.64e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.39e-2

DP
type: SiteQuality
SIO_000300: 1.401336e6

FS
type: SiteQuality
SIO_000300: 2.933e0

ClippingRankSum
type: SiteQuality
SIO_000300: 4.42e-1

QD
type: SiteQuality
SIO_000300: 1.868e1

BaseQRankSum
type: SiteQuality
SIO_000300: 5.18e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

GenotypeQuality
all individuals: 326
bin: 8.25e1
variant carriers: 0

GenotypeQuality
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GenotypeQuality
all individuals: 452
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GenotypeQuality
all individuals: 16
bin: 2.5e0
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GenotypeQuality
all individuals: 3872
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GenotypeQuality
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GenotypeQuality
all individuals: 143
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GenotypeQuality
all individuals: 46191
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variant carriers: 0

GenotypeQuality
all individuals: 236
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 143
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variant carriers: 0

GenotypeQuality
all individuals: 443
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variant carriers: 0

GenotypeQuality
all individuals: 1369
bin: 9.75e1
variant carriers: 2

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6567
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8555
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4486
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 603
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8279
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9204
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 2
allele frequency: 4.33116053446521e-5
allele num: 46177
num of homozygotes: 0

BaseQRankSum
type: SiteQuality
SIO_000300: -9.74e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: -9.2e-1

FS
type: SiteQuality
SIO_000300: 3.928e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.66e-2

ClippingRankSum
type: SiteQuality
SIO_000300: -1.029e0

MQ
type: SiteQuality
SIO_000300: 5.923e1

VQSLOD
type: SiteQuality
SIO_000300: -2.625e0

MQRankSum
type: SiteQuality
SIO_000300: 7.04e-1

QD
type: SiteQuality
SIO_000300: 2.144e1

DP
type: SiteQuality
SIO_000300: 1.411827e6

GenotypeQuality
all individuals: 4269
bin: 6.75e1
variant carriers: 0

GenotypeQuality
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bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 269
bin: 2.25e1
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GenotypeQuality
all individuals: 56
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GenotypeQuality
all individuals: 1368
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 32
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 34
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variant carriers: 0

GenotypeQuality
all individuals: 41
bin: 3.75e1
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GenotypeQuality
all individuals: 52409
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GenotypeQuality
all individuals: 660
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GenotypeQuality
all individuals: 186
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GenotypeQuality
all individuals: 20
bin: 4.25e1
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GenotypeQuality
all individuals: 342
bin: 8.25e1
variant carriers: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 629
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8500
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4525
num of homozygotes: 0

Latino
type: Population
allele count: 1
allele frequency: 1.075615790039798e-4
allele num: 9297
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10059
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 2.089820484420388e-5
allele num: 47851
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6630
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: 3.0e-2

DP
type: SiteQuality
SIO_000300: 1.493592e6

FS
type: SiteQuality
SIO_000300: 3.858e0

QD
type: SiteQuality
SIO_000300: 1.45e1

VQSLOD
type: SiteQuality
SIO_000300: 5.79e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -3.45e-1

MQ
type: SiteQuality
SIO_000300: 5.955e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 2.76e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.83e-2

BaseQRankSum
type: SiteQuality
SIO_000300: -1.081e0

GenotypeQuality
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bin: 1.25e1
variant carriers: 0

GenotypeQuality
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bin: 8.25e1
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GenotypeQuality
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bin: 2.25e1
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GenotypeQuality
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bin: 6.75e1
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: 4.75e1
variant carriers: 0

GenotypeQuality
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bin: 3.75e1
variant carriers: 0

GenotypeQuality
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bin: 5.25e1
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
all individuals: 8
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 28
bin: 5.75e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 47858
num of homozygotes: 0

Latino
type: Population
allele count: 1
allele frequency: 1.075615790039798e-4
allele num: 9297
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8500
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6630
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 630
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4524
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10065
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: 1.01e0

MQRankSum
type: SiteQuality
SIO_000300: -2.11e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 9.0e-4

FS
type: SiteQuality
SIO_000300: 1.951e0

ClippingRankSum
type: SiteQuality
SIO_000300: -7.95e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

BaseQRankSum
type: SiteQuality
SIO_000300: 2.16e0

QD
type: SiteQuality
SIO_000300: 1.163e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 9.81e-1

DP
type: SiteQuality
SIO_000300: 1.493859e6

GenotypeQuality
all individuals: 22
bin: 3.25e1
variant carriers: 0

GenotypeQuality
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bin: 2.75e1
variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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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: 15
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GenotypeQuality
all individuals: 31
bin: 5.75e1
variant carriers: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9297
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6632
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 630
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 47867
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4524
num of homozygotes: 0

African
type: Population
allele count: 1
allele frequency: 1.175917215428034e-4
allele num: 8504
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10081
num of homozygotes: 0

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.2e-3

MQ
type: SiteQuality
SIO_000300: 5.923e1

FS
type: SiteQuality
SIO_000300: 1.131e0

QD
type: SiteQuality
SIO_000300: 2.49e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 2.12e0

VQSLOD
type: SiteQuality
SIO_000300: -3.942e0

DP
type: SiteQuality
SIO_000300: 1.494518e6

BaseQRankSum
type: SiteQuality
SIO_000300: 2.81e0

ClippingRankSum
type: SiteQuality
SIO_000300: -2.135e0

MQRankSum
type: SiteQuality
SIO_000300: 2.52e-1

GenotypeQuality
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bin: 7.5e0
variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 16

GenotypeQuality
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GenotypeQuality
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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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variant carriers: 0

GenotypeQuality
all individuals: 143
bin: 8.75e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 47874
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10088
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6633
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8506
num of homozygotes: 0

Latino
type: Population
allele count: 18
allele frequency: 1.935900193590019e-3
allele num: 9298
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4524
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 630
num of homozygotes: 0

FS
type: SiteQuality
SIO_000300: 5.33e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 9.22e-1

MQRankSum
type: SiteQuality
SIO_000300: -2.8e-2

QD
type: SiteQuality
SIO_000300: 1.386e1

MQ
type: SiteQuality
SIO_000300: 5.964e1

ClippingRankSum
type: SiteQuality
SIO_000300: -3.15e-1

VQSLOD
type: SiteQuality
SIO_000300: 7.6e-2

DP
type: SiteQuality
SIO_000300: 1.496245e6

BaseQRankSum
type: SiteQuality
SIO_000300: 2.42e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.303e-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

GenotypeQuality
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GenotypeQuality
all individuals: 655
bin: 7.75e1
variant carriers: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9296
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8505
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4524
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 47876
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 630
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6632
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 9.907856930545922e-5
allele num: 10093
num of homozygotes: 0

DP
type: SiteQuality
SIO_000300: 1.495008e6

FS
type: SiteQuality
SIO_000300: 0.0e0

VQSLOD
type: SiteQuality
SIO_000300: -6.976e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 3.17e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 3.54e0

ClippingRankSum
type: SiteQuality
SIO_000300: 3.12e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.01e-2

MQRankSum
type: SiteQuality
SIO_000300: -1.678e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

QD
type: SiteQuality
SIO_000300: 1.57e1

GenotypeQuality
all individuals: 652
bin: 7.75e1
variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 185
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GenotypeQuality
all individuals: 4296
bin: 6.75e1
variant carriers: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 630
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10096
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9294
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6632
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4524
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8503
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 2.088467482561296e-5
allele num: 47882
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 5.964e1

DP
type: SiteQuality
SIO_000300: 1.495545e6

FS
type: SiteQuality
SIO_000300: 0.0e0

QD
type: SiteQuality
SIO_000300: 2.959e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 6.15e-2

VQSLOD
type: SiteQuality
SIO_000300: 2.07e0

GenotypeQuality
all individuals: 12
bin: 7.5e0
variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 4265
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variant carriers: 0

GenotypeQuality
all individuals: 141
bin: 8.75e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8498
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4523
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 630
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 2.090825457890775e-5
allele num: 47828
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6624
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10079
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9291
num of homozygotes: 0

FS
type: SiteQuality
SIO_000300: 0.0e0

QD
type: SiteQuality
SIO_000300: 1.795e1

MQ
type: SiteQuality
SIO_000300: 5.861e1

MQRankSum
type: SiteQuality
SIO_000300: 1.21e-1

VQSLOD
type: SiteQuality
SIO_000300: -2.021e0

BaseQRankSum
type: SiteQuality
SIO_000300: 6.35e-1

DP
type: SiteQuality
SIO_000300: 1.493059e6

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.0e-4

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.82e0

ClippingRankSum
type: SiteQuality
SIO_000300: -1.074e0

GenotypeQuality
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bin: 4.75e1
variant carriers: 0

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

GenotypeQuality
all individuals: 309
bin: 3.25e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 47359
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9242
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 625
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East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6592
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 1.005025125628141e-4
allele num: 9950
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4508
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8451
num of homozygotes: 0

ClippingRankSum
type: SiteQuality
SIO_000300: -3.58e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 7.2e-3

DP
type: SiteQuality
SIO_000300: 1.473296e6

FS
type: SiteQuality
SIO_000300: 1.215e0

MQRankSum
type: SiteQuality
SIO_000300: 6.4e-2

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.74e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 1.33e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

VQSLOD
type: SiteQuality
SIO_000300: 1.06e0

QD
type: SiteQuality
SIO_000300: 7.82e0

GenotypeQuality
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bin: 3.75e1
variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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bin: 9.75e1
variant carriers: 2

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

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8433
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 2.118778735936606e-5
allele num: 47197
num of homozygotes: 0

South Asian
type: Population
allele count: 2
allele frequency: 2.016129032258065e-4
allele num: 9920
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6585
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4503
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9224
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 623
num of homozygotes: 0

FS
type: SiteQuality
SIO_000300: 0.0e0

ClippingRankSum
type: SiteQuality
SIO_000300: 4.44e-1

DP
type: SiteQuality
SIO_000300: 1.467414e6

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.32e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

MQRankSum
type: SiteQuality
SIO_000300: -6.879999999999999e-1

VQSLOD
type: SiteQuality
SIO_000300: -1.153e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.032e-1

QD
type: SiteQuality
SIO_000300: 2.916e1

BaseQRankSum
type: SiteQuality
SIO_000300: 4.57e0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 612
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variant carriers: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9835
num of homozygotes: 0

East Asian
type: Population
allele count: 1
allele frequency: 1.522997258604935e-4
allele num: 6566
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9190
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4491
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8401
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 622
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 46826
num of homozygotes: 0

InbreedingCoeff
type: SiteQuality
SIO_000300: 4.8e-3

FS
type: SiteQuality
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MQ
type: SiteQuality
SIO_000300: 5.95e1

QD
type: SiteQuality
SIO_000300: 1.15e0

VQSLOD
type: SiteQuality
SIO_000300: -3.601e0

DP
type: SiteQuality
SIO_000300: 1.455437e6

BaseQRankSum
type: SiteQuality
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ClippingRankSum
type: SiteQuality
SIO_000300: -7.48e-1

MQRankSum
type: SiteQuality
SIO_000300: -3.96e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.34e0

GenotypeQuality
all individuals: 140
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 319
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GenotypeQuality
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bin: 2.5e0
variant carriers: 0

GenotypeQuality
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bin: 5.75e1
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GenotypeQuality
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bin: 1.25e1
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GenotypeQuality
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bin: 2.75e1
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GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 181
bin: 9.25e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 46103
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 616
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8342
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6515
num of homozygotes: 0

Latino
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allele count: 0
allele frequency: 0.0e0
allele num: 9121
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4463
num of homozygotes: 0

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

BaseQRankSum
type: SiteQuality
SIO_000300: -1.355e0

MQRankSum
type: SiteQuality
SIO_000300: -4.262e0

FS
type: SiteQuality
SIO_000300: 5.238e0

VQSLOD
type: SiteQuality
SIO_000300: -6.765e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -7.0e-4

ClippingRankSum
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SIO_000300: -6.48e-1

DP
type: SiteQuality
SIO_000300: 1.430034e6

MQ
type: SiteQuality
SIO_000300: 5.48e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 6.09e-1

QD
type: SiteQuality
SIO_000300: 6.4e-1

GenotypeQuality
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bin: 6.75e1
variant carriers: 0

GenotypeQuality
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bin: 2.5e0
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GenotypeQuality
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bin: 2.75e1
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GenotypeQuality
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bin: 1.75e1
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 1

GenotypeQuality
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bin: 7.75e1
variant carriers: 0

GenotypeQuality
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bin: 9.25e1
variant carriers: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9676
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 615
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6513
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 46034
num of homozygotes: 0

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

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8338
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4459
num of homozygotes: 0

FS
type: SiteQuality
SIO_000300: 5.75e-1

MQRankSum
type: SiteQuality
SIO_000300: 1.56e-1

MQ
type: SiteQuality
SIO_000300: 5.869e1

QD
type: SiteQuality
SIO_000300: 5.67e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 5.999999999999999e-4

VQSLOD
type: SiteQuality
SIO_000300: 5.83e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.93e0

DP
type: SiteQuality
SIO_000300: 1.427921e6

ClippingRankSum
type: SiteQuality
SIO_000300: 5.9e-2

BaseQRankSum
type: SiteQuality
SIO_000300: 2.81e0

GenotypeQuality
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bin: 1.75e1
variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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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
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allele count: 0
allele frequency: 0.0e0
allele num: 9562
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9058
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 610
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6473
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4432
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8274
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 2.197947117392355e-5
allele num: 45497
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: -1.612e0

MQRankSum
type: SiteQuality
SIO_000300: 5.32e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -3.0e-4

FS
type: SiteQuality
SIO_000300: 1.082e0

DP
type: SiteQuality
SIO_000300: 1.409655e6

ReadPosRankSum
type: SiteQuality
SIO_000300: -2.0e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 4.06e-1

MQ
type: SiteQuality
SIO_000300: 5.976e1

QD
type: SiteQuality
SIO_000300: 5.15e0

ClippingRankSum
type: SiteQuality
SIO_000300: 1.43e-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
all individuals: 580
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variant carriers: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6029
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 2.461296118536021e-5
allele num: 40629
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8378
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4081
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7486
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8487
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 556
num of homozygotes: 0

ReadPosRankSum
type: SiteQuality
SIO_000300: 8.070000000000001e-1

MQRankSum
type: SiteQuality
SIO_000300: 2.69e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 6.73e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -2.9e-3

QD
type: SiteQuality
SIO_000300: 1.263e1

MQ
type: SiteQuality
SIO_000300: 6.0e1

VQSLOD
type: SiteQuality
SIO_000300: 8.59e-1

DP
type: SiteQuality
SIO_000300: 1.225604e6

FS
type: SiteQuality
SIO_000300: 5.737e0

ClippingRankSum
type: SiteQuality
SIO_000300: -4.01e-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

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 555
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4067
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5996
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 2.471271469170888e-5
allele num: 40465
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8334
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8476
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7468
num of homozygotes: 0

BaseQRankSum
type: SiteQuality
SIO_000300: -1.384e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -2.9e-3

MQRankSum
type: SiteQuality
SIO_000300: 3.49e-1

VQSLOD
type: SiteQuality
SIO_000300: 1.63e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 6.860000000000001e-1

QD
type: SiteQuality
SIO_000300: 1.519e1

FS
type: SiteQuality
SIO_000300: 4.06e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

DP
type: SiteQuality
SIO_000300: 1.216779e6

ClippingRankSum
type: SiteQuality
SIO_000300: 1.99e0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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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: 8066
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3990
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7292
num of homozygotes: 0

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

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 543
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5912
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 2.536204316619747e-5
allele num: 39429
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 5.861e1

BaseQRankSum
type: SiteQuality
SIO_000300: -2.396e0

ClippingRankSum
type: SiteQuality
SIO_000300: 6.33e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.3e-3

ReadPosRankSum
type: SiteQuality
SIO_000300: 2.37e-1

MQRankSum
type: SiteQuality
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VQSLOD
type: SiteQuality
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FS
type: SiteQuality
SIO_000300: 4.682e0

QD
type: SiteQuality
SIO_000300: 2.401e1

DP
type: SiteQuality
SIO_000300: 1.176102e6

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

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 489
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
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East Asian
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allele count: 0
allele frequency: 0.0e0
allele num: 5492
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3712
num of homozygotes: 0

Latino
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allele count: 0
allele frequency: 0.0e0
allele num: 7811
num of homozygotes: 0

European (Non-Finnish)
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allele count: 0
allele frequency: 0.0e0
allele num: 35623
num of homozygotes: 0

African
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allele frequency: 7.311010381634742e-4
allele num: 6839
num of homozygotes: 0

InbreedingCoeff
type: SiteQuality
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DP
type: SiteQuality
SIO_000300: 1.039791e6

MQRankSum
type: SiteQuality
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FS
type: SiteQuality
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MQ
type: SiteQuality
SIO_000300: 6.0e1

VQSLOD
type: SiteQuality
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ClippingRankSum
type: SiteQuality
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BaseQRankSum
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ReadPosRankSum
type: SiteQuality
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QD
type: SiteQuality
SIO_000300: 2.16e1

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: 0
allele frequency: 0.0e0
allele num: 28283
num of homozygotes: 0

South Asian
type: Population
allele count: 9
allele frequency: 1.691093573844419e-3
allele num: 5322
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Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 426
num of homozygotes: 0

European (Finnish)
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allele count: 0
allele frequency: 0.0e0
allele num: 3109
num of homozygotes: 0

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

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6310
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: 9.17e-1

DP
type: SiteQuality
SIO_000300: 7.95675e5

FS
type: SiteQuality
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BaseQRankSum
type: SiteQuality
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ReadPosRankSum
type: SiteQuality
SIO_000300: -4.8e-2

MQRankSum
type: SiteQuality
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MQ
type: SiteQuality
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InbreedingCoeff
type: SiteQuality
SIO_000300: -1.26e-2

ClippingRankSum
type: SiteQuality
SIO_000300: 1.35e-1

QD
type: SiteQuality
SIO_000300: 2.229e1

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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East Asian
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allele count: 0
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South Asian
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African
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allele count: 0
allele frequency: 0.0e0
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European (Finnish)
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allele count: 0
allele frequency: 0.0e0
allele num: 2094
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Latino
type: Population
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Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 299
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European (Non-Finnish)
type: Population
allele count: 4
allele frequency: 2.335220970284313e-4
allele num: 17129
num of homozygotes: 0

BaseQRankSum
type: SiteQuality
SIO_000300: -4.7e-2

InbreedingCoeff
type: SiteQuality
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QD
type: SiteQuality
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ReadPosRankSum
type: SiteQuality
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FS
type: SiteQuality
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DP
type: SiteQuality
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VQSLOD
type: SiteQuality
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MQRankSum
type: SiteQuality
SIO_000300: 3.53e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

ClippingRankSum
type: SiteQuality
SIO_000300: 1.56e-1

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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bin: 9.75e1
variant carriers: 1

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 2067
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4051
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
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European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16987
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 2468
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 299
num of homozygotes: 0

Latino
type: Population
allele count: 1
allele frequency: 2.615062761506276e-4
allele num: 3824
num of homozygotes: 0

InbreedingCoeff
type: SiteQuality
SIO_000300: -3.52e-2

MQ
type: SiteQuality
SIO_000300: 6.0e1

QD
type: SiteQuality
SIO_000300: 1.011e1

BaseQRankSum
type: SiteQuality
SIO_000300: -9.350000000000001e-1

FS
type: SiteQuality
SIO_000300: 0.0e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 3.12e-1

MQRankSum
type: SiteQuality
SIO_000300: -5.55e-1

VQSLOD
type: SiteQuality
SIO_000300: -1.701e-1

DP
type: SiteQuality
SIO_000300: 5.44217e5

ClippingRankSum
type: SiteQuality
SIO_000300: -3.77e-1

GenotypeQuality
all individuals: 3304
bin: 3.25e1
variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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bin: 4.75e1
variant carriers: 0

GenotypeQuality
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bin: 6.75e1
variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 206
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 175
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 165
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 124
bin: 8.75e1
variant carriers: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 2276
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 1962
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3854
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 6.3403499873193e-5
allele num: 15772
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3479
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 2326
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 278
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: -3.89e-1

FS
type: SiteQuality
SIO_000300: 0.0e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -3.71e-2

DP
type: SiteQuality
SIO_000300: 5.36876e5

QD
type: SiteQuality
SIO_000300: 1.168e1

BaseQRankSum
type: SiteQuality
SIO_000300: -2.069e0

ClippingRankSum
type: SiteQuality
SIO_000300: 9.14e-1

MQRankSum
type: SiteQuality
SIO_000300: 3.37e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: -8.179999999999999e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

GenotypeQuality
all individuals: 3476
bin: 2.25e1
variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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variant carriers: 1

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 1940
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variant carriers: 0

GenotypeQuality
all individuals: 1701
bin: 9.25e1
variant carriers: 0

East Asian
type: Population
allele count: 18
allele frequency: 2.809427189012018e-3
allele num: 6407
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 583
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7483
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4441
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8121
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 45275
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9098
num of homozygotes: 0

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.84e-2

ReadPosRankSum
type: SiteQuality
SIO_000300: 6.65e-1

VQSLOD
type: SiteQuality
SIO_000300: 4.97e0

ClippingRankSum
type: SiteQuality
SIO_000300: -1.41e-1

MQRankSum
type: SiteQuality
SIO_000300: 3.77e-1

QD
type: SiteQuality
SIO_000300: 1.75e1

MQ
type: SiteQuality
SIO_000300: 6.0e1

FS
type: SiteQuality
SIO_000300: 0.0e0

BaseQRankSum
type: SiteQuality
SIO_000300: 0.0e0

DP
type: SiteQuality
SIO_000300: 1.726042e6

GenotypeQuality
all individuals: 1694
bin: 9.25e1
variant carriers: 3

GenotypeQuality
all individuals: 1753
bin: 7.25e1
variant carriers: 1

GenotypeQuality
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variant carriers: 2

GenotypeQuality
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GenotypeQuality
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variant carriers: 8

GenotypeQuality
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variant carriers: 4

GenotypeQuality
all individuals: 674
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variant carriers: 9

GenotypeQuality
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variant carriers: 271

GenotypeQuality
all individuals: 1021
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variant carriers: 4

GenotypeQuality
all individuals: 4630
bin: 6.75e1
variant carriers: 6

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6442
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4455
num of homozygotes: 0

Other
type: Population
allele count: 1
allele frequency: 1.700680272108843e-3
allele num: 588
num of homozygotes: 0

African
type: Population
allele count: 303
allele frequency: 3.704609365448099e-2
allele num: 8179
num of homozygotes: 2

Latino
type: Population
allele count: 20
allele frequency: 2.192261317549052e-3
allele num: 9123
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 4
allele frequency: 8.782908460136574e-5
allele num: 45543
num of homozygotes: 0

South Asian
type: Population
allele count: 3
allele frequency: 3.931332721792688e-4
allele num: 7631
num of homozygotes: 0

FS
type: SiteQuality
SIO_000300: 0.0e0

MQRankSum
type: SiteQuality
SIO_000300: 2.41e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -5.6e-2

ReadPosRankSum
type: SiteQuality
SIO_000300: 5.2e-1

DP
type: SiteQuality
SIO_000300: 1.782787e6

QD
type: SiteQuality
SIO_000300: 1.827e1

MQ
type: SiteQuality
SIO_000300: 6.0e1

VQSLOD
type: SiteQuality
SIO_000300: 1.297e1

BaseQRankSum
type: SiteQuality
SIO_000300: 3.57e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.951e-1

GenotypeQuality
all individuals: 1502
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2612
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 11631
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 530
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variant carriers: 0

GenotypeQuality
all individuals: 484
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variant carriers: 0

GenotypeQuality
all individuals: 791
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variant carriers: 0

GenotypeQuality
all individuals: 1770
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variant carriers: 0

GenotypeQuality
all individuals: 268
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variant carriers: 0

GenotypeQuality
all individuals: 2170
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variant carriers: 0

GenotypeQuality
all individuals: 254
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variant carriers: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 589
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4455
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9129
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6450
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8198
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 2.190916460355367e-5
allele num: 45643
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7683
num of homozygotes: 0

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.76e0

FS
type: SiteQuality
SIO_000300: 2.675e0

MQRankSum
type: SiteQuality
SIO_000300: 6.69e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -1.461e0

VQSLOD
type: SiteQuality
SIO_000300: -1.079e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.4e-3

DP
type: SiteQuality
SIO_000300: 1.805484e6

QD
type: SiteQuality
SIO_000300: 6.63e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

BaseQRankSum
type: SiteQuality
SIO_000300: -4.283e0

GenotypeQuality
all individuals: 1077
bin: 3.25e1
variant carriers: 3

GenotypeQuality
all individuals: 2641
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variant carriers: 3

GenotypeQuality
all individuals: 338
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GenotypeQuality
all individuals: 248
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GenotypeQuality
all individuals: 1706
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GenotypeQuality
all individuals: 132
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variant carriers: 0

GenotypeQuality
all individuals: 1124
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variant carriers: 0

GenotypeQuality
all individuals: 65
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variant carriers: 0

GenotypeQuality
all individuals: 737
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variant carriers: 6

GenotypeQuality
all individuals: 26552
bin: 6.25e1
variant carriers: 3

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8279
num of homozygotes: 0

Latino
type: Population
allele count: 1
allele frequency: 1.089205968848709e-4
allele num: 9181
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6561
num of homozygotes: 0

South Asian
type: Population
allele count: 115
allele frequency: 1.445813427206437e-2
allele num: 7954
num of homozygotes: 1

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4476
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 46267
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 595
num of homozygotes: 0

QD
type: SiteQuality
SIO_000300: 2.049e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 4.68e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -1.342e0

ClippingRankSum
type: SiteQuality
SIO_000300: -2.34e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 3.49e-1

DP
type: SiteQuality
SIO_000300: 1.862386e6

MQRankSum
type: SiteQuality
SIO_000300: 3.94e-1

VQSLOD
type: SiteQuality
SIO_000300: 1.597e1

FS
type: SiteQuality
SIO_000300: 0.0e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

GenotypeQuality
all individuals: 173
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variant carriers: 0

GenotypeQuality
all individuals: 1707
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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
all individuals: 175
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 3411
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GenotypeQuality
all individuals: 1125
bin: 8.75e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4483
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6584
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8337
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 46597
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8138
num of homozygotes: 0

Latino
type: Population
allele count: 1
allele frequency: 1.086484137331595e-4
allele num: 9204
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 602
num of homozygotes: 0

ClippingRankSum
type: SiteQuality
SIO_000300: 2.25e0

FS
type: SiteQuality
SIO_000300: 0.0e0

ReadPosRankSum
type: SiteQuality
SIO_000300: -1.514e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.2e-3

VQSLOD
type: SiteQuality
SIO_000300: -2.033e0

MQ
type: SiteQuality
SIO_000300: 5.916e1

MQRankSum
type: SiteQuality
SIO_000300: 1.17e0

BaseQRankSum
type: SiteQuality
SIO_000300: 3.24e0

DP
type: SiteQuality
SIO_000300: 1.880068e6

QD
type: SiteQuality
SIO_000300: 1.763e1

GenotypeQuality
all individuals: 3
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variant carriers: 0

GenotypeQuality
all individuals: 63
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variant carriers: 0

GenotypeQuality
all individuals: 4
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variant carriers: 0

GenotypeQuality
all individuals: 59
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GenotypeQuality
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GenotypeQuality
all individuals: 1834
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 30
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GenotypeQuality
all individuals: 11633
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GenotypeQuality
all individuals: 88
bin: 5.75e1
variant carriers: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9275
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 1.092776745710851e-4
allele num: 9151
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6629
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4517
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 2.104908646964722e-5
allele num: 47508
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8484
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 616
num of homozygotes: 0

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.75e-2

MQ
type: SiteQuality
SIO_000300: 5.921e1

VQSLOD
type: SiteQuality
SIO_000300: -1.001e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -6.74e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -2.503e0

MQRankSum
type: SiteQuality
SIO_000300: 6.23e-1

QD
type: SiteQuality
SIO_000300: 1.238e1

DP
type: SiteQuality
SIO_000300: 1.931312e6

ReadPosRankSum
type: SiteQuality
SIO_000300: 5.659999999999999e-1

FS
type: SiteQuality
SIO_000300: 7.626e0

GenotypeQuality
all individuals: 7
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variant carriers: 0

GenotypeQuality
all individuals: 1708
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variant carriers: 0

GenotypeQuality
all individuals: 58
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GenotypeQuality
all individuals: 115
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GenotypeQuality
all individuals: 92
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GenotypeQuality
all individuals: 1126
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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bin: 9.75e1
variant carriers: 1

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9055
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8483
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9282
num of homozygotes: 0

East Asian
type: Population
allele count: 1
allele frequency: 1.508523155830442e-4
allele num: 6629
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4515
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 616
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 47479
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: -2.143e0

DP
type: SiteQuality
SIO_000300: 1.928079e6

ReadPosRankSum
type: SiteQuality
SIO_000300: -9.55e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.0e-4

MQ
type: SiteQuality
SIO_000300: 5.703e1

QD
type: SiteQuality
SIO_000300: 1.0e1

BaseQRankSum
type: SiteQuality
SIO_000300: -2.017e0

MQRankSum
type: SiteQuality
SIO_000300: 1.92e0

FS
type: SiteQuality
SIO_000300: 2.286e0

ClippingRankSum
type: SiteQuality
SIO_000300: -4.28e-1

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

GenotypeQuality
all individuals: 88
bin: 3.75e1
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GenotypeQuality
all individuals: 2171
bin: 8.25e1
variant carriers: 3

GenotypeQuality
all individuals: 57
bin: 4.75e1
variant carriers: 2

GenotypeQuality
all individuals: 37
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GenotypeQuality
all individuals: 156
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GenotypeQuality
all individuals: 1103
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GenotypeQuality
all individuals: 11901
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variant carriers: 603

GenotypeQuality
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GenotypeQuality
all individuals: 167
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GenotypeQuality
all individuals: 30852
bin: 6.25e1
variant carriers: 6

East Asian
type: Population
allele count: 1
allele frequency: 1.509206157561123e-4
allele num: 6626
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4512
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 6
allele frequency: 1.265075482837143e-4
allele num: 47428
num of homozygotes: 0

African
type: Population
allele count: 618
allele frequency: 7.287735849056604e-2
allele num: 8480
num of homozygotes: 15

South Asian
type: Population
allele count: 4
allele frequency: 4.465282429113642e-4
allele num: 8958
num of homozygotes: 0

Latino
type: Population
allele count: 37
allele frequency: 3.987498652872077e-3
allele num: 9279
num of homozygotes: 1

Other
type: Population
allele count: 1
allele frequency: 1.623376623376623e-3
allele num: 616
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: 4.23e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 4.077e-1

MQ
type: SiteQuality
SIO_000300: 5.96e1

ClippingRankSum
type: SiteQuality
SIO_000300: -2.5e-2

ReadPosRankSum
type: SiteQuality
SIO_000300: 4.4e-1

VQSLOD
type: SiteQuality
SIO_000300: 2.195e1

FS
type: SiteQuality
SIO_000300: 1.125e0

DP
type: SiteQuality
SIO_000300: 1.957851e6

QD
type: SiteQuality
SIO_000300: 1.405e1

BaseQRankSum
type: SiteQuality
SIO_000300: -2.553e0

GenotypeQuality
all individuals: 339
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 4827
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 351
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1119
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2193
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1514
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1706
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 22253
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 5407
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2643
bin: 7.75e1
variant carriers: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9215
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 1.231223836493475e-4
allele num: 8122
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 602
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4487
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8399
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6560
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 46689
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: 3.96e-1

FS
type: SiteQuality
SIO_000300: 0.0e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

DP
type: SiteQuality
SIO_000300: 1.83347e6

InbreedingCoeff
type: SiteQuality
SIO_000300: 5.9e-3

QD
type: SiteQuality
SIO_000300: 2.606e1

GenotypeQuality
all individuals: 1751
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1748
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 309
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 725
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 461
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 257
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 11529
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 528
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1118
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1754
bin: 3.75e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 46635
num of homozygotes: 0

African
type: Population
allele count: 1
allele frequency: 1.191185229303157e-4
allele num: 8395
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 597
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9210
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4482
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6554
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8047
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 5.972e1

MQRankSum
type: SiteQuality
SIO_000300: -6.7e-2

FS
type: SiteQuality
SIO_000300: 8.723000000000001e0

ClippingRankSum
type: SiteQuality
SIO_000300: 1.6e-2

DP
type: SiteQuality
SIO_000300: 1.816666e6

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.3e-3

VQSLOD
type: SiteQuality
SIO_000300: -4.128e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 2.9e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 2.62e0

QD
type: SiteQuality
SIO_000300: 9.369999999999999e0

GenotypeQuality
all individuals: 52
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 511
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2615
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 829
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2189
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1706
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1164
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1117
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1095
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 11528
bin: 9.75e1
variant carriers: 1

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 592
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9185
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4478
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 46482
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7814
num of homozygotes: 0

African
type: Population
allele count: 1
allele frequency: 1.194172438500119e-4
allele num: 8374
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6533
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: -6.666e-1

QD
type: SiteQuality
SIO_000300: 1.618e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 5.999999999999999e-4

ClippingRankSum
type: SiteQuality
SIO_000300: 4.13e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: -7.9e-2

MQ
type: SiteQuality
SIO_000300: 5.977e1

BaseQRankSum
type: SiteQuality
SIO_000300: 4.12e0

DP
type: SiteQuality
SIO_000300: 1.784351e6

FS
type: SiteQuality
SIO_000300: 9.346e0

MQRankSum
type: SiteQuality
SIO_000300: 9.97e-1

GenotypeQuality
all individuals: 473
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 940
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 11528
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 1351
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2189
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2603
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 524
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1117
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 464
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 332
bin: 5.75e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8363
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4473
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 2.156845828660168e-5
allele num: 46364
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7737
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6518
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 592
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9177
num of homozygotes: 0

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.89e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

VQSLOD
type: SiteQuality
SIO_000300: 6.6e-2

InbreedingCoeff
type: SiteQuality
SIO_000300: 9.0e-4

BaseQRankSum
type: SiteQuality
SIO_000300: -4.193e0

ClippingRankSum
type: SiteQuality
SIO_000300: -3.15e-1

FS
type: SiteQuality
SIO_000300: 0.0e0

MQRankSum
type: SiteQuality
SIO_000300: 1.55e0

QD
type: SiteQuality
SIO_000300: 1.206e1

DP
type: SiteQuality
SIO_000300: 1.775319e6

GenotypeQuality
all individuals: 267
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 777
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 12175
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 558
bin: 8.25e1
variant carriers: 1

GenotypeQuality
all individuals: 1756
bin: 9.75e1
variant carriers: 2

GenotypeQuality
all individuals: 3293
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 295
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 3761
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 769
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 359
bin: 9.25e1
variant carriers: 1

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 24437
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7391
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5328
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4895
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 2616
num of homozygotes: 0

East Asian
type: Population
allele count: 3
allele frequency: 1.01078167115903e-3
allele num: 2968
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 399
num of homozygotes: 0

ReadPosRankSum
type: SiteQuality
SIO_000300: 6.51e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 6.840000000000001e-1

VQSLOD
type: SiteQuality
SIO_000300: -4.211e-1

MQRankSum
type: SiteQuality
SIO_000300: -1.24e0

FS
type: SiteQuality
SIO_000300: 2.886e0

MQ
type: SiteQuality
SIO_000300: 5.269e1

InbreedingCoeff
type: SiteQuality
SIO_000300: -2.76e-2

ClippingRankSum
type: SiteQuality
SIO_000300: 9.56e-1

DP
type: SiteQuality
SIO_000300: 8.69959e5

QD
type: SiteQuality
SIO_000300: 2.484e1

GenotypeQuality
all individuals: 6812
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 3680
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 2057
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 133
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1771
bin: 9.75e1
variant carriers: 0

GenotypeQuality
all individuals: 831
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2624
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 885
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 620
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 14954
bin: 2.25e1
variant carriers: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3235
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7471
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 414
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5552
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 2
allele frequency: 7.829933837059077e-5
allele num: 25543
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 2714
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5039
num of homozygotes: 0

ReadPosRankSum
type: SiteQuality
SIO_000300: -3.82e-1

VQSLOD
type: SiteQuality
SIO_000300: -1.333e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -2.82e-2

QD
type: SiteQuality
SIO_000300: 3.096e1

ClippingRankSum
type: SiteQuality
SIO_000300: -3.82e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 2.26e0

MQ
type: SiteQuality
SIO_000300: 5.6e1

FS
type: SiteQuality
SIO_000300: 0.0e0

MQRankSum
type: SiteQuality
SIO_000300: -3.82e-1

DP
type: SiteQuality
SIO_000300: 9.31247e5

GenotypeQuality
all individuals: 9011
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 662
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 657
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1789
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 8641
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 223
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 566
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 289
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 961
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 314
bin: 8.75e1
variant carriers: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7662
num of homozygotes: 0