7-27170214-C-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170214
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170214
    reference: chr 7
allele count: 1
allele frequency: 1.023331968890708e-4
allele num: 9772
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3525G>C
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-7953G>C
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+447C>G
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1086G>C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3525G>C
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.139G>C
  hgvsp: ENSP00000408845.2:p.Ala47Pro
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3486C>G
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3525G>C
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.139G>C
  hgvsp: ENSP00000353151.5:p.Ala47Pro
  variant of: http://identifiers.org/hgnc/5105
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29752
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 938
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 58
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2691
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 125
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8865
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 822
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 289
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 55
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 7090
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 361
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1042
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 96
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 32
  bin: 5.25e1
  variant carriers: 0
hgvs: p.Ala47Pro
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: C
site quality: InbreedingCoeff
site quality: FS
site quality: MQRankSum
site quality: ClippingRankSum
site quality: BaseQRankSum
site quality: VQSLOD
site quality: MQ
site quality: ReadPosRankSum
site quality: QD
site quality: DP

7-27170220-G-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170220
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170220
    reference: chr 7
allele count: 5
allele frequency: 4.442075337597726e-4
allele num: 11256
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-7959C>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3531C>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.133C>G
  hgvsp: ENSP00000353151.5:p.Pro45Ala
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3480G>C
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3531C>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+453G>C
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.133C>G
  hgvsp: ENSP00000408845.2:p.Pro45Ala
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3531C>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1092C>G
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 71
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1018
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3216
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 861
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12373
  bin: 7.5e0
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31179
  bin: 2.5e0
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 116
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 375
  bin: 3.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 240
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 26
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 26
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1210
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 396
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1257
  bin: 1.75e1
  variant carriers: 0
hgvs: p.Pro45Ala
num of homozygotes: 0
population: South Asian
population: African
population: European (Finnish)
population: Latino
population: Other
population: European (Non-Finnish)
population: East Asian
reference allele: G
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: QD
site quality: DP
site quality: MQRankSum
site quality: VQSLOD
site quality: FS
site quality: MQ
site quality: ReadPosRankSum
site quality: BaseQRankSum

7-27170226-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170226
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170226
    reference: chr 7
allele count: 6
allele frequency: 4.846526655896607e-4
allele num: 12380
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-7965C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: stop_gained
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.127C>T
  hgvsp: ENSP00000408845.2:p.Gln43Ter
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3537C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3474G>A
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+459G>A
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3537C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: stop_gained
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.127C>T
  hgvsp: ENSP00000353151.5:p.Gln43Ter
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3537C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1098C>T
canonical: true
consequence: stop gained
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 112
  bin: 1.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 76
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29926
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1008
  bin: 1.25e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16510
  bin: 7.5e0
  variant carriers: 8
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 431
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3539
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1110
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 40
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 172
  bin: 8.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 756
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 265
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 25
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 109
  bin: 3.75e1
  variant carriers: 0
hgvs: p.Gln43Ter
num of homozygotes: 0
population: African
population: South Asian
population: Other
population: Latino
population: East Asian
population: European (Non-Finnish)
population: European (Finnish)
reference allele: G
site quality: BaseQRankSum
site quality: MQ
site quality: QD
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: FS
site quality: ClippingRankSum
site quality: DP

7-27170233-G-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170233
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170233
    reference: chr 7
allele count: 1
allele frequency: 7.035317292809905e-5
allele num: 14214
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.120C>G
  hgvsp: ENST00000428284.2:c.120C>G(p.%3D)
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3544C>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-7972C>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1105C>G
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3467G>C
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.120C>G
  hgvsp: ENST00000360046.5:c.120C>G(p.%3D)
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3544C>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+466G>C
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3544C>G
  variant of: http://identifiers.org/hgnc/5104
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24753
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 495
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1688
  bin: 1.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3788
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 200
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23504
  bin: 7.5e0
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1189
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 183
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 60
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1259
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 51
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 95
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 188
  bin: 8.25e1
  variant carriers: 0
hgvs: p.Pro40Pro
num of homozygotes: 0
population: European (Finnish)
population: African
population: Latino
population: East Asian
population: South Asian
population: Other
population: European (Non-Finnish)
reference allele: G
site quality: ClippingRankSum
site quality: MQRankSum
site quality: FS
site quality: VQSLOD
site quality: DP
site quality: MQ
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: QD

7-27170235-G-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170235
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170235
    reference: chr 7
allele count: 1
allele frequency: 6.597176408497163e-5
allele num: 15158
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3465G>T
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3546C>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.118C>A
  hgvsp: ENSP00000353151.5:p.Pro40Thr
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.118C>A
  hgvsp: ENSP00000408845.2:p.Pro40Thr
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+468G>T
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3546C>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-7974C>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3546C>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1107C>A
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 203
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23795
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1849
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 499
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1197
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 36
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24575
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3864
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 95
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 66
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 12
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 107
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 806
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 349
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 79
  bin: 4.25e1
  variant carriers: 0
hgvs: p.Pro40Thr
num of homozygotes: 0
population: South Asian
population: European (Non-Finnish)
population: Latino
population: African
population: Other
population: East Asian
population: European (Finnish)
reference allele: G
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: FS
site quality: ClippingRankSum
site quality: MQRankSum
site quality: MQ
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: DP
site quality: QD

7-27170237-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170237
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170237
    reference: chr 7
allele count: 0
allele frequency: 0.0e0
allele num: 15528
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3548G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3463C>T
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.116G>A
  hgvsp: ENSP00000408845.2:p.Gly39Asp
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.116G>A
  hgvsp: ENSP00000353151.5:p.Gly39Asp
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1109G>A
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-7976G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+470C>T
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3548G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3548G>A
  variant of: http://identifiers.org/hgnc/5104
canonical: true
consequence: missense
filter: AC_Adj0_Filter
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 99
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 256
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25822
  bin: 7.5e0
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1210
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 511
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2128
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3913
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22579
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 36
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 43
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 23148
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 114
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 348
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 85
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 21854
  bin: 7.5e0
  variant carriers: 0
hgvs: p.Gly39Asp
num of homozygotes: 0
population: Other
population: East Asian
population: African
population: European (Finnish)
population: Latino
population: South Asian
population: European (Non-Finnish)
reference allele: C
site quality: BaseQRankSum
site quality: DP
site quality: ReadPosRankSum
site quality: VQSLOD
site quality: FS
site quality: MQRankSum
site quality: QD
site quality: MQ
site quality: ClippingRankSum
site quality: InbreedingCoeff

7-27170238-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170238
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170238
    reference: chr 7
allele count: 1
allele frequency: 6.117704637220115e-5
allele num: 16346
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3462C>T
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+471C>T
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3549G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1110G>A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3549G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3549G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-7977G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.115G>A
  hgvsp: ENSP00000353151.5:p.Gly39Ser
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.115G>A
  hgvsp: ENSP00000408845.2:p.Gly39Ser
  variant of: http://identifiers.org/hgnc/5105
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 513
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 27214
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2234
  bin: 1.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 38
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 273
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 99
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4002
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 21447
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1216
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 24991
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1003
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 852
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 39
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 776
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 102
  bin: 9.25e1
  variant carriers: 0
hgvs: p.Gly39Ser
num of homozygotes: 0
population: European (Finnish)
population: European (Non-Finnish)
population: Latino
population: South Asian
population: African
population: Other
population: East Asian
reference allele: C
site quality: MQ
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: VQSLOD
site quality: DP
site quality: ClippingRankSum
site quality: FS
site quality: QD
site quality: ReadPosRankSum
site quality: BaseQRankSum

7-27170239-CCCGCCCGGGCCGCCGTCTGCG-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170239
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170218
    reference: chr 7
allele count: 1
allele frequency: 5.964451866873435e-5
allele num: 16766
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: inframe_deletion
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsp: ENSP00000353151.5:p.Ala32_Gly38del
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: inframe_deletion
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsp: ENSP00000408845.2:p.Ala32_Gly38del
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  variant of: http://identifiers.org/hgnc/5104
canonical: true
consequence: inframe deletion
filter: VQSRTrancheINDEL99.00to99.50
genotype depth: GenotypeDepth
  all individuals: 4084
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2361
  bin: 1.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 521
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28190
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 38
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 298
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20514
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1226
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 99
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 849
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 102
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1053
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 821
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 26
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 43
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 201
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3916
  bin: 6.25e1
  variant carriers: 0
hgvs: p.Ala32_Gly38del
num of homozygotes: 0
population: European (Finnish)
population: Other
population: South Asian
population: African
population: European (Non-Finnish)
population: East Asian
population: Latino
reference allele: CCCGCCCGGGCCGCCGTCTGCG
site quality: MQRankSum
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: ClippingRankSum
site quality: MQ
site quality: VQSLOD
site quality: FS
site quality: ReadPosRankSum
site quality: QD
site quality: DP

http://identifiers.org/exac.variant/7-27170241-C-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170241
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170241
    reference: chr 7
allele count: 1
allele frequency: 5.742506029631331e-5
allele num: 17414
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3552G>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-7980G>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+474C>A
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.112G>T
  hgvsp: ENSP00000353151.5:p.Gly38Trp
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1113G>T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3552G>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.112G>T
  hgvsp: ENSP00000408845.2:p.Gly38Trp
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3459C>A
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3552G>T
  variant of: http://identifiers.org/hgnc/5104
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 29495
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 38
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2589
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19123
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1225
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4211
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 527
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 350
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 101
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4016
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 292
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 355
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1737
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 26962
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 18446
  bin: 7.5e0
  variant carriers: 0
hgvs: p.Gly38Trp
num of homozygotes: 0
population: Other
population: African
population: South Asian
population: East Asian
population: European (Finnish)
population: Latino
population: European (Non-Finnish)
reference allele: C
site quality: QD
site quality: MQRankSum
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: FS
site quality: MQ
site quality: VQSLOD
site quality: DP

7-27170244-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170244
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170244
    reference: chr 7
allele count: 1
allele frequency: 5.13821806597472e-5
allele num: 19462
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+477C>T
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3555G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.109G>A
  hgvsp: ENSP00000408845.2:p.Gly37Ser
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3456C>T
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1116G>A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3555G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.109G>A
  hgvsp: ENSP00000353151.5:p.Gly37Ser
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3555G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-7983G>A
  variant of: http://identifiers.org/hgnc/5104
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 4685
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 104
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16192
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2910
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 530
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 39
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 438
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 32224
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1246
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 30432
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 296
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 731
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 845
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 155
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 364
  bin: 7.75e1
  variant carriers: 0
hgvs: p.Gly37Ser
num of homozygotes: 0
population: East Asian
population: European (Finnish)
population: Latino
population: African
population: European (Non-Finnish)
population: South Asian
population: Other
reference allele: C
site quality: DP
site quality: BaseQRankSum
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: MQ
site quality: VQSLOD
site quality: ClippingRankSum
site quality: FS
site quality: ReadPosRankSum
site quality: QD

7-27170248-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170248
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170248
    reference: chr 7
allele count: 1
allele frequency: 4.371393600279769e-5
allele num: 22876
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3452G>A
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3559C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+481G>A
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.105C>T
  hgvsp: ENST00000360046.5:c.105C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3559C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-7987C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.105C>T
  hgvsp: ENST00000428284.2:c.105C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3559C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1120C>T
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 3577
  bin: 1.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 108
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 40
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 538
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5533
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1299
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13019
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 660
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34248
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1308
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 216
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 240
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 115
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 32477
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1504
  bin: 2.75e1
  variant carriers: 0
hgvs: p.Gly35Gly
num of homozygotes: 0
population: East Asian
population: African
population: South Asian
population: Other
population: Latino
population: European (Non-Finnish)
population: European (Finnish)
reference allele: G
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: QD
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: ClippingRankSum
site quality: MQ
site quality: VQSLOD
site quality: FS
site quality: DP

7-27170249-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170249
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170249
    reference: chr 7
allele count: 1
allele frequency: 4.227257355427798e-5
allele num: 23656
alternate allele: T
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.104G>A
  hgvsp: ENSP00000353151.5:p.Gly35Asp
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3560G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+482C>T
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3560G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.104G>A
  hgvsp: ENSP00000408845.2:p.Gly35Asp
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3451C>T
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3560G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1121G>A
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-7988G>A
  variant of: http://identifiers.org/hgnc/5104
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 107
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1308
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 543
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5796
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34628
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 40
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 679
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12275
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3726
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 892
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 599
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 374
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 55
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1342
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 33047
  bin: 2.25e1
  variant carriers: 0
hgvs: p.Gly35Asp
num of homozygotes: 0
population: European (Non-Finnish)
population: European (Finnish)
population: African
population: South Asian
population: East Asian
population: Latino
population: Other
reference allele: C
site quality: ReadPosRankSum
site quality: QD
site quality: InbreedingCoeff
site quality: ClippingRankSum
site quality: MQ
site quality: MQRankSum
site quality: FS
site quality: VQSLOD
site quality: BaseQRankSum
site quality: DP

http://identifiers.org/exac.variant/7-27170253-C-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170253
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170253
    reference: chr 7
allele count: 3
allele frequency: 1.044422782342292e-4
allele num: 28724
alternate allele: A
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.100G>T
  hgvsp: ENSP00000353151.5:p.Gly34Cys
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-7992G>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3447C>A
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3564G>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1125G>T
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3564G>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.100G>T
  hgvsp: ENSP00000408845.2:p.Gly34Cys
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+486C>A
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3564G>T
  variant of: http://identifiers.org/hgnc/5104
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 813
  bin: 1.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 35745
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7630
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9052
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1418
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 109
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4149
  bin: 1.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 557
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 41
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 297
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7372
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 469
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 393
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 476
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 117
  bin: 5.25e1
  variant carriers: 0
hgvs: p.Gly34Cys
num of homozygotes: 0
population: Latino
population: European (Non-Finnish)
population: European (Finnish)
population: African
population: South Asian
population: East Asian
population: Other
reference allele: C
site quality: MQ
site quality: FS
site quality: MQRankSum
site quality: DP
site quality: InbreedingCoeff
site quality: QD
site quality: BaseQRankSum
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: ClippingRankSum

7-27170256-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170256
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170256
    reference: chr 7
allele count: 1
allele frequency: 3.092719737737367e-5
allele num: 32334
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.97G>A
  hgvsp: ENSP00000408845.2:p.Asp33Asn
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3567G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.97G>A
  hgvsp: ENSP00000353151.5:p.Asp33Asn
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+489C>T
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-7995G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3567G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1128G>A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3444C>T
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3567G>A
  variant of: http://identifiers.org/hgnc/5104
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 111
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 565
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4213
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7467
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 35754
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1479
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 854
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 40
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9202
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 325
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 34780
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 330
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 116
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 129
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 1568
  bin: 3.25e1
  variant carriers: 0
hgvs: p.Asp33Asn
num of homozygotes: 0
population: African
population: European (Non-Finnish)
population: South Asian
population: European (Finnish)
population: Latino
population: East Asian
population: Other
reference allele: C
site quality: FS
site quality: MQ
site quality: BaseQRankSum
site quality: DP
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: QD

7-27170263-G-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170263
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170263
    reference: chr 7
allele count: 2
allele frequency: 4.927322000492732e-5
allele num: 40590
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3437G>C
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.90C>G
  hgvsp: ENST00000360046.5:c.90C>G(p.%3D)
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8002C>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3574C>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+496G>C
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.90C>G
  hgvsp: ENST00000428284.2:c.90C>G(p.%3D)
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3574C>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3574C>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1135C>G
canonical: true
consequence: synonymous
filter: VQSRTrancheSNP99.60to99.80
genotype depth: GenotypeDepth
  all individuals: 4642
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 33626
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12328
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 600
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 42
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5468
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 112
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1734
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1303
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 118
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 408
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 132
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1035
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 418
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 492
  bin: 4.75e1
  variant carriers: 0
hgvs: p.Gly30Gly
num of homozygotes: 0
population: European (Non-Finnish)
population: European (Finnish)
population: South Asian
population: Other
population: African
population: East Asian
population: Latino
reference allele: G
site quality: MQ
site quality: QD
site quality: DP
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: VQSLOD
site quality: BaseQRankSum
site quality: FS
site quality: ReadPosRankSum
site quality: ClippingRankSum

http://identifiers.org/exac.variant/7-27170266-C-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170266
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170266
    reference: chr 7
allele count: 1
allele frequency: 2.198672002110725e-5
allele num: 45482
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.87G>T
  hgvsp: ENST00000428284.2:c.87G>T(p.%3D)
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8005G>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+499C>A
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.87G>T
  hgvsp: ENST00000360046.5:c.87G>T(p.%3D)
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3434C>A
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1138G>T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3577G>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3577G>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3577G>T
  variant of: http://identifiers.org/hgnc/5104
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4610
  bin: 1.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31843
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1444
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 116
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14721
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4623
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1924
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 42
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 621
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 371
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4566
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 335
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 14105
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 248
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 31312
  bin: 2.25e1
  variant carriers: 0
hgvs: p.Ser29Ser
num of homozygotes: 0
population: Latino
population: African
population: East Asian
population: European (Finnish)
population: South Asian
population: Other
population: European (Non-Finnish)
reference allele: C
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: VQSLOD
site quality: ClippingRankSum
site quality: QD
site quality: FS
site quality: MQRankSum
site quality: DP
site quality: MQ
site quality: BaseQRankSum

7-27170267-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170267
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170267
    reference: chr 7
allele count: 1
allele frequency: 2.022899219160901e-5
allele num: 49434
alternate allele: A
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.86C>T
  hgvsp: ENSP00000353151.5:p.Ser29Leu
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3578C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1139C>T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3578C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3433G>A
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.86C>T
  hgvsp: ENSP00000408845.2:p.Ser29Leu
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8006C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+500G>A
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3578C>T
  variant of: http://identifiers.org/hgnc/5104
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 4376
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 117
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1341
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 622
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30823
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4164
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16502
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 43
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2023
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 485
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 395
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 30656
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4076
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 253
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1022
  bin: 3.75e1
  variant carriers: 0
hgvs: p.Ser29Leu
num of homozygotes: 0
population: Latino
population: Other
population: European (Non-Finnish)
population: African
population: East Asian
population: European (Finnish)
population: South Asian
reference allele: G
site quality: ClippingRankSum
site quality: FS
site quality: DP
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: MQ
site quality: BaseQRankSum
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: QD

7-27170275-G-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170275
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170275
    reference: chr 7
allele count: 1
allele frequency: 1.662399840409615e-5
allele num: 60154
alternate allele: C
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.78C>G
  hgvsp: ENSP00000353151.5:p.His26Gln
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.78C>G
  hgvsp: ENSP00000408845.2:p.His26Gln
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8014C>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3586C>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3586C>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3425G>C
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1147C>G
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+508G>C
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3586C>G
  variant of: http://identifiers.org/hgnc/5104
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1317
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 27111
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 121
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2406
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 670
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3905
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 43
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 21758
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2842
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 27316
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 434
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 472
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 395
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 131
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 20922
  bin: 6.25e1
  variant carriers: 0
hgvs: p.His26Gln
num of homozygotes: 0
population: East Asian
population: Other
population: Latino
population: European (Finnish)
population: African
population: European (Non-Finnish)
population: South Asian
reference allele: G
site quality: ClippingRankSum
site quality: MQ
site quality: MQRankSum
site quality: FS
site quality: VQSLOD
site quality: DP
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: QD

http://identifiers.org/exac.variant/7-27170281-C-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170281
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170281
    reference: chr 7
allele count: 2
allele frequency: 3.075692799803156e-5
allele num: 65026
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8020G>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.72G>T
  hgvsp: ENST00000360046.5:c.72G>T(p.%3D)
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.72G>T
  hgvsp: ENST00000428284.2:c.72G>T(p.%3D)
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3592G>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3419C>A
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3592G>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1153G>T
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3592G>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+514C>A
  variant of: http://identifiers.org/hgnc/43748
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2442
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25049
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1525
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 124
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2771
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3788
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23761
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 721
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 134
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 136
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2414
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 166
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 868
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 645
  bin: 5.75e1
  variant carriers: 0
hgvs: p.Ala24Ala
num of homozygotes: 0
population: African
population: European (Finnish)
population: European (Non-Finnish)
population: South Asian
population: Other
population: Latino
population: East Asian
reference allele: C
site quality: BaseQRankSum
site quality: VQSLOD
site quality: DP
site quality: MQ
site quality: MQRankSum
site quality: FS
site quality: InbreedingCoeff
site quality: ClippingRankSum
site quality: QD
site quality: ReadPosRankSum

7-27170286-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170286
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170286
    reference: chr 7
allele count: 2
allele frequency: 2.870181682500502e-5
allele num: 69682
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3597T>C
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.67T>C
  hgvsp: ENSP00000353151.5:p.Tyr23His
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.67T>C
  hgvsp: ENSP00000408845.2:p.Tyr23His
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1158T>C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+519A>G
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3597T>C
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8025T>C
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3414A>G
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3597T>C
  variant of: http://identifiers.org/hgnc/5104
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 2089
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1603
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25681
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 711
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23256
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3654
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 123
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3123
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 23783
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2055
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 137
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 483
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 540
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 787
  bin: 3.75e1
  variant carriers: 0
hgvs: p.Tyr23His
num of homozygotes: 0
population: African
population: European (Finnish)
population: East Asian
population: South Asian
population: Latino
population: European (Non-Finnish)
population: Other
reference allele: A
site quality: MQ
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: VQSLOD
site quality: QD
site quality: MQRankSum
site quality: DP
site quality: FS
site quality: ClippingRankSum
site quality: BaseQRankSum

7-27170292-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170292
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170292
    reference: chr 7
allele count: 1
allele frequency: 1.350110709078144e-5
allele num: 74068
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3603G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3603G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1164G>A
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.61G>A
  hgvsp: ENSP00000408845.2:p.Glu21Lys
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8031G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3603G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.61G>A
  hgvsp: ENSP00000353151.5:p.Glu21Lys
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+525C>T
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3408C>T
  variant of: http://identifiers.org/hgnc/43745
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3447
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 21162
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1579
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1915
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 132
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 772
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3488
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 45
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 27769
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 695
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 971
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 21900
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1921
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 192
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 660
  bin: 4.75e1
  variant carriers: 0
hgvs: p.Glu21Lys
num of homozygotes: 0
population: Other
population: East Asian
population: South Asian
population: African
population: Latino
population: European (Finnish)
population: European (Non-Finnish)
reference allele: C
site quality: BaseQRankSum
site quality: QD
site quality: FS
site quality: MQRankSum
site quality: MQ
site quality: ReadPosRankSum
site quality: ClippingRankSum
site quality: VQSLOD
site quality: DP
site quality: InbreedingCoeff

7-27170299-AG-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170299
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170298
    reference: chr 7
allele count: 0
allele frequency: 0.0e0
allele num: 78222
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3611delC
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3398delG
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: true
  consequence: frameshift_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.53delC
  hgvsp: ENSP00000353151.5:p.Pro18LeufsTer170
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+535delG
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1172delC
annotation: Annotation
  canonical: false
  consequence: frameshift_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.53delC
  hgvsp: ENSP00000408845.2:p.Pro18LeufsTer170
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8039delC
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3611delC
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3611delC
  variant of: http://identifiers.org/hgnc/5104
canonical: true
consequence: frameshift
filter: VQSRTrancheINDEL95.00to96.00
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1742
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3823
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19386
  bin: 7.5e0
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 29435
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 127
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3420
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 779
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1600
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 506
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 96
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 871
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 139
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 149
  bin: 8.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 1845
  bin: 6.75e1
  variant carriers: 0
hgvs: p.Pro18LeufsTer170
num of homozygotes: 0
population: European (Finnish)
population: Latino
population: European (Non-Finnish)
population: South Asian
population: Other
population: African
population: East Asian
reference allele: AG
site quality: VQSLOD
site quality: QD
site quality: MQRankSum
site quality: BaseQRankSum
site quality: FS
site quality: InbreedingCoeff
site quality: ClippingRankSum
site quality: MQ
site quality: ReadPosRankSum
site quality: DP

7-27170307-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170307
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170307
    reference: chr 7
allele count: 6
allele frequency: 7.436787307882995e-5
allele num: 80680
alternate allele: C
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.46A>G
  hgvsp: ENSP00000353151.5:p.Lys16Glu
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3393T>C
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8046A>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1179A>G
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+540T>C
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3618A>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.46A>G
  hgvsp: ENSP00000408845.2:p.Lys16Glu
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3618A>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3618A>G
  variant of: http://identifiers.org/hgnc/5104
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3719
  bin: 1.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 1720
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4265
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18227
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30004
  bin: 2.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1487
  bin: 1.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 126
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 766
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 547
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 874
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 19632
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 29124
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 512
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 870
  bin: 5.75e1
  variant carriers: 0
hgvs: p.Lys16Glu
num of homozygotes: 0
population: European (Finnish)
population: East Asian
population: European (Non-Finnish)
population: Latino
population: African
population: South Asian
population: Other
reference allele: T
site quality: ClippingRankSum
site quality: BaseQRankSum
site quality: QD
site quality: FS
site quality: DP
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: MQ

http://identifiers.org/exac.variant/7-27170311-C-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170311
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170311
    reference: chr 7
allele count: 2
allele frequency: 2.446662752006264e-5
allele num: 81744
alternate allele: A
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1183G>T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3389C>A
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3622G>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.42G>T
  hgvsp: ENSP00000408845.2:p.Glu14Asp
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8050G>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.42G>T
  hgvsp: ENSP00000353151.5:p.Glu14Asp
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+544C>A
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3622G>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3622G>T
  variant of: http://identifiers.org/hgnc/5104
canonical: true
consequence: missense
filter: VQSRTrancheSNP99.60to99.80
genotype depth: GenotypeDepth
  all individuals: 1690
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 134
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1369
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4478
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30231
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 811
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17667
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3941
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 777
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 647
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 532
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 177
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 126
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 504
  bin: 7.25e1
  variant carriers: 0
hgvs: p.Glu14Asp
num of homozygotes: 0
population: East Asian
population: Latino
population: African
population: European (Finnish)
population: South Asian
population: Other
population: European (Non-Finnish)
reference allele: C
site quality: MQRankSum
site quality: DP
site quality: FS
site quality: VQSLOD
site quality: ClippingRankSum
site quality: QD
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: MQ
site quality: ReadPosRankSum

7-27170313-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170313
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170313
    reference: chr 7
allele count: 1
allele frequency: 1.219185096681378e-5
allele num: 82022
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3624G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1185G>A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+546C>T
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.40G>A
  hgvsp: ENSP00000353151.5:p.Glu14Lys
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8052G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3387C>T
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.40G>A
  hgvsp: ENSP00000408845.2:p.Glu14Lys
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3624G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3624G>A
  variant of: http://identifiers.org/hgnc/5104
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 1338
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1714
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 844
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30084
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17471
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4081
  bin: 1.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 135
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4650
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 497
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 193
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 136
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 140
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 652
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 890
  bin: 2.75e1
  variant carriers: 0
hgvs: p.Glu14Lys
num of homozygotes: 0
population: European (Non-Finnish)
population: Other
population: East Asian
population: African
population: European (Finnish)
population: South Asian
population: Latino
reference allele: C
site quality: MQRankSum
site quality: VQSLOD
site quality: ClippingRankSum
site quality: DP
site quality: FS
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: MQ
site quality: QD
site quality: ReadPosRankSum

7-27170316-T-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170316
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170316
    reference: chr 7
allele count: 1
allele frequency: 1.211152290288981e-5
allele num: 82566
alternate allele: G
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.37A>C
  hgvsp: ENSP00000353151.5:p.Ile13Leu
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+549T>G
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1188A>C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3627A>C
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8055A>C
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3627A>C
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3384T>G
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.37A>C
  hgvsp: ENSP00000408845.2:p.Ile13Leu
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3627A>C
  variant of: http://identifiers.org/hgnc/5104
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 803
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1278
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4360
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1738
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 131
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4737
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17297
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29971
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 266
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 30693
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 294
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 474
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1821
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 347
  bin: 1.75e1
  variant carriers: 0
hgvs: p.Ile13Leu
num of homozygotes: 0
population: European (Finnish)
population: South Asian
population: African
population: Other
population: Latino
population: East Asian
population: European (Non-Finnish)
reference allele: T
site quality: QD
site quality: VQSLOD
site quality: MQRankSum
site quality: FS
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: DP
site quality: MQ
site quality: ReadPosRankSum
site quality: InbreedingCoeff

7-27170317-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170317
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170317
    reference: chr 7
allele count: 1
allele frequency: 1.216071602295943e-5
allele num: 82232
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3628C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8056C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+550G>A
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.36C>T
  hgvsp: ENST00000428284.2:c.36C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1189C>T
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.36C>T
  hgvsp: ENST00000360046.5:c.36C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3383G>A
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3628C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3628C>T
  variant of: http://identifiers.org/hgnc/5104
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4678
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17384
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29406
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4750
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 131
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 814
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1382
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1763
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 950
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 292
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 103
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 813
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 495
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 512
  bin: 3.75e1
  variant carriers: 0
hgvs: p.Tyr12Tyr
num of homozygotes: 0
population: Latino
population: European (Finnish)
population: European (Non-Finnish)
population: African
population: Other
population: East Asian
population: South Asian
reference allele: G
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: DP
site quality: FS
site quality: ClippingRankSum
site quality: QD
site quality: BaseQRankSum
site quality: VQSLOD
site quality: MQ
site quality: InbreedingCoeff

7-27170322-TG-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170322
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170321
    reference: chr 7
allele count: 1
allele frequency: 1.216633817553593e-5
allele num: 82194
alternate allele: T
annotation: Annotation
  canonical: true
  consequence: frameshift_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.30delC
  hgvsp: ENSP00000353151.5:p.Asn11ThrfsTer177
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3376delG
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3634delC
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: frameshift_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.30delC
  hgvsp: ENSP00000408845.2:p.Asn11ThrfsTer177
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3634delC
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8062delC
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3634delC
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+557delG
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1195delC
canonical: true
consequence: frameshift
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 1370
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17363
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 787
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5205
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 45
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4735
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1799
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28904
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 132
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 20248
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 29335
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 536
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 835
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1040
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 288
  bin: 8.25e1
  variant carriers: 0
hgvs: p.Asn11ThrfsTer177
num of homozygotes: 0
population: Other
population: Latino
population: European (Finnish)
population: South Asian
population: African
population: East Asian
population: European (Non-Finnish)
reference allele: TG
site quality: DP
site quality: InbreedingCoeff
site quality: FS
site quality: MQ
site quality: ReadPosRankSum
site quality: VQSLOD
site quality: MQRankSum
site quality: QD
site quality: ClippingRankSum
site quality: BaseQRankSum

7-27170324-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170324
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170324
    reference: chr 7
allele count: 2
allele frequency: 2.439559903393428e-5
allele num: 81982
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3635C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3635C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3376G>A
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.29C>T
  hgvsp: ENSP00000353151.5:p.Ser10Phe
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8063C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3635C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1196C>T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+557G>A
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.29C>T
  hgvsp: ENSP00000408845.2:p.Ser10Phe
  variant of: http://identifiers.org/hgnc/5105
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5477
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1839
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28560
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1393
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17382
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4702
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 132
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 45
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 809
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 117
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 20515
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 516
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 217
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 531
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 266
  bin: 4.25e1
  variant carriers: 0
hgvs: p.Ser10Phe
num of homozygotes: 0
population: European (Finnish)
population: South Asian
population: East Asian
population: European (Non-Finnish)
population: African
population: Latino
population: Other
reference allele: G
site quality: ClippingRankSum
site quality: DP
site quality: ReadPosRankSum
site quality: MQ
site quality: InbreedingCoeff
site quality: QD
site quality: FS
site quality: MQRankSum
site quality: VQSLOD
site quality: BaseQRankSum

7-27170326-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170326
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170326
    reference: chr 7
allele count: 1
allele frequency: 1.222733052919886e-5
allele num: 81784
alternate allele: A
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.27C>T
  hgvsp: ENST00000360046.5:c.27C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3374G>A
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3637C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.27C>T
  hgvsp: ENST00000428284.2:c.27C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3637C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8065C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3637C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+559G>A
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1198C>T
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 5839
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28145
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4641
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1397
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 132
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1870
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17471
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 807
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 113
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 475
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 137
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 917
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1935
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 20911
  bin: 2.25e1
  variant carriers: 0
hgvs: p.Asn9Asn
num of homozygotes: 0
population: African
population: European (Finnish)
population: European (Non-Finnish)
population: East Asian
population: South Asian
population: Latino
population: Other
reference allele: G
site quality: VQSLOD
site quality: QD
site quality: DP
site quality: ReadPosRankSum
site quality: MQ
site quality: FS
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: ClippingRankSum
site quality: BaseQRankSum

7-27170326-GT-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170326
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170325
    reference: chr 7
allele count: 1
allele frequency: 1.222733052919886e-5
allele num: 81784
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3638delA
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+562delT
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8066delA
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: frameshift_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.26delA
  hgvsp: ENSP00000353151.5:p.Asn9ThrfsTer179
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3371delT
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: false
  consequence: frameshift_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.26delA
  hgvsp: ENSP00000408845.2:p.Asn9ThrfsTer179
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1199delA
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3638delA
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3638delA
  variant of: http://identifiers.org/hgnc/5104
canonical: true
consequence: frameshift
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1397
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4641
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1870
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17471
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 807
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28145
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5839
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 132
  bin: 3.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 1054
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 504
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 113
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 917
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1756
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 881
  bin: 3.25e1
  variant carriers: 0
hgvs: p.Asn9ThrfsTer179
num of homozygotes: 0
population: Latino
population: European (Finnish)
population: South Asian
population: African
population: Other
population: European (Non-Finnish)
population: East Asian
reference allele: GT
site quality: ClippingRankSum
site quality: FS
site quality: ReadPosRankSum
site quality: DP
site quality: MQRankSum
site quality: BaseQRankSum
site quality: QD
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: MQ

http://identifiers.org/exac.variant/7-27170332-C-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170332
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170332
    reference: chr 7
allele count: 2
allele frequency: 2.496193305209555e-5
allele num: 80122
alternate allele: A
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.21G>T
  hgvsp: ENSP00000353151.5:p.Leu7Phe
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3643G>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3643G>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3368C>A
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1204G>T
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8071G>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.21G>T
  hgvsp: ENSP00000408845.2:p.Leu7Phe
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3643G>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+565C>A
  variant of: http://identifiers.org/hgnc/43748
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18042
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7546
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25610
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1608
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4528
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 132
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2016
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 816
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 284
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1025
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 590
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1082
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 22750
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1054
  bin: 5.25e1
  variant carriers: 0
hgvs: p.Leu7Phe
num of homozygotes: 0
population: European (Finnish)
population: Other
population: African
population: East Asian
population: Latino
population: European (Non-Finnish)
population: South Asian
reference allele: C
site quality: VQSLOD
site quality: MQRankSum
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: DP
site quality: QD
site quality: FS
site quality: MQ
site quality: ReadPosRankSum
site quality: InbreedingCoeff

7-27170333-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170333
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170333
    reference: chr 7
allele count: 1
allele frequency: 1.245795440388688e-5
allele num: 80270
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3367A>G
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3644T>C
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8072T>C
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3644T>C
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.20T>C
  hgvsp: ENSP00000408845.2:p.Leu7Ser
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+566A>G
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.20T>C
  hgvsp: ENSP00000353151.5:p.Leu7Ser
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3644T>C
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1205T>C
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2018
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1528
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18085
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 129
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 779
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25747
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4475
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7538
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 224
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1269
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 911
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 153
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 405
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1691
  bin: 6.75e1
  variant carriers: 0
hgvs: p.Leu7Ser
num of homozygotes: 0
population: European (Finnish)
population: Latino
population: African
population: Other
population: European (Non-Finnish)
population: South Asian
population: East Asian
reference allele: A
site quality: MQ
site quality: BaseQRankSum
site quality: DP
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: FS
site quality: MQRankSum
site quality: QD
site quality: ReadPosRankSum

7-27170338-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170338
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170338
    reference: chr 7
allele count: 4
allele frequency: 5.064445063432175e-5
allele num: 78982
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+571C>T
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3649G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3362C>T
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.15G>A
  hgvsp: ENST00000428284.2:c.15G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1210G>A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3649G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3649G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.15G>A
  hgvsp: ENST00000360046.5:c.15G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8077G>A
  variant of: http://identifiers.org/hgnc/5104
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 23825
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 18621
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2108
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 772
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8979
  bin: 1.25e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 1596
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 131
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4261
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 24627
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 599
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 138
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 499
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 270
  bin: 8.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 465
  bin: 5.75e1
  variant carriers: 0
hgvs: p.Ser5Ser
num of homozygotes: 0
population: African
population: East Asian
population: Latino
population: European (Non-Finnish)
population: Other
population: South Asian
population: European (Finnish)
reference allele: C
site quality: ClippingRankSum
site quality: VQSLOD
site quality: MQRankSum
site quality: DP
site quality: MQ
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: FS
site quality: BaseQRankSum
site quality: QD

http://identifiers.org/exac.variant/7-27170344-C-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170344
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170344
    reference: chr 7
allele count: 14
allele frequency: 1.812203898827245e-4
allele num: 77254
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3655G>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.9G>T
  hgvsp: ENSP00000408845.2:p.Met3Ile
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+577C>A
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8083G>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3655G>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1216G>T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3356C>A
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3655G>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.9G>T
  hgvsp: ENSP00000353151.5:p.Met3Ile
  variant of: http://identifiers.org/hgnc/5105
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 752
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10969
  bin: 1.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4035
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 125
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1720
  bin: 1.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 2302
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19245
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 9.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 21139
  bin: 2.25e1
  variant carriers: 5
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 274
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 268
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 332
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 134
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 417
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 26782
  bin: 2.25e1
  variant carriers: 0
hgvs: p.Met3Ile
num of homozygotes: 0
population: Other
population: South Asian
population: European (Non-Finnish)
population: Latino
population: European (Finnish)
population: East Asian
population: African
reference allele: C
site quality: MQ
site quality: FS
site quality: QD
site quality: DP
site quality: InbreedingCoeff
site quality: ClippingRankSum
site quality: VQSLOD
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: BaseQRankSum

7-27170348-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170348
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170348
    reference: chr 7
allele count: 1
allele frequency: 1.314889812233735e-5
allele num: 76052
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.5C>T
  hgvsp: ENSP00000408845.2:p.Thr2Ile
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+581G>A
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3352G>A
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.5C>T
  hgvsp: ENSP00000353151.5:p.Thr2Ile
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3659C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8087C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1220C>T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3659C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3659C>T
  variant of: http://identifiers.org/hgnc/5104
canonical: true
consequence: missense
filter: VQSRTrancheSNP99.60to99.80
genotype depth: GenotypeDepth
  all individuals: 2476
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 45
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1799
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12442
  bin: 1.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 734
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19212
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3842
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19661
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 127
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1466
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 343
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 459
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 475
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 139
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 538
  bin: 1.75e1
  variant carriers: 0
hgvs: p.Thr2Ile
num of homozygotes: 0
population: African
population: European (Non-Finnish)
population: Other
population: Latino
population: East Asian
population: South Asian
population: European (Finnish)
reference allele: G
site quality: MQ
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: FS
site quality: QD
site quality: VQSLOD
site quality: DP
site quality: BaseQRankSum
site quality: ClippingRankSum

7-27170349-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170349
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170349
    reference: chr 7
allele count: 1
allele frequency: 1.321178491214163e-5
allele num: 75690
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3660A>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3351T>C
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3660A>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+582T>C
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3660A>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000408845
  ensembl transcript: ENST00000428284
  gene symbol: HOXA4
  hgvsc: ENST00000428284.2:c.4A>G
  hgvsp: ENSP00000408845.2:p.Thr2Ala
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8088A>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.4A>G
  hgvsp: ENSP00000353151.5:p.Thr2Ala
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1221A>G
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12901
  bin: 1.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18575
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19835
  bin: 7.5e0
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1806
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 124
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3796
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2534
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 722
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2563
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 561
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1440
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 263
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 137
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 135
  bin: 2.5e0
  variant carriers: 0
hgvs: p.Thr2Ala
num of homozygotes: 0
population: African
population: Other
population: Latino
population: South Asian
population: European (Non-Finnish)
population: East Asian
population: European (Finnish)
reference allele: T
site quality: MQRankSum
site quality: VQSLOD
site quality: ClippingRankSum
site quality: BaseQRankSum
site quality: DP
site quality: FS
site quality: ReadPosRankSum
site quality: QD
site quality: InbreedingCoeff
site quality: MQ

7-27170364-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170364
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170364
    reference: chr 7
allele count: 1
allele frequency: 1.418520199727644e-5
allele num: 70496
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3675C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8103C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3675C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: 5_prime_UTR_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.-12C>T
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3675C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1236C>T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+597G>A
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3336G>A
  variant of: http://identifiers.org/hgnc/43745
canonical: true
consequence: 5' UTR
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 45
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11085
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 681
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18638
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3855
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20990
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2721
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 125
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2166
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 444
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 724
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 364
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4050
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 133
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 11326
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 812
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 177
  bin: 2.5e0
  variant carriers: 0
num of homozygotes: 0
population: Latino
population: Other
population: African
population: South Asian
population: European (Finnish)
population: European (Non-Finnish)
population: East Asian
reference allele: G
site quality: VQSLOD
site quality: DP
site quality: MQRankSum
site quality: QD
site quality: InbreedingCoeff
site quality: MQ
site quality: FS
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: ClippingRankSum

7-27170365-T-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170365
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170365
    reference: chr 7
allele count: 1
allele frequency: 1.423568601770919e-5
allele num: 70246
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3335T>A
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8104A>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: 5_prime_UTR_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.-13A>T
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1237A>T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3676A>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+598T>A
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3676A>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3676A>T
  variant of: http://identifiers.org/hgnc/5104
canonical: true
consequence: 5' UTR
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 45
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10723
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4007
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 124
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2647
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2161
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18926
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 672
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 21000
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 159
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 738
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 10918
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2175
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 187
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 649
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2848
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 258
  bin: 8.25e1
  variant carriers: 0
num of homozygotes: 0
population: African
population: South Asian
population: Latino
population: Other
population: East Asian
population: European (Non-Finnish)
population: European (Finnish)
reference allele: T
site quality: DP
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: FS
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: MQ
site quality: QD
site quality: VQSLOD
site quality: ReadPosRankSum

7-27170366-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170366
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170366
    reference: chr 7
allele count: 18
allele frequency: 2.582051870553133e-4
allele num: 69712
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3677C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+599G>A
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3677C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3677C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3334G>A
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: true
  consequence: 5_prime_UTR_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.-14C>T
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8105C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1238C>T
canonical: true
consequence: 5' UTR
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.75e1
  variant carriers: 9
genotype depth: GenotypeDepth
  all individuals: 10375
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2598
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 19168
  bin: 1.25e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20972
  bin: 7.5e0
  variant carriers: 6
genotype depth: GenotypeDepth
  all individuals: 126
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 8.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 677
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2188
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 4146
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 6.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 45
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 707
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1265
  bin: 6.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 358
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 227
  bin: 5.25e1
  variant carriers: 2
genotype quality: GenotypeQuality
  all individuals: 10583
  bin: 6.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 135
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 260
  bin: 8.25e1
  variant carriers: 2
genotype quality: GenotypeQuality
  all individuals: 439
  bin: 7.75e1
  variant carriers: 0
num of homozygotes: 0
population: African
population: Other
population: Latino
population: European (Finnish)
population: South Asian
population: East Asian
population: European (Non-Finnish)
reference allele: G
site quality: BaseQRankSum
site quality: QD
site quality: MQRankSum
site quality: ClippingRankSum
site quality: DP
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: FS
site quality: ReadPosRankSum
site quality: MQ

http://identifiers.org/exac.variant/7-27170372-A-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170372
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170372
    reference: chr 7
allele count: 4
allele frequency: 5.897617362585515e-5
allele num: 67824
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8111T>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1244T>G
annotation: Annotation
  canonical: true
  consequence: 5_prime_UTR_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.-20T>G
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3683T>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3683T>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3683T>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+605A>C
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3328A>C
  variant of: http://identifiers.org/hgnc/43745
canonical: true
consequence: 5' UTR
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5371
  bin: 2.5e0
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 20539
  bin: 1.25e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 651
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2228
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 125
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20855
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8149
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2300
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 132
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 994
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 88
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 760
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 257
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 213
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1057
  bin: 1.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 88
  bin: 5.75e1
  variant carriers: 0
num of homozygotes: 0
population: East Asian
population: European (Non-Finnish)
population: Latino
population: South Asian
population: African
population: European (Finnish)
population: Other
reference allele: A
site quality: ClippingRankSum
site quality: FS
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: QD
site quality: InbreedingCoeff
site quality: DP
site quality: VQSLOD
site quality: MQ
site quality: BaseQRankSum

7-27170376-T-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170376
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170376
    reference: chr 7
allele count: 1
allele frequency: 1.525739220652406e-5
allele num: 65542
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3687A>C
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1248A>C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3687A>C
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8115A>C
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3324T>G
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3687A>C
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: 5_prime_UTR_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.-24A>C
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+609T>G
  variant of: http://identifiers.org/hgnc/43748
canonical: true
consequence: 5' UTR
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 2495
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2017
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6597
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 648
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 125
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20559
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6882
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20852
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1510
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 141
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 828
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 33173
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7196
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 59
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3275
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 165
  bin: 9.75e1
  variant carriers: 1
num of homozygotes: 0
population: Latino
population: African
population: East Asian
population: European (Finnish)
population: Other
population: European (Non-Finnish)
population: South Asian
reference allele: T
site quality: BaseQRankSum
site quality: MQ
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: DP
site quality: FS
site quality: ReadPosRankSum
site quality: VQSLOD
site quality: ClippingRankSum
site quality: QD

7-27170396-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170396
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170396
    reference: chr 7
allele count: 1
allele frequency: 2.227369921596579e-5
allele num: 44896
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3707A>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+629T>C
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3707A>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1268A>G
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3304T>C
  variant of: http://identifiers.org/hgnc/43745
annotation: Annotation
  canonical: true
  consequence: 5_prime_UTR_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.-44A>G
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8135A>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3707A>G
  variant of: http://identifiers.org/hgnc/5104
canonical: true
consequence: 5' UTR
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10615
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13085
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 126
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2319
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 625
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26294
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 46
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5157
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1489
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 11
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1219
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 19211
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 53
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 257
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1055
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 263
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2698
  bin: 3.25e1
  variant carriers: 0
num of homozygotes: 0
population: South Asian
population: European (Finnish)
population: East Asian
population: European (Non-Finnish)
population: African
population: Latino
population: Other
reference allele: T
site quality: QD
site quality: ClippingRankSum
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: MQ
site quality: DP
site quality: ReadPosRankSum
site quality: FS
site quality: BaseQRankSum

7-27170398-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27170398
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27170398
    reference: chr 7
allele count: 1
allele frequency: 2.407434156675815e-5
allele num: 41538
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.399-3709A>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: 5_prime_UTR_variant
  ensembl gene: ENSG00000197576
  ensembl protein: ENSP00000353151
  ensembl transcript: ENST00000360046
  gene symbol: HOXA4
  hgvsc: ENST00000360046.5:c.-46A>G
  variant of: http://identifiers.org/hgnc/5105
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000430111
  ensembl transcript: ENST00000521779
  gene symbol: HOXA3
  hgvsc: ENST00000521779.1:c.-389-3709A>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.379-1270A>G
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.172+631T>C
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000521401
  gene symbol: HOXA3
  hgvsc: ENST00000521401.1:n.144-3709A>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl protein: ENSP00000429426
  ensembl transcript: ENST00000522788
  gene symbol: HOXA3
  hgvsc: ENST00000522788.1:c.-204-8137A>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000253552
  ensembl transcript: ENST00000521159
  gene symbol: HOXA-AS2
  hgvsc: ENST00000521159.1:n.579-3302T>C
  variant of: http://identifiers.org/hgnc/43745
canonical: true
consequence: 5' UTR
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 5166
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 126
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 27390
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10696
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1478
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2265
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11870
  bin: 1.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 625
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 427
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 165
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 13133
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8459
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 351
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 108
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1072
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 23
  bin: 5.75e1
  variant carriers: 0
num of homozygotes: 0
population: South Asian
population: European (Finnish)
population: East Asian
population: African
population: European (Non-Finnish)
population: Other
population: Latino
reference allele: T
site quality: BaseQRankSum
site quality: FS
site quality: VQSLOD
site quality: ClippingRankSum
site quality: QD
site quality: MQ
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: DP

7-27181406-C-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27181406
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27181406
    reference: chr 7
allele count: 2
allele frequency: 1.719187855656988e-5
allele num: 116334
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.173-9788C>G
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.275-1601G>C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000521197
  gene symbol: HOXA-AS3
  hgvsc: ENST00000521197.1:n.176+1248C>G
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: 3_prime_UTR_variant
  ensembl gene: ENSG00000106004
  ensembl protein: ENSP00000222726
  ensembl transcript: ENST00000222726
  gene symbol: HOXA5
  hgvsc: ENST00000222726.3:c.*48G>C
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.295-1601G>C
  variant of: http://identifiers.org/hgnc/5104
canonical: true
consequence: 3' UTR
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2210
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 238
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 101
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 124
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2139
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 46
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 283
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12995
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 665
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2207
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 29505
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 345
  bin: 4.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 41
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 855
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 62
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8637
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 178
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 113
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 339
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 232
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 449
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 745
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1568
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 229
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 940
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 276
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 660
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 41668
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1642
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 218
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1612
  bin: 9.75e1
  variant carriers: 2
genotype quality: GenotypeQuality
  all individuals: 175
  bin: 5.25e1
  variant carriers: 0
num of homozygotes: 0
population: Latino
population: South Asian
population: East Asian
population: European (Finnish)
population: African
population: European (Non-Finnish)
population: Other
reference allele: C
site quality: FS
site quality: DP
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: VQSLOD
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: QD
site quality: MQ
site quality: ClippingRankSum

7-27181409-C-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27181409
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27181409
    reference: chr 7
allele count: 1
allele frequency: 8.589146754161442e-6
allele num: 116426
alternate allele: G
annotation: Annotation
  canonical: true
  consequence: 3_prime_UTR_variant
  ensembl gene: ENSG00000106004
  ensembl protein: ENSP00000222726
  ensembl transcript: ENST00000222726
  gene symbol: HOXA5
  hgvsc: ENST00000222726.3:c.*45G>C
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.173-9785C>G
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.295-1604G>C
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.275-1604G>C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000521197
  gene symbol: HOXA-AS3
  hgvsc: ENST00000521197.1:n.176+1251C>G
  variant of: http://identifiers.org/hgnc/43748
canonical: true
consequence: 3' UTR
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 662
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 178
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 344
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2228
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8740
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 259
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12994
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 41
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 46
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2198
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 62
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2121
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 779
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 239
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 124
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 101
  bin: 6.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 29517
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 738
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 87
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1493
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 142
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 950
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7337
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 222
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 274
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 198
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 671
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1609
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 91
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 204
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 293
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 357
  bin: 1.75e1
  variant carriers: 0
num of homozygotes: 0
population: European (Finnish)
population: East Asian
population: Latino
population: African
population: European (Non-Finnish)
population: Other
population: South Asian
reference allele: C
site quality: VQSLOD
site quality: DP
site quality: ReadPosRankSum
site quality: MQ
site quality: FS
site quality: MQRankSum
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: QD
site quality: ClippingRankSum

7-27181409-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27181409
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27181409
    reference: chr 7
allele count: 0
allele frequency: 0.0e0
allele num: 116426
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000521197
  gene symbol: HOXA-AS3
  hgvsc: ENST00000521197.1:n.176+1251C>T
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.295-1604G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.173-9785C>T
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: 3_prime_UTR_variant
  ensembl gene: ENSG00000106004
  ensembl protein: ENSP00000222726
  ensembl transcript: ENST00000222726
  gene symbol: HOXA5
  hgvsc: ENST00000222726.3:c.*45G>A
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.275-1604G>A
canonical: true
consequence: 3' UTR
filter: AC_Adj0
genotype depth: GenotypeDepth
  all individuals: 239
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 779
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 259
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2198
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 62
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 46
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 124
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 41
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8740
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 178
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 662
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12994
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2121
  bin: 7.5e0
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 29517
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 101
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 344
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2228
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 198
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1754
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 87
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 91
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 222
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7337
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 738
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 357
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 142
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 290
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1493
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 671
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 204
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 950
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 274
  bin: 8.75e1
  variant carriers: 0
num of homozygotes: 0
population: Other
population: European (Finnish)
population: Latino
population: African
population: East Asian
population: South Asian
population: European (Non-Finnish)
reference allele: C
site quality: MQRankSum
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: MQ
site quality: FS
site quality: ReadPosRankSum
site quality: VQSLOD
site quality: ClippingRankSum
site quality: QD
site quality: DP

7-27181416-T-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27181416
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27181416
    reference: chr 7
allele count: 169
allele frequency: 1.444938440492476e-3
allele num: 116960
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.173-9778T>A
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.275-1611A>T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000521197
  gene symbol: HOXA-AS3
  hgvsc: ENST00000521197.1:n.176+1258T>A
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: 3_prime_UTR_variant
  ensembl gene: ENSG00000106004
  ensembl protein: ENSP00000222726
  ensembl transcript: ENST00000222726
  gene symbol: HOXA5
  hgvsc: ENST00000222726.3:c.*38A>T
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.295-1611A>T
  variant of: http://identifiers.org/hgnc/5104
canonical: true
consequence: 3' UTR
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 73
  bin: 7.25e1
  variant carriers: 18
genotype depth: GenotypeDepth
  all individuals: 9239
  bin: 2.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 2103
  bin: 1.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 2051
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29640
  bin: 2.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 131
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12980
  bin: 3.25e1
  variant carriers: 5
genotype depth: GenotypeDepth
  all individuals: 505
  bin: 1.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 134
  bin: 6.25e1
  variant carriers: 20
genotype depth: GenotypeDepth
  all individuals: 99
  bin: 6.75e1
  variant carriers: 13
genotype depth: GenotypeDepth
  all individuals: 326
  bin: 4.75e1
  variant carriers: 8
genotype depth: GenotypeDepth
  all individuals: 645
  bin: 4.25e1
  variant carriers: 7
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 9.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 28
  bin: 8.75e1
  variant carriers: 6
genotype depth: GenotypeDepth
  all individuals: 54
  bin: 7.75e1
  variant carriers: 12
genotype depth: GenotypeDepth
  all individuals: 175
  bin: 5.75e1
  variant carriers: 14
genotype depth: GenotypeDepth
  all individuals: 233
  bin: 5.25e1
  variant carriers: 12
genotype depth: GenotypeDepth
  all individuals: 2178
  bin: 3.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 38
  bin: 8.25e1
  variant carriers: 11
genotype depth: GenotypeDepth
  all individuals: 61
  bin: 9.75e1
  variant carriers: 28
genotype quality: GenotypeQuality
  all individuals: 1617
  bin: 9.75e1
  variant carriers: 166
genotype quality: GenotypeQuality
  all individuals: 83
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 169
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 727
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1571
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2050
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 896
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 641
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 79
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 19
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 148
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 29
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1485
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 121
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 47
  bin: 5.25e1
  variant carriers: 0
num of homozygotes: 3
population: South Asian
population: European (Non-Finnish)
population: African
population: Latino
population: European (Finnish)
population: Other
population: East Asian
reference allele: T
site quality: QD
site quality: InbreedingCoeff
site quality: MQ
site quality: BaseQRankSum
site quality: DP
site quality: FS
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: ClippingRankSum
site quality: VQSLOD

7-27181419-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27181419
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27181419
    reference: chr 7
allele count: 49
allele frequency: 4.183957511484537e-4
allele num: 117114
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.295-1614C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000521197
  gene symbol: HOXA-AS3
  hgvsc: ENST00000521197.1:n.176+1261G>A
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: 3_prime_UTR_variant
  ensembl gene: ENSG00000106004
  ensembl protein: ENSP00000222726
  ensembl transcript: ENST00000222726
  gene symbol: HOXA5
  hgvsc: ENST00000222726.3:c.*35C>T
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.173-9775G>A
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.275-1614C>T
canonical: true
consequence: 3' UTR
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 1881
  bin: 1.25e1
  variant carriers: 6
genotype depth: GenotypeDepth
  all individuals: 638
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2186
  bin: 3.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 8.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 29758
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 13019
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 489
  bin: 1.75e1
  variant carriers: 7
genotype depth: GenotypeDepth
  all individuals: 30
  bin: 8.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 161
  bin: 5.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 1996
  bin: 7.5e0
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 9563
  bin: 2.25e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 7.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 74
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 220
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 318
  bin: 4.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 14
  bin: 9.25e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 41
  bin: 9.75e1
  variant carriers: 8
genotype depth: GenotypeDepth
  all individuals: 56
  bin: 7.25e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 83
  bin: 6.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 111
  bin: 6.25e1
  variant carriers: 2
genotype quality: GenotypeQuality
  all individuals: 1477
  bin: 9.75e1
  variant carriers: 47
genotype quality: GenotypeQuality
  all individuals: 71
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 85
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 162
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 276
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 266
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 30
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2041
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 802
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 58
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 73
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7396
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 481
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 42921
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1489
  bin: 7.75e1
  variant carriers: 1
num of homozygotes: 0
population: South Asian
population: European (Finnish)
population: European (Non-Finnish)
population: Other
population: African
population: East Asian
population: Latino
reference allele: G
site quality: MQ
site quality: FS
site quality: QD
site quality: InbreedingCoeff
site quality: ClippingRankSum
site quality: DP
site quality: ReadPosRankSum
site quality: VQSLOD
site quality: MQRankSum
site quality: BaseQRankSum

7-27181424-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27181424
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27181424
    reference: chr 7
allele count: 1
allele frequency: 8.509189925119129e-6
allele num: 117520
alternate allele: C
annotation: Annotation
  canonical: true
  consequence: 3_prime_UTR_variant
  ensembl gene: ENSG00000106004
  ensembl protein: ENSP00000222726
  ensembl transcript: ENST00000222726
  gene symbol: HOXA5
  hgvsc: ENST00000222726.3:c.*30A>G
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.275-1619A>G
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000521197
  gene symbol: HOXA-AS3
  hgvsc: ENST00000521197.1:n.176+1266T>C
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.295-1619A>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.173-9770T>C
  variant of: http://identifiers.org/hgnc/43748
canonical: true
consequence: 3' UTR
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 350
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 52
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10296
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 639
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 220
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2183
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29822
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 316
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13023
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 39
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 82
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1425
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 41
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1857
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 33
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 8.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 108
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 159
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 122
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 53
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 43588
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 312
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 40
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 82
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 11
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1491
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1935
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1432
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 498
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 610
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 24
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 277
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 730
  bin: 8.25e1
  variant carriers: 0
num of homozygotes: 0
population: Latino
population: African
population: East Asian
population: European (Finnish)
population: Other
population: European (Non-Finnish)
population: South Asian
reference allele: T
site quality: FS
site quality: InbreedingCoeff
site quality: DP
site quality: VQSLOD
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: QD
site quality: MQ
site quality: ClippingRankSum
site quality: BaseQRankSum

7-27181431-C-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27181431
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27181431
    reference: chr 7
allele count: 1
allele frequency: 8.451942256330504e-6
allele num: 118316
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000521197
  gene symbol: HOXA-AS3
  hgvsc: ENST00000521197.1:n.176+1273C>G
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000106004
  ensembl transcript: ENST00000520854
  gene symbol: HOXA5
  hgvsc: ENST00000520854.1:n.324G>C
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.173-9763C>G
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: 3_prime_UTR_variant
  ensembl gene: ENSG00000106004
  ensembl protein: ENSP00000222726
  ensembl transcript: ENST00000222726
  gene symbol: HOXA5
  hgvsc: ENST00000222726.3:c.*23G>C
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.275-1626G>C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.295-1626G>C
  variant of: http://identifiers.org/hgnc/5104
canonical: true
consequence: 3' UTR
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 220
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 317
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1461
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 159
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13044
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 52
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 82
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 985
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 637
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29980
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 301
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 109
  bin: 6.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2186
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11026
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 33
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 41
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 30
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 366
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 44455
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1498
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 276
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1532
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 416
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 30
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 236
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 20
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 56
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 736
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1431
  bin: 9.75e1
  variant carriers: 1
num of homozygotes: 0
population: European (Non-Finnish)
population: South Asian
population: Latino
population: African
population: European (Finnish)
population: East Asian
population: Other
reference allele: C
site quality: InbreedingCoeff
site quality: ClippingRankSum
site quality: DP
site quality: MQ
site quality: FS
site quality: BaseQRankSum
site quality: MQRankSum
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: QD

7-27181436-C-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27181436
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27181436
    reference: chr 7
allele count: 1
allele frequency: 8.411560849231184e-6
allele num: 118884
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000521197
  gene symbol: HOXA-AS3
  hgvsc: ENST00000521197.1:n.176+1278C>G
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.295-1631G>C
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: 3_prime_UTR_variant
  ensembl gene: ENSG00000106004
  ensembl protein: ENSP00000222726
  ensembl transcript: ENST00000222726
  gene symbol: HOXA5
  hgvsc: ENST00000222726.3:c.*18G>C
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.275-1631G>C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000106004
  ensembl transcript: ENST00000520854
  gene symbol: HOXA5
  hgvsc: ENST00000520854.1:n.319G>C
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.173-9758C>G
  variant of: http://identifiers.org/hgnc/43748
canonical: true
consequence: 3' UTR
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 638
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1190
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13055
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 316
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2189
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30092
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 41
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 711
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11479
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 273
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 219
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 52
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 83
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 108
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 159
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1436
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 84
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 20
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 266
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 732
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 19
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 276
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1499
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 17
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1270
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 28
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1593
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 171
  bin: 3.75e1
  variant carriers: 0
num of homozygotes: 0
population: European (Non-Finnish)
population: African
population: East Asian
population: South Asian
population: Latino
population: European (Finnish)
population: Other
reference allele: C
site quality: QD
site quality: FS
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: MQ
site quality: ClippingRankSum
site quality: DP
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: VQSLOD

7-27181436-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27181436
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27181436
    reference: chr 7
allele count: 8
allele frequency: 6.729248679384947e-5
allele num: 118884
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.173-9758C>T
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000106004
  ensembl transcript: ENST00000520854
  gene symbol: HOXA5
  hgvsc: ENST00000520854.1:n.319G>A
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: true
  consequence: 3_prime_UTR_variant
  ensembl gene: ENSG00000106004
  ensembl protein: ENSP00000222726
  ensembl transcript: ENST00000222726
  gene symbol: HOXA5
  hgvsc: ENST00000222726.3:c.*18G>A
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.295-1631G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000521197
  gene symbol: HOXA-AS3
  hgvsc: ENST00000521197.1:n.176+1278C>T
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.275-1631G>A
canonical: true
consequence: 3' UTR
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 711
  bin: 1.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 13055
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 108
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 41
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 316
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 52
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 273
  bin: 1.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 83
  bin: 6.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1190
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 219
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11479
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 638
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 8.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2189
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 28
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 159
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30092
  bin: 2.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 276
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 28
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 88
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1436
  bin: 9.75e1
  variant carriers: 8
genotype quality: GenotypeQuality
  all individuals: 266
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 732
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1270
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 84
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 171
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 289
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 20
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 19
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7515
  bin: 6.75e1
  variant carriers: 0
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: C
site quality: FS
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: QD
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: MQ
site quality: MQRankSum
site quality: ClippingRankSum
site quality: DP

http://identifiers.org/exac.variant/7-27181443-C-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27181443
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27181443
    reference: chr 7
allele count: 1
allele frequency: 8.359806052499582e-6
allele num: 119620
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.295-1638G>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000521197
  gene symbol: HOXA-AS3
  hgvsc: ENST00000521197.1:n.176+1285C>A
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.275-1638G>T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.173-9751C>A
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000106004
  ensembl transcript: ENST00000520854
  gene symbol: HOXA5
  hgvsc: ENST00000520854.1:n.312G>T
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: true
  consequence: 3_prime_UTR_variant
  ensembl gene: ENSG00000106004
  ensembl protein: ENSP00000222726
  ensembl transcript: ENST00000222726
  gene symbol: HOXA5
  hgvsc: ENST00000222726.3:c.*11G>T
  variant of: http://identifiers.org/hgnc/5106
canonical: true
consequence: 3' UTR
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 30239
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 824
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 219
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 82
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 315
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 214
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 158
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 52
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 636
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13095
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2193
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11988
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 442
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 42
  bin: 7.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 108
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 17
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 204
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 102
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 68
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 736
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1596
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 886
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 45530
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 83
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 277
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 184
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 17
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1427
  bin: 9.75e1
  variant carriers: 1
num of homozygotes: 0
population: European (Finnish)
population: Latino
population: South Asian
population: African
population: East Asian
population: European (Non-Finnish)
population: Other
reference allele: C
site quality: VQSLOD
site quality: BaseQRankSum
site quality: MQRankSum
site quality: QD
site quality: MQ
site quality: InbreedingCoeff
site quality: FS
site quality: ClippingRankSum
site quality: ReadPosRankSum
site quality: DP

7-27181443-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27181443
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27181443
    reference: chr 7
allele count: 1
allele frequency: 8.359806052499582e-6
allele num: 119620
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000521197
  gene symbol: HOXA-AS3
  hgvsc: ENST00000521197.1:n.176+1285C>T
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.295-1638G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000106004
  ensembl transcript: ENST00000520854
  gene symbol: HOXA5
  hgvsc: ENST00000520854.1:n.312G>A
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.275-1638G>A
annotation: Annotation
  canonical: true
  consequence: 3_prime_UTR_variant
  ensembl gene: ENSG00000106004
  ensembl protein: ENSP00000222726
  ensembl transcript: ENST00000222726
  gene symbol: HOXA5
  hgvsc: ENST00000222726.3:c.*11G>A
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.173-9751C>T
  variant of: http://identifiers.org/hgnc/43748
canonical: true
consequence: 3' UTR
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 158
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 824
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 315
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2193
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 108
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 636
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 442
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 42
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30239
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11988
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13095
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 219
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 214
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 28
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 52
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 82
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7543
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 266
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 23
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 886
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 88
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 277
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 83
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 204
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1596
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 68
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 17
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 184
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 45530
  bin: 6.25e1
  variant carriers: 0
num of homozygotes: 0
population: East Asian
population: African
population: South Asian
population: Latino
population: European (Non-Finnish)
population: Other
population: European (Finnish)
reference allele: C
site quality: ReadPosRankSum
site quality: FS
site quality: BaseQRankSum
site quality: QD
site quality: MQRankSum
site quality: MQ
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: ClippingRankSum
site quality: DP

7-27181451-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27181451
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27181451
    reference: chr 7
allele count: 1
allele frequency: 8.29462508294625e-6
allele num: 120560
alternate allele: C
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.275-1646A>G
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.295-1646A>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000106004
  ensembl transcript: ENST00000520854
  gene symbol: HOXA5
  hgvsc: ENST00000520854.1:n.304A>G
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000521197
  gene symbol: HOXA-AS3
  hgvsc: ENST00000521197.1:n.176+1293T>C
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.173-9743T>C
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: 3_prime_UTR_variant
  ensembl gene: ENSG00000106004
  ensembl protein: ENSP00000222726
  ensembl transcript: ENST00000222726
  gene symbol: HOXA5
  hgvsc: ENST00000222726.3:c.*3A>G
  variant of: http://identifiers.org/hgnc/5106
canonical: true
consequence: 3' UTR
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 219
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 315
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 637
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 13139
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12463
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 406
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 187
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 107
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30479
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 158
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 82
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 134
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 52
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 41
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2190
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 33
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1425
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 39
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 62
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 46322
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1621
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 11
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 737
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7615
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 44
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 109
  bin: 2.75e1
  variant carriers: 0
num of homozygotes: 0
population: Other
population: European (Finnish)
population: East Asian
population: African
population: Latino
population: European (Non-Finnish)
population: South Asian
reference allele: T
site quality: QD
site quality: InbreedingCoeff
site quality: MQ
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: FS
site quality: DP
site quality: BaseQRankSum
site quality: VQSLOD
site quality: ClippingRankSum

7-27181452-A-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27181452
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27181452
    reference: chr 7
allele count: 270
allele frequency: 2.237618510906318e-3
allele num: 120664
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000521197
  gene symbol: HOXA-AS3
  hgvsc: ENST00000521197.1:n.176+1294A>T
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.275-1647T>A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.295-1647T>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.173-9742A>T
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: 3_prime_UTR_variant
  ensembl gene: ENSG00000106004
  ensembl protein: ENSP00000222726
  ensembl transcript: ENST00000222726
  gene symbol: HOXA5
  hgvsc: ENST00000222726.3:c.*2T>A
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000106004
  ensembl transcript: ENST00000520854
  gene symbol: HOXA5
  hgvsc: ENST00000520854.1:n.303T>A
  variant of: http://identifiers.org/hgnc/5106
canonical: true
consequence: 3' UTR
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 165
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 133
  bin: 5.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 93
  bin: 6.25e1
  variant carriers: 9
genotype depth: GenotypeDepth
  all individuals: 168
  bin: 9.75e1
  variant carriers: 142
genotype depth: GenotypeDepth
  all individuals: 361
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 128
  bin: 1.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 52
  bin: 7.25e1
  variant carriers: 11
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 7.75e1
  variant carriers: 15
genotype depth: GenotypeDepth
  all individuals: 606
  bin: 4.25e1
  variant carriers: 6
genotype depth: GenotypeDepth
  all individuals: 288
  bin: 4.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 13130
  bin: 3.25e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 30494
  bin: 2.75e1
  variant carriers: 7
genotype depth: GenotypeDepth
  all individuals: 2172
  bin: 3.75e1
  variant carriers: 6
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 37
  bin: 8.25e1
  variant carriers: 13
genotype depth: GenotypeDepth
  all individuals: 79
  bin: 6.75e1
  variant carriers: 10
genotype depth: GenotypeDepth
  all individuals: 12495
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 8.75e1
  variant carriers: 12
genotype depth: GenotypeDepth
  all individuals: 25
  bin: 9.25e1
  variant carriers: 17
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 5.25e1
  variant carriers: 8
genotype quality: GenotypeQuality
  all individuals: 46399
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 273
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 62
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 32
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 66
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1477
  bin: 9.75e1
  variant carriers: 268
genotype quality: GenotypeQuality
  all individuals: 97
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 64
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 37
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 739
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 391
  bin: 2.25e1
  variant carriers: 0
num of homozygotes: 2
population: Other
population: South Asian
population: European (Finnish)
population: East Asian
population: Latino
population: African
population: European (Non-Finnish)
reference allele: A
site quality: DP
site quality: FS
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: BaseQRankSum
site quality: QD
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: MQ
site quality: ClippingRankSum

7-27181455-CAG-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27181455
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27181453
    reference: chr 7
allele count: 2
allele frequency: 1.655108492361674e-5
allele num: 120838
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000106004
  ensembl transcript: ENST00000520854
  gene symbol: HOXA5
  hgvsc: ENST00000520854.1:n.298_299delCT
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: true
  consequence: stop_lost
  consequence: frameshift_variant
  ensembl gene: ENSG00000106004
  ensembl protein: ENSP00000222726
  ensembl transcript: ENST00000222726
  gene symbol: HOXA5
  hgvsc: ENST00000222726.3:c.810_811delCT
  hgvsp: ENSP00000222726.3:p.Ter271Ser
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.295-1652_295-1651delCT
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000521197
  gene symbol: HOXA-AS3
  hgvsc: ENST00000521197.1:n.176+1298_176+1299delAG
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.173-9738_173-9737delAG
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.275-1652_275-1651delCT
canonical: true
consequence: frameshift
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 127
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 200
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 103
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 284
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 609
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30708
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 133
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 42
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 264
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12554
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2184
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 84
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 9.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 30
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 70
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13232
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1221
  bin: 9.75e1
  variant carriers: 2
genotype quality: GenotypeQuality
  all individuals: 58
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1622
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 291
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 74
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 46706
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 59
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 47
  bin: 5.25e1
  variant carriers: 0
hgvs: p.Ter271Ser
num of homozygotes: 0
population: African
population: East Asian
population: Other
population: Latino
population: South Asian
population: European (Non-Finnish)
population: European (Finnish)
reference allele: CAG
site quality: ClippingRankSum
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: DP
site quality: MQ
site quality: BaseQRankSum
site quality: FS
site quality: QD
site quality: VQSLOD

7-27181461-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27181461
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27181461
    reference: chr 7
allele count: 1
allele frequency: 8.260639703938672e-6
allele num: 121056
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000521197
  gene symbol: HOXA-AS3
  hgvsc: ENST00000521197.1:n.176+1303C>T
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000106004
  ensembl protein: ENSP00000222726
  ensembl transcript: ENST00000222726
  gene symbol: HOXA5
  hgvsc: ENST00000222726.3:c.806G>A
  hgvsp: ENSP00000222726.3:p.Arg269His
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.295-1656G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000106004
  ensembl transcript: ENST00000520854
  gene symbol: HOXA5
  hgvsc: ENST00000520854.1:n.294G>A
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.173-9733C>T
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.275-1656G>A
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 80
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 155
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30869
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12501
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 284
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 615
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 70
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 199
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 83
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 84
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13278
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2203
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 133
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 42
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 46788
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 73
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 174
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 735
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1219
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 79
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1623
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 63
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1514
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 274
  bin: 9.25e1
  variant carriers: 0
hgvs: p.Arg269His
num of homozygotes: 0
population: European (Non-Finnish)
population: European (Finnish)
population: East Asian
population: Other
population: South Asian
population: Latino
population: African
reference allele: C
site quality: InbreedingCoeff
site quality: QD
site quality: ClippingRankSum
site quality: BaseQRankSum
site quality: MQRankSum
site quality: VQSLOD
site quality: FS
site quality: MQ
site quality: ReadPosRankSum
site quality: DP

7-27181462-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27181462
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27181462
    reference: chr 7
allele count: 1
allele frequency: 8.252595441266279e-6
allele num: 121174
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000106004
  ensembl transcript: ENST00000520854
  gene symbol: HOXA5
  hgvsc: ENST00000520854.1:n.293C>T
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.295-1657C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.275-1657C>T
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000106004
  ensembl protein: ENSP00000222726
  ensembl transcript: ENST00000222726
  gene symbol: HOXA5
  hgvsc: ENST00000222726.3:c.805C>T
  hgvsp: ENSP00000222726.3:p.Arg269Cys
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000521197
  gene symbol: HOXA-AS3
  hgvsc: ENST00000521197.1:n.176+1304G>A
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.173-9732G>A
  variant of: http://identifiers.org/hgnc/43748
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 113
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12541
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 284
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 68
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 42
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30907
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 133
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2193
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 66
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 198
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 70
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 612
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13287
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 82
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 738
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 132
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 38
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7682
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 276
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 266
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 31
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1219
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 37
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 39
  bin: 2.75e1
  variant carriers: 0
hgvs: p.Arg269Cys
num of homozygotes: 0
population: European (Non-Finnish)
population: African
population: South Asian
population: East Asian
population: European (Finnish)
population: Other
population: Latino
reference allele: G
site quality: ClippingRankSum
site quality: VQSLOD
site quality: MQRankSum
site quality: MQ
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: DP
site quality: FS
site quality: QD
site quality: ReadPosRankSum

7-27181467-G-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27181467
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27181467
    reference: chr 7
allele count: 1
allele frequency: 8.246470510621453e-6
allele num: 121264
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000106004
  ensembl transcript: ENST00000520854
  gene symbol: HOXA5
  hgvsc: ENST00000520854.1:n.288C>A
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.295-1662C>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000106004
  ensembl protein: ENSP00000222726
  ensembl transcript: ENST00000222726
  gene symbol: HOXA5
  hgvsc: ENST00000222726.3:c.800C>A
  hgvsp: ENSP00000222726.3:p.Ala267Asp
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.275-1662C>A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.173-9727G>T
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000521197
  gene symbol: HOXA-AS3
  hgvsc: ENST00000521197.1:n.176+1309G>T
  variant of: http://identifiers.org/hgnc/43748
canonical: true
consequence: missense
filter: VQSRTrancheSNP99.60to99.80
genotype depth: GenotypeDepth
  all individuals: 30982
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13301
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 199
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 51
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 70
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 60
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 133
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 82
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 72
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 284
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12524
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 42
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 27
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2185
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 613
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 22
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 32
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 46
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 89
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 33
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 277
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 29
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 20
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 265
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1527
  bin: 7.75e1
  variant carriers: 0
hgvs: p.Ala267Asp
num of homozygotes: 0
population: Other
population: East Asian
population: African
population: European (Non-Finnish)
population: European (Finnish)
population: Latino
population: South Asian
reference allele: G
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: MQRankSum
site quality: VQSLOD
site quality: DP
site quality: QD
site quality: FS
site quality: InbreedingCoeff
site quality: MQ
site quality: ClippingRankSum

7-27181468-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27181468
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27181468
    reference: chr 7
allele count: 4
allele frequency: 3.298316209575012e-5
allele num: 121274
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000106004
  ensembl transcript: ENST00000520854
  gene symbol: HOXA5
  hgvsc: ENST00000520854.1:n.287G>A
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000521197
  gene symbol: HOXA-AS3
  hgvsc: ENST00000521197.1:n.176+1310C>T
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.173-9726C>T
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.275-1663G>A
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000106004
  ensembl protein: ENSP00000222726
  ensembl transcript: ENST00000222726
  gene symbol: HOXA5
  hgvsc: ENST00000222726.3:c.799G>A
  hgvsp: ENSP00000222726.3:p.Ala267Thr
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.295-1663G>A
  variant of: http://identifiers.org/hgnc/5104
canonical: true
consequence: missense
filter: VQSRTrancheSNP99.60to99.80
genotype depth: GenotypeDepth
  all individuals: 133
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 618
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31010
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 42
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2190
  bin: 3.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 286
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12484
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 56
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 49
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 68
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 82
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 198
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 70
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 27
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13311
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 8.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 265
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 30
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 34
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 47060
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 41
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 88
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1525
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 49
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7690
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 730
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 18
  bin: 2.75e1
  variant carriers: 0
hgvs: p.Ala267Thr
num of homozygotes: 0
population: European (Non-Finnish)
population: Other
population: European (Finnish)
population: Latino
population: South Asian
population: African
population: East Asian
reference allele: C
site quality: MQ
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: FS
site quality: DP
site quality: QD
site quality: ClippingRankSum
site quality: MQRankSum
site quality: VQSLOD
site quality: ReadPosRankSum

7-27181469-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27181469
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27181469
    reference: chr 7
allele count: 1
allele frequency: 8.244974687927709e-6
allele num: 121286
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000521197
  gene symbol: HOXA-AS3
  hgvsc: ENST00000521197.1:n.176+1311C>T
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.295-1664G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000106004
  ensembl transcript: ENST00000520854
  gene symbol: HOXA5
  hgvsc: ENST00000520854.1:n.286G>A
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000106004
  ensembl protein: ENSP00000222726
  ensembl transcript: ENST00000222726
  gene symbol: HOXA5
  hgvsc: ENST00000222726.3:c.798G>A
  hgvsp: ENST00000222726.3:c.798G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.173-9725C>T
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.275-1664G>A
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 42
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12483
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31033
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 43
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 55
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 69
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2189
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 133
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 612
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 58
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13315
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 198
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 285
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 82
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 264
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 28
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 47111
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 76
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 23
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1217
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 28
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1526
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 275
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 1.25e1
  variant carriers: 0
hgvs: p.Gly266Gly
num of homozygotes: 0
population: African
population: European (Non-Finnish)
population: Other
population: Latino
population: East Asian
population: South Asian
population: European (Finnish)
reference allele: C
site quality: ClippingRankSum
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: MQ
site quality: DP
site quality: FS
site quality: QD
site quality: BaseQRankSum

7-27181477-C-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27181477
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27181477
    reference: chr 7
allele count: 1
allele frequency: 8.240490473993011e-6
allele num: 121352
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000106004
  ensembl transcript: ENST00000520854
  gene symbol: HOXA5
  hgvsc: ENST00000520854.1:n.278G>C
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.173-9717C>G
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000521197
  gene symbol: HOXA-AS3
  hgvsc: ENST00000521197.1:n.176+1319C>G
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000106004
  ensembl protein: ENSP00000222726
  ensembl transcript: ENST00000222726
  gene symbol: HOXA5
  hgvsc: ENST00000222726.3:c.790G>C
  hgvsp: ENSP00000222726.3:p.Ala264Pro
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.295-1672G>C
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.275-1672G>C
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 610
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 195
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 27
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 281
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 132
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31121
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12458
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13342
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2187
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 68
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 40
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7697
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 18
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 47250
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1511
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 29
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1629
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 11
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 727
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 16
  bin: 4.75e1
  variant carriers: 0
hgvs: p.Ala264Pro
num of homozygotes: 0
population: European (Finnish)
population: East Asian
population: African
population: Latino
population: Other
population: South Asian
population: European (Non-Finnish)
reference allele: C
site quality: FS
site quality: MQ
site quality: DP
site quality: QD
site quality: MQRankSum
site quality: VQSLOD
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: ReadPosRankSum

7-27181478-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27181478
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27181478
    reference: chr 7
allele count: 1
allele frequency: 8.240218860212928e-6
allele num: 121356
alternate allele: T
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000106004
  ensembl protein: ENSP00000222726
  ensembl transcript: ENST00000222726
  gene symbol: HOXA5
  hgvsc: ENST00000222726.3:c.789G>A
  hgvsp: ENST00000222726.3:c.789G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.173-9716C>T
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.295-1673G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000521197
  gene symbol: HOXA-AS3
  hgvsc: ENST00000521197.1:n.176+1320C>T
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000106004
  ensembl transcript: ENST00000520854
  gene symbol: HOXA5
  hgvsc: ENST00000520854.1:n.277G>A
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.275-1673G>A
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 28
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31132
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2189
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 194
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13350
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 68
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 607
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 27
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12446
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 281
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 132
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 40
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 18
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1633
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 260
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1513
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 19
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 19
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1199
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 40
  bin: 2.25e1
  variant carriers: 0
hgvs: p.Ala263Ala
num of homozygotes: 0
population: European (Non-Finnish)
population: European (Finnish)
population: East Asian
population: Other
population: African
population: South Asian
population: Latino
reference allele: C
site quality: MQ
site quality: MQRankSum
site quality: BaseQRankSum
site quality: VQSLOD
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: FS
site quality: ReadPosRankSum
site quality: QD
site quality: DP

7-27181479-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27181479
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27181479
    reference: chr 7
allele count: 15
allele frequency: 1.235971720967024e-4
allele num: 121362
alternate allele: A
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.275-1674C>T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.295-1674C>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000106004
  ensembl protein: ENSP00000222726
  ensembl transcript: ENST00000222726
  gene symbol: HOXA5
  hgvsc: ENST00000222726.3:c.788C>T
  hgvsp: ENSP00000222726.3:p.Ala263Val
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000521197
  gene symbol: HOXA-AS3
  hgvsc: ENST00000521197.1:n.176+1321G>A
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000106004
  ensembl transcript: ENST00000520854
  gene symbol: HOXA5
  hgvsc: ENST00000520854.1:n.276C>T
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.173-9715G>A
  variant of: http://identifiers.org/hgnc/43748
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2184
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13343
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 68
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 607
  bin: 4.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 7.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31143
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12447
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 131
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 42
  bin: 7.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 8.25e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 195
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 28
  bin: 9.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 83
  bin: 6.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 8.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 10
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 273
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 725
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 11
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 257
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1208
  bin: 9.75e1
  variant carriers: 15
genotype quality: GenotypeQuality
  all individuals: 38
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1635
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5
  bin: 2.75e1
  variant carriers: 0
hgvs: p.Ala263Val
num of homozygotes: 0
population: European (Finnish)
population: South Asian
population: African
population: European (Non-Finnish)
population: Other
population: Latino
population: East Asian
reference allele: G
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: DP
site quality: FS
site quality: ClippingRankSum
site quality: MQ
site quality: VQSLOD
site quality: BaseQRankSum
site quality: QD

7-27181480-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27181480
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27181480
    reference: chr 7
allele count: 9
allele frequency: 7.41521932570939e-5
allele num: 121372
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000521197
  gene symbol: HOXA-AS3
  hgvsc: ENST00000521197.1:n.176+1322C>T
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000106004
  ensembl transcript: ENST00000520854
  gene symbol: HOXA5
  hgvsc: ENST00000520854.1:n.275G>A
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.173-9714C>T
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000106004
  ensembl protein: ENSP00000222726
  ensembl transcript: ENST00000222726
  gene symbol: HOXA5
  hgvsc: ENST00000222726.3:c.787G>A
  hgvsp: ENSP00000222726.3:p.Ala263Thr
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.295-1675G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.275-1675G>A
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 40
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 606
  bin: 4.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 68
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 195
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 9.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 28
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12440
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 8.25e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13341
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 130
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2186
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31163
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 27
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 8.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 28
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 724
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7699
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1506
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 10
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 273
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 47308
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 36
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 17
  bin: 5.25e1
  variant carriers: 0
hgvs: p.Ala263Thr
num of homozygotes: 1
population: Latino
population: European (Finnish)
population: African
population: East Asian
population: South Asian
population: European (Non-Finnish)
population: Other
reference allele: C
site quality: BaseQRankSum
site quality: MQ
site quality: MQRankSum
site quality: FS
site quality: QD
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: VQSLOD
site quality: ClippingRankSum
site quality: DP

7-27181483-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27181483
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27181483
    reference: chr 7
allele count: 3
allele frequency: 2.471413978317461e-5
allele num: 121388
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000106004
  ensembl transcript: ENST00000520854
  gene symbol: HOXA5
  hgvsc: ENST00000520854.1:n.272G>A
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000106004
  ensembl protein: ENSP00000222726
  ensembl transcript: ENST00000222726
  gene symbol: HOXA5
  hgvsc: ENST00000222726.3:c.784G>A
  hgvsp: ENSP00000222726.3:p.Ala262Thr
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.275-1678G>A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000521197
  gene symbol: HOXA-AS3
  hgvsc: ENST00000521197.1:n.176+1325C>T
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.295-1678G>A
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.173-9711C>T
  variant of: http://identifiers.org/hgnc/43748
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12441
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 68
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 9.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 21
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31191
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 193
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2186
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 601
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 130
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13341
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 40
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7706
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 47343
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 10
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 725
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 257
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 22
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1512
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6
  bin: 5.25e1
  variant carriers: 0
hgvs: p.Ala262Thr
num of homozygotes: 0
population: European (Non-Finnish)
population: African
population: Other
population: South Asian
population: East Asian
population: Latino
population: European (Finnish)
reference allele: C
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: DP
site quality: MQ
site quality: FS
site quality: QD
site quality: BaseQRankSum
site quality: VQSLOD
site quality: ClippingRankSum

7-27181485-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27181485
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27181485
    reference: chr 7
allele count: 4
allele frequency: 3.295164346321773e-5
allele num: 121390
alternate allele: G
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.275-1680T>C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.295-1680T>C
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000521197
  gene symbol: HOXA-AS3
  hgvsc: ENST00000521197.1:n.176+1327A>G
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.173-9709A>G
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000106004
  ensembl protein: ENSP00000222726
  ensembl transcript: ENST00000222726
  gene symbol: HOXA5
  hgvsc: ENST00000222726.3:c.782T>C
  hgvsp: ENSP00000222726.3:p.Met261Thr
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000106004
  ensembl transcript: ENST00000520854
  gene symbol: HOXA5
  hgvsc: ENST00000520854.1:n.270T>C
  variant of: http://identifiers.org/hgnc/5106
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 17
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31193
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 601
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13346
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 9.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 193
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 129
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 279
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 39
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2184
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 9.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12446
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 67
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 273
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1629
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 9
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1186
  bin: 9.75e1
  variant carriers: 4
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 725
  bin: 8.25e1
  variant carriers: 0
hgvs: p.Met261Thr
num of homozygotes: 0
population: East Asian
population: South Asian
population: Other
population: European (Non-Finnish)
population: African
population: Latino
population: European (Finnish)
reference allele: A
site quality: MQ
site quality: BaseQRankSum
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: FS
site quality: VQSLOD
site quality: DP
site quality: QD
site quality: ReadPosRankSum
site quality: ClippingRankSum

7-27181486-T-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27181486
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27181486
    reference: chr 7
allele count: 1
allele frequency: 8.237910865804433e-6
allele num: 121390
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.295-1681A>T
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000521197
  gene symbol: HOXA-AS3
  hgvsc: ENST00000521197.1:n.176+1328T>A
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.173-9708T>A
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000106004
  ensembl protein: ENSP00000222726
  ensembl transcript: ENST00000222726
  gene symbol: HOXA5
  hgvsc: ENST00000222726.3:c.781A>T
  hgvsp: ENSP00000222726.3:p.Met261Leu
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.275-1681A>T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000106004
  ensembl transcript: ENST00000520854
  gene symbol: HOXA5
  hgvsc: ENST00000520854.1:n.269A>T
  variant of: http://identifiers.org/hgnc/5106
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 40
  bin: 7.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 13345
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2185
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 193
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 67
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31194
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 602
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 15
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 129
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12451
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 279
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 47370
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1629
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1183
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 724
  bin: 8.25e1
  variant carriers: 0
hgvs: p.Met261Leu
num of homozygotes: 0
population: South Asian
population: European (Finnish)
population: East Asian
population: European (Non-Finnish)
population: African
population: Latino
population: Other
reference allele: T
site quality: InbreedingCoeff
site quality: DP
site quality: BaseQRankSum
site quality: MQRankSum
site quality: ClippingRankSum
site quality: MQ
site quality: FS
site quality: ReadPosRankSum
site quality: QD
site quality: VQSLOD

7-27181489-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 27181489
    reference: chr 7
  end: Position
    type: ExactPosition
    position: 27181489
    reference: chr 7
allele count: 1
allele frequency: 8.237367996177861e-6
allele num: 121398
alternate allele: C
annotation: Annotation
  canonical: true
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000273433
  ensembl transcript: ENST00000467897
  gene symbol: RP1-170O19.22
  hgvsc: ENST00000467897.2:n.275-1684A>G
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000106004
  ensembl protein: ENSP00000222726
  ensembl transcript: ENST00000222726
  gene symbol: HOXA5
  hgvsc: ENST00000222726.3:c.778A>G
  hgvsp: ENSP00000222726.3:p.Ser260Gly
  variant of: http://identifiers.org/hgnc/5106
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000105997
  ensembl transcript: ENST00000518451
  gene symbol: HOXA3
  hgvsc: ENST00000518451.1:n.295-1684A>G
  variant of: http://identifiers.org/hgnc/5104
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000521197
  gene symbol: HOXA-AS3
  hgvsc: ENST00000521197.1:n.176+1331T>C
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000254369
  ensembl transcript: ENST00000518848
  gene symbol: HOXA-AS3
  hgvsc: ENST00000518848.1:n.173-9705T>C
  variant of: http://identifiers.org/hgnc/43748
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000106004
  ensembl transcript: ENST00000520854
  gene symbol: HOXA5
  hgvsc: ENST00000520854.1:n.266A>G
  variant of: http://identifiers.org/hgnc/5106
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12436
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 193
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2184
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31214
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 15
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 68
  bin: 6.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 129
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 602
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 39
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13347
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 279
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 725
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 15
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7709
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1183
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 11
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1509
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 273
  bin: 9.25e1
  variant carriers: 0
hgvs: p.Ser260Gly
num of homozygotes: 0
reference allele: T

GenotypeQuality
all individuals: 1090
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1824
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 249
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2612
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 41
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 204
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 27821
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 561
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 207
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 66
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 40
bin: 9.25e1
variant carriers: 0

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

GenotypeQuality
all individuals: 122
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 41
bin: 4.75e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 2468
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 1.556662515566625e-4
allele num: 6424
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 224
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 290
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 164
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 98
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 104
num of homozygotes: 0

InbreedingCoeff
type: SiteQuality
SIO_000300: -7.46e-2

FS
type: SiteQuality
SIO_000300: 0.0e0

MQRankSum
type: SiteQuality
SIO_000300: 5.92e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 9.22e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 1.63e-1

VQSLOD
type: SiteQuality
SIO_000300: 1.3e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 8.500000000000001e-2

QD
type: SiteQuality
SIO_000300: 1.271e1

DP
type: SiteQuality
SIO_000300: 2.40418e5

GenotypeQuality
all individuals: 3074
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 10451
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 693
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 59
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 29801
bin: 7.5e0
variant carriers: 2

GenotypeQuality
all individuals: 1033
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 21
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 292
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 232
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 71
bin: 9.75e1
variant carriers: 5

GenotypeQuality
all individuals: 147
bin: 8.25e1
variant carriers: 1

GenotypeQuality
all individuals: 36
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 103
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 81
bin: 8.75e1
variant carriers: 0

South Asian
type: Population
allele count: 5
allele frequency: 7.094211123723042e-4
allele num: 7048
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 336
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 128
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 216
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 112
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3114
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 302
num of homozygotes: 0

ClippingRankSum
type: SiteQuality
SIO_000300: 2.83e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -6.82e-2

QD
type: SiteQuality
SIO_000300: 1.35e1

DP
type: SiteQuality
SIO_000300: 2.85471e5

MQRankSum
type: SiteQuality
SIO_000300: 6.21e-1

VQSLOD
type: SiteQuality
SIO_000300: -1.473e0

FS
type: SiteQuality
SIO_000300: 4.407e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

ReadPosRankSum
type: SiteQuality
SIO_000300: -8.999999999999999e-3

BaseQRankSum
type: SiteQuality
SIO_000300: 5.27e-1

GenotypeQuality
all individuals: 37
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1380
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 3380
bin: 6.25e1
variant carriers: 3

GenotypeQuality
all individuals: 1030
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 14375
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 28909
bin: 7.5e0
variant carriers: 1

GenotypeQuality
all individuals: 95
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 966
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 78
bin: 9.25e1
variant carriers: 1

GenotypeQuality
all individuals: 258
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 316
bin: 7.75e1
variant carriers: 1

GenotypeQuality
all individuals: 13
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 83
bin: 9.75e1
variant carriers: 6

GenotypeQuality
all individuals: 469
bin: 2.75e1
variant carriers: 1

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 388
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7400
num of homozygotes: 0

Other
type: Population
allele count: 1
allele frequency: 8.19672131147541e-3
allele num: 122
num of homozygotes: 0

Latino
type: Population
allele count: 2
allele frequency: 7.633587786259542e-3
allele num: 262
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 368
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 3
allele frequency: 8.143322475570033e-4
allele num: 3684
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 156
num of homozygotes: 0

BaseQRankSum
type: SiteQuality
SIO_000300: -1.495e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

QD
type: SiteQuality
SIO_000300: 1.321e1

VQSLOD
type: SiteQuality
SIO_000300: -1.421e0

ReadPosRankSum
type: SiteQuality
SIO_000300: -2.09e-1

MQRankSum
type: SiteQuality
SIO_000300: 5.55e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -6.24e-2

FS
type: SiteQuality
SIO_000300: 3.876e0

ClippingRankSum
type: SiteQuality
SIO_000300: 0.0e0

DP
type: SiteQuality
SIO_000300: 3.25224e5

GenotypeQuality
all individuals: 272
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 21
bin: 5.75e1
variant carriers: 1

GenotypeQuality
all individuals: 20
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 24035
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 754
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 3652
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1236
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 21253
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 104
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 873
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 795
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 104
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 343
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 474
bin: 3.25e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 232
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 526
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 388
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 528
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 1.305142260506395e-4
allele num: 7662
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 136
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4742
num of homozygotes: 0

ClippingRankSum
type: SiteQuality
SIO_000300: 3.58e-1

MQRankSum
type: SiteQuality
SIO_000300: -2.78e-1

FS
type: SiteQuality
SIO_000300: 0.0e0

VQSLOD
type: SiteQuality
SIO_000300: -2.529e0

DP
type: SiteQuality
SIO_000300: 3.84697e5

MQ
type: SiteQuality
SIO_000300: 6.0e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 5.97e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -5.18e-2

BaseQRankSum
type: SiteQuality
SIO_000300: 2.52e0

QD
type: SiteQuality
SIO_000300: 3.99e0

GenotypeQuality
all individuals: 23095
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 253
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 25
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 3726
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 194
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 751
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 857
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 854
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1478
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 282
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 22370
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 98
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 115
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 622
bin: 3.25e1
variant carriers: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7780
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.887504718761797e-4
allele num: 5298
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 464
num of homozygotes: 0

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

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 140
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 636
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 240
num of homozygotes: 0

InbreedingCoeff
type: SiteQuality
SIO_000300: -4.76e-2

VQSLOD
type: SiteQuality
SIO_000300: -1.025e0

FS
type: SiteQuality
SIO_000300: 3.468e0

ClippingRankSum
type: SiteQuality
SIO_000300: 9.88e-1

MQRankSum
type: SiteQuality
SIO_000300: 2.28e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

BaseQRankSum
type: SiteQuality
SIO_000300: -2.355e0

ReadPosRankSum
type: SiteQuality
SIO_000300: -9.88e-1

DP
type: SiteQuality
SIO_000300: 3.94197e5

QD
type: SiteQuality
SIO_000300: 9.949999999999999e0

GenotypeQuality
all individuals: 3737
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 669
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1146
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 1751
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 87
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 287
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 884
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 108
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 903
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 99
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 286
bin: 7.25e1
variant carriers: 1

GenotypeQuality
all individuals: 194
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 806
bin: 6.75e1
variant carriers: 0

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

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 142
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 656
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 638
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 240
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 488
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7824
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5540
num of homozygotes: 0

BaseQRankSum
type: SiteQuality
SIO_000300: -6.840000000000001e-1

DP
type: SiteQuality
SIO_000300: 4.0647e5

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.22e0

VQSLOD
type: SiteQuality
SIO_000300: -1.44e0

FS
type: SiteQuality
SIO_000300: 0.0e0

MQRankSum
type: SiteQuality
SIO_000300: 1.23e0

QD
type: SiteQuality
SIO_000300: 8.640000000000001e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

ClippingRankSum
type: SiteQuality
SIO_000300: 1.23e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -4.68e-2

GenotypeQuality
all individuals: 1452
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 777
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 116
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 341
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 355
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 110
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 3850
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 202
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 20809
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 286
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 811
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 89
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 9
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 92
bin: 4.75e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 294
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.660026560424967e-4
allele num: 6024
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 588
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7890
num of homozygotes: 0

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

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 150
num of homozygotes: 0

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

MQ
type: SiteQuality
SIO_000300: 6.0e1

InbreedingCoeff
type: SiteQuality
SIO_000300: -4.29e-2

MQRankSum
type: SiteQuality
SIO_000300: 1.43e-1

VQSLOD
type: SiteQuality
SIO_000300: -7.026e-1

DP
type: SiteQuality
SIO_000300: 4.18249e5

ClippingRankSum
type: SiteQuality
SIO_000300: 1.03e0

FS
type: SiteQuality
SIO_000300: 0.0e0

QD
type: SiteQuality
SIO_000300: 1.098e1

ReadPosRankSum
type: SiteQuality
SIO_000300: -8.25e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -1.932e0

GenotypeQuality
all individuals: 356
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 25715
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1734
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 117
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 104
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 840
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 19807
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 814
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 101
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 111
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 291
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 356
bin: 7.75e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 300
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 150
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 1.261988894497728e-4
allele num: 7924
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 712
num of homozygotes: 0

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

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 744
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 634
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: -2.367e0

BaseQRankSum
type: SiteQuality
SIO_000300: -5.29e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -4.15e-2

ClippingRankSum
type: SiteQuality
SIO_000300: 1.0e0

MQ
type: SiteQuality
SIO_000300: 5.177e1

VQSLOD
type: SiteQuality
SIO_000300: -3.999e-1

FS
type: SiteQuality
SIO_000300: 0.0e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 9.370000000000001e-1

QD
type: SiteQuality
SIO_000300: 1.37e0

DP
type: SiteQuality
SIO_000300: 4.27369e5

GenotypeQuality
all individuals: 121
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 942
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 52
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 117
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 889
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 107
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1115
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 111
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 845
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 823
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 401
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 203
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 35
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 117
bin: 4.75e1
variant carriers: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 150
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 762
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 1.255020080321285e-4
allele num: 7968
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 818
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 324
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 706
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6686
num of homozygotes: 0

QD
type: SiteQuality
SIO_000300: 1.212e1

MQRankSum
type: SiteQuality
SIO_000300: -1.124e0

BaseQRankSum
type: SiteQuality
SIO_000300: -1.185e0

ClippingRankSum
type: SiteQuality
SIO_000300: 7.11e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 3.42e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 3.22e-2

FS
type: SiteQuality
SIO_000300: 0.0e0

MQ
type: SiteQuality
SIO_000300: 5.79e1

VQSLOD
type: SiteQuality
SIO_000300: -1.59e0

DP
type: SiteQuality
SIO_000300: 4.4055e5

GenotypeQuality
all individuals: 24
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 15684
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 121
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 594
bin: 2.5e0
variant carriers: 0

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

GenotypeQuality
all individuals: 1081
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 4513
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 107
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1120
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 139
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 506
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 54
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1311
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 112
bin: 8.75e1
variant carriers: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 1040
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 444
num of homozygotes: 0

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

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

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.265182186234818e-4
allele num: 7904
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8140
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 162
num of homozygotes: 0

DP
type: SiteQuality
SIO_000300: 4.70341e5

BaseQRankSum
type: SiteQuality
SIO_000300: 8.179999999999999e-1

MQRankSum
type: SiteQuality
SIO_000300: 1.54e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -3.32e-2

MQ
type: SiteQuality
SIO_000300: 6.0e1

VQSLOD
type: SiteQuality
SIO_000300: -5.946e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 1.54e0

FS
type: SiteQuality
SIO_000300: 0.0e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 5.29e-1

QD
type: SiteQuality
SIO_000300: 1.063e1

GenotypeQuality
all individuals: 308
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 12649
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 126
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 673
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 635
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 110
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 576
bin: 2.5e0
variant carriers: 0

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

GenotypeQuality
all individuals: 66
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1175
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 375
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 5293
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 101
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 887
bin: 6.75e1
variant carriers: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 1348
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 1102
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 1.195886151638364e-4
allele num: 8362
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 194
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 1252
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10024
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 594
num of homozygotes: 0

InbreedingCoeff
type: SiteQuality
SIO_000300: -2.77e-2

BaseQRankSum
type: SiteQuality
SIO_000300: -6.33e-1

QD
type: SiteQuality
SIO_000300: 2.705e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.04e0

MQRankSum
type: SiteQuality
SIO_000300: 7.27e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 7.27e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

VQSLOD
type: SiteQuality
SIO_000300: -2.133e0

FS
type: SiteQuality
SIO_000300: 0.0e0

DP
type: SiteQuality
SIO_000300: 5.09097e5

GenotypeQuality
all individuals: 216
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1532
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 715
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 110
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 11944
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 989
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 621
bin: 2.5e0
variant carriers: 0

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

GenotypeQuality
all individuals: 115
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 126
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 108
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 5556
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 311
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 225
bin: 4.25e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10500
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 626
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 1156
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8414
num of homozygotes: 0

East Asian
type: Population
allele count: 1
allele frequency: 7.002801120448179e-4
allele num: 1428
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 1336
num of homozygotes: 0

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

ReadPosRankSum
type: SiteQuality
SIO_000300: 3.82e-1

QD
type: SiteQuality
SIO_000300: 9.33e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.33e-2

ClippingRankSum
type: SiteQuality
SIO_000300: 5.5e-1

MQ
type: SiteQuality
SIO_000300: 5.906e1

MQRankSum
type: SiteQuality
SIO_000300: 3.65e-1

FS
type: SiteQuality
SIO_000300: 0.0e0

VQSLOD
type: SiteQuality
SIO_000300: 5.87e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -9.06e-1

DP
type: SiteQuality
SIO_000300: 5.18319e5

GenotypeQuality
all individuals: 318
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 650
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 112
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 131
bin: 9.75e1
variant carriers: 3

GenotypeQuality
all individuals: 37
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 839
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1532
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 34716
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 8846
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 222
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 119
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1620
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 272
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1003
bin: 6.75e1
variant carriers: 0

Latino
type: Population
allele count: 3
allele frequency: 1.618122977346278e-3
allele num: 1854
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 13706
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 874
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 1510
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8754
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 1788
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 238
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 6.0e1

FS
type: SiteQuality
SIO_000300: 0.0e0

MQRankSum
type: SiteQuality
SIO_000300: -2.65e-1

DP
type: SiteQuality
SIO_000300: 5.68612e5

InbreedingCoeff
type: SiteQuality
SIO_000300: -2.14e-2

QD
type: SiteQuality
SIO_000300: 1.139e1

BaseQRankSum
type: SiteQuality
SIO_000300: -1.031e0

VQSLOD
type: SiteQuality
SIO_000300: 1.0e0

ReadPosRankSum
type: SiteQuality
SIO_000300: -1.43e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -1.43e-1

GenotypeQuality
all individuals: 7255
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 281
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 121
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 8713
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 158
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 400
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 910
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 394
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 435
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1620
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1055
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 719
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 226
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 178
bin: 5.25e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 1802
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 6.261740763932373e-5
allele num: 15970
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8956
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 1026
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 2252
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 2072
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 256
num of homozygotes: 0

FS
type: SiteQuality
SIO_000300: 0.0e0

MQ
type: SiteQuality
SIO_000300: 5.895e1

BaseQRankSum
type: SiteQuality
SIO_000300: -1.418e0

DP
type: SiteQuality
SIO_000300: 6.01173e5

ClippingRankSum
type: SiteQuality
SIO_000300: 4.95e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.85e-2

MQRankSum
type: SiteQuality
SIO_000300: 2.31e-1

VQSLOD
type: SiteQuality
SIO_000300: -2.809e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: -3.63e-1

QD
type: SiteQuality
SIO_000300: 1.227e1

GenotypeQuality
all individuals: 11758
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 33008
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 464
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 355
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 718
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 126
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1643
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 5330
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 1575
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 404
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 359
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 241
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1167
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 133
bin: 9.75e1
variant carriers: 2

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 21088
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 1416
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 1.058873358746294e-4
allele num: 9444
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 310
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 2426
num of homozygotes: 0

East Asian
type: Population
allele count: 1
allele frequency: 3.728560775540641e-4
allele num: 2682
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3224
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 6.0e1

QD
type: SiteQuality
SIO_000300: 1.459e1

DP
type: SiteQuality
SIO_000300: 6.68616e5

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.51e-2

MQRankSum
type: SiteQuality
SIO_000300: -2.89e-1

VQSLOD
type: SiteQuality
SIO_000300: -2.746e0

BaseQRankSum
type: SiteQuality
SIO_000300: 8.87e-1

FS
type: SiteQuality
SIO_000300: 2.0522e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 7.61e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 4.0e-3

GenotypeQuality
all individuals: 1270
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 120
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 695
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 409
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 135
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 1423
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 674
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 401
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 129
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1026
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 434
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 524
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 260
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1536
bin: 3.25e1
variant carriers: 0

Latino
type: Population
allele count: 1
allele frequency: 2.540650406504065e-4
allele num: 3936
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 2792
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3126
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 1510
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9706
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 344
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 24068
num of homozygotes: 0

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.4e-2

ReadPosRankSum
type: SiteQuality
SIO_000300: -2.59e-1

VQSLOD
type: SiteQuality
SIO_000300: -1.504e0

ClippingRankSum
type: SiteQuality
SIO_000300: 8.69e-1

QD
type: SiteQuality
SIO_000300: 5.49e0

FS
type: SiteQuality
SIO_000300: 0.0e0

MQRankSum
type: SiteQuality
SIO_000300: -2.59e-1

DP
type: SiteQuality
SIO_000300: 7.11767e5

MQ
type: SiteQuality
SIO_000300: 6.0e1

BaseQRankSum
type: SiteQuality
SIO_000300: -1.191e0

GenotypeQuality
all individuals: 538
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1412
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 302
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 15863
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 401
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1530
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 310
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 256
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 280
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 123
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 130
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 142
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 446
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1420
bin: 6.75e1
variant carriers: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4450
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 386
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 3.824676814809149e-5
allele num: 26146
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3132
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3506
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 1904
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9910
num of homozygotes: 0

ClippingRankSum
type: SiteQuality
SIO_000300: 2.8e-1

FS
type: SiteQuality
SIO_000300: 5.928e0

DP
type: SiteQuality
SIO_000300: 7.39808e5

MQRankSum
type: SiteQuality
SIO_000300: 1.68e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 8.0e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

BaseQRankSum
type: SiteQuality
SIO_000300: 1.73e0

VQSLOD
type: SiteQuality
SIO_000300: 4.1e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.15e-2

QD
type: SiteQuality
SIO_000300: 9.26e0

GenotypeQuality
all individuals: 203
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2776
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 410
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 130
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 907
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1216
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1271
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 551
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 134
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1553
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 417
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 150
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 274
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 540
bin: 5.25e1
variant carriers: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4482
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 450
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5802
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 2458
num of homozygotes: 0

African
type: Population
allele count: 1
allele frequency: 2.5e-4
allele num: 4000
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 32354
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10608
num of homozygotes: 0

ClippingRankSum
type: SiteQuality
SIO_000300: 1.28e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

MQRankSum
type: SiteQuality
SIO_000300: 5.37e-1

FS
type: SiteQuality
SIO_000300: 0.0e0

VQSLOD
type: SiteQuality
SIO_000300: 4.67e-1

DP
type: SiteQuality
SIO_000300: 8.27448e5

ReadPosRankSum
type: SiteQuality
SIO_000300: -1.445e0

BaseQRankSum
type: SiteQuality
SIO_000300: -1.115e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -8.0e-3

QD
type: SiteQuality
SIO_000300: 1.456e1

GenotypeQuality
all individuals: 650
bin: 4.75e1
variant carriers: 0

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

GenotypeQuality
all individuals: 153
bin: 9.75e1
variant carriers: 2

GenotypeQuality
all individuals: 25324
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1185
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 225
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1168
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 504
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 273
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1634
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 22479
bin: 6.25e1
variant carriers: 0

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

GenotypeQuality
all individuals: 455
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 930
bin: 5.25e1
variant carriers: 0

African
type: Population
allele count: 2
allele frequency: 4.5004500450045e-4
allele num: 4444
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 2658
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 35182
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10920
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 474
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6390
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4958
num of homozygotes: 0

BaseQRankSum
type: SiteQuality
SIO_000300: -1.676e0

VQSLOD
type: SiteQuality
SIO_000300: 1.75e0

DP
type: SiteQuality
SIO_000300: 8.68479e5

MQ
type: SiteQuality
SIO_000300: 6.0e1

MQRankSum
type: SiteQuality
SIO_000300: -2.3e-2

FS
type: SiteQuality
SIO_000300: 1.292e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -7.1e-3

ClippingRankSum
type: SiteQuality
SIO_000300: -9.45e-1

QD
type: SiteQuality
SIO_000300: 1.049e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 6.899999999999999e-1

GenotypeQuality
all individuals: 1093
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1051
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 24844
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 102
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 444
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 154
bin: 9.75e1
variant carriers: 2

GenotypeQuality
all individuals: 374
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1709
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 964
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 136
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 191
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 274
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 687
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 505
bin: 7.75e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4900
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 2852
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5310
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11248
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6898
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 2
allele frequency: 5.266761468373097e-5
allele num: 37974
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 500
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 6.0e1

InbreedingCoeff
type: SiteQuality
SIO_000300: -6.0e-3

ReadPosRankSum
type: SiteQuality
SIO_000300: 3.71e-1

VQSLOD
type: SiteQuality
SIO_000300: 2.17e0

QD
type: SiteQuality
SIO_000300: 1.101e1

MQRankSum
type: SiteQuality
SIO_000300: 5.51e-1

DP
type: SiteQuality
SIO_000300: 9.05487e5

FS
type: SiteQuality
SIO_000300: 1.04e0

ClippingRankSum
type: SiteQuality
SIO_000300: -4.1e-2

BaseQRankSum
type: SiteQuality
SIO_000300: 9.19e-1

GenotypeQuality
all individuals: 992
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 492
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 427
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 375
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 154
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 889
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 141
bin: 2.5e0
variant carriers: 0

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

GenotypeQuality
all individuals: 27211
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1759
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 484
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 286
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 138
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 511
bin: 7.75e1
variant carriers: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 536
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5690
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11590
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5288
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7446
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3082
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 2.473043822336532e-5
allele num: 40436
num of homozygotes: 0

BaseQRankSum
type: SiteQuality
SIO_000300: -1.614e0

QD
type: SiteQuality
SIO_000300: 5.94e0

FS
type: SiteQuality
SIO_000300: 3.648e0

MQRankSum
type: SiteQuality
SIO_000300: 1.35e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.08e0

ClippingRankSum
type: SiteQuality
SIO_000300: -1.049e0

VQSLOD
type: SiteQuality
SIO_000300: -1.23e0

DP
type: SiteQuality
SIO_000300: 9.43959e5

InbreedingCoeff
type: SiteQuality
SIO_000300: -5.7e-3

GenotypeQuality
all individuals: 368
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 860
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 168
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 20477
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 666
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1090
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 286
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1745
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 152
bin: 9.75e1
variant carriers: 0

GenotypeQuality
all individuals: 334
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 542
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 602
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 28866
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 623
bin: 5.75e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3290
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7862
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 42846
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11892
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 548
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5668
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6116
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: 1.17e0

QD
type: SiteQuality
SIO_000300: 7.51e0

MQRankSum
type: SiteQuality
SIO_000300: 0.0e0

BaseQRankSum
type: SiteQuality
SIO_000300: 1.75e0

FS
type: SiteQuality
SIO_000300: 2.066e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -5.3e-3

ClippingRankSum
type: SiteQuality
SIO_000300: 1.75e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.61e0

DP
type: SiteQuality
SIO_000300: 9.76912e5

GenotypeQuality
all individuals: 135
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 85
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 1385
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 462
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 158
bin: 9.75e1
variant carriers: 6

GenotypeQuality
all individuals: 533
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 826
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 144
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 169
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1764
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 1847
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 292
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 730
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 298
bin: 4.25e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3416
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6320
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 6
allele frequency: 1.35666802333469e-4
allele num: 44226
num of homozygotes: 0

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

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5910
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 12098
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 574
num of homozygotes: 0

ClippingRankSum
type: SiteQuality
SIO_000300: -7.9e-2

BaseQRankSum
type: SiteQuality
SIO_000300: -2.22e-1

QD
type: SiteQuality
SIO_000300: 8.369999999999999e0

FS
type: SiteQuality
SIO_000300: 3.002e0

DP
type: SiteQuality
SIO_000300: 9.9567e5

VQSLOD
type: SiteQuality
SIO_000300: 9.92e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: -3.17e-1

MQRankSum
type: SiteQuality
SIO_000300: 3.4e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -5.3e-3

MQ
type: SiteQuality
SIO_000300: 6.0e1

GenotypeQuality
all individuals: 890
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 292
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 30201
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 19442
bin: 2.25e1
variant carriers: 1

GenotypeQuality
all individuals: 295
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1752
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 491
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 376
bin: 1.75e1
variant carriers: 0

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

GenotypeQuality
all individuals: 1840
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 520
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 135
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1103
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 153
bin: 9.75e1
variant carriers: 1

East Asian
type: Population
allele count: 1
allele frequency: 1.562011871290222e-4
allele num: 6402
num of homozygotes: 0

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

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6018
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3490
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 12212
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 576
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 2.231545121842364e-5
allele num: 44812
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: -8.52e-1

DP
type: SiteQuality
SIO_000300: 1.005756e6

FS
type: SiteQuality
SIO_000300: 3.776e0

VQSLOD
type: SiteQuality
SIO_000300: -2.882e0

ClippingRankSum
type: SiteQuality
SIO_000300: -1.11e-1

QD
type: SiteQuality
SIO_000300: 2.69e0

BaseQRankSum
type: SiteQuality
SIO_000300: -2.409e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -5.1e-3

MQ
type: SiteQuality
SIO_000300: 6.0e1

ReadPosRankSum
type: SiteQuality
SIO_000300: -3.31e-1

GenotypeQuality
all individuals: 409
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 30359
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 19367
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 401
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 303
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 120
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 527
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 494
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1802
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 153
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 788
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1810
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1058
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 291
bin: 8.25e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 44998
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 574
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6418
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6026
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 1
allele frequency: 2.826455624646693e-4
allele num: 3538
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 12226
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8242
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: 1.95e0

VQSLOD
type: SiteQuality
SIO_000300: -5.601e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 4.67e-1

DP
type: SiteQuality
SIO_000300: 1.008576e6

FS
type: SiteQuality
SIO_000300: 4.425e0

BaseQRankSum
type: SiteQuality
SIO_000300: -1.718e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -5.1e-3

MQ
type: SiteQuality
SIO_000300: 6.0e1

QD
type: SiteQuality
SIO_000300: 1.176e1

ReadPosRankSum
type: SiteQuality
SIO_000300: -4.67e-1

GenotypeQuality
all individuals: 69
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 1802
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 925
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 165
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 767
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 19517
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 536
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 294
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 137
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 153
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 911
bin: 2.75e1
variant carriers: 0

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

GenotypeQuality
all individuals: 578
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 499
bin: 7.25e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3600
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 12270
num of homozygotes: 0

African
type: Population
allele count: 1
allele frequency: 1.643655489809336e-4
allele num: 6084
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 578
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8294
num of homozygotes: 0

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

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 45290
num of homozygotes: 0

QD
type: SiteQuality
SIO_000300: 3.49e0

VQSLOD
type: SiteQuality
SIO_000300: -2.427e0

MQRankSum
type: SiteQuality
SIO_000300: -6.33e-1

FS
type: SiteQuality
SIO_000300: 1.664e0

BaseQRankSum
type: SiteQuality
SIO_000300: 1.2e0

ClippingRankSum
type: SiteQuality
SIO_000300: 1.1e0

DP
type: SiteQuality
SIO_000300: 1.00911e6

MQ
type: SiteQuality
SIO_000300: 6.0e1

ReadPosRankSum
type: SiteQuality
SIO_000300: -1.196e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -4.9e-3

GenotypeQuality
all individuals: 1186
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1805
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 153
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 629
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 19748
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1837
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 447
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 175
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 298
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 29439
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 137
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 529
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 693
bin: 5.75e1
variant carriers: 0

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

Latino
type: Population
allele count: 1
allele frequency: 1.212121212121212e-4
allele num: 8250
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3576
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 45130
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6046
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 570
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6416
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 12244
num of homozygotes: 0

ReadPosRankSum
type: SiteQuality
SIO_000300: 4.63e-1

MQRankSum
type: SiteQuality
SIO_000300: 1.85e0

DP
type: SiteQuality
SIO_000300: 1.004169e6

FS
type: SiteQuality
SIO_000300: 0.0e0

ClippingRankSum
type: SiteQuality
SIO_000300: -2.9e-1

QD
type: SiteQuality
SIO_000300: 7.73e0

BaseQRankSum
type: SiteQuality
SIO_000300: -3.418e0

VQSLOD
type: SiteQuality
SIO_000300: -1.249e0

MQ
type: SiteQuality
SIO_000300: 5.922e1

InbreedingCoeff
type: SiteQuality
SIO_000300: -5.2e-3

GenotypeQuality
all individuals: 520
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 542
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 212
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 153
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 367
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 508
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 94
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 1876
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 260
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 487
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 136
bin: 9.25e1
variant carriers: 0

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

GenotypeQuality
all individuals: 1802
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 990
bin: 2.75e1
variant carriers: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 578
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8232
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3602
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 12250
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6042
num of homozygotes: 0

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

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 2.218770800976259e-5
allele num: 45070
num of homozygotes: 0

DP
type: SiteQuality
SIO_000300: 9.98855e5

InbreedingCoeff
type: SiteQuality
SIO_000300: -4.9e-3

FS
type: SiteQuality
SIO_000300: 1.345e0

MQ
type: SiteQuality
SIO_000300: 6.026e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.14e0

VQSLOD
type: SiteQuality
SIO_000300: 1.59e0

MQRankSum
type: SiteQuality
SIO_000300: -7.42e-1

QD
type: SiteQuality
SIO_000300: 9.6e0

ClippingRankSum
type: SiteQuality
SIO_000300: -9.95e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -1.667e0

GenotypeQuality
all individuals: 137
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 281
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 154
bin: 9.75e1
variant carriers: 2

GenotypeQuality
all individuals: 138
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 843
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 29189
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 480
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1774
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1921
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 949
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1016
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 495
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 400
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 429
bin: 5.75e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3602
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 8.169934640522875e-5
allele num: 12240
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6382
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 2.225486268749722e-5
allele num: 44934
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6032
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8214
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 578
num of homozygotes: 0

ClippingRankSum
type: SiteQuality
SIO_000300: 3.4e-1

DP
type: SiteQuality
SIO_000300: 9.95189e5

ReadPosRankSum
type: SiteQuality
SIO_000300: -3.4e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

InbreedingCoeff
type: SiteQuality
SIO_000300: -5.1e-3

QD
type: SiteQuality
SIO_000300: 8.31e0

FS
type: SiteQuality
SIO_000300: 1.651e0

MQRankSum
type: SiteQuality
SIO_000300: 3.2e-1

VQSLOD
type: SiteQuality
SIO_000300: 4.2e-2

BaseQRankSum
type: SiteQuality
SIO_000300: -1.278e0

GenotypeQuality
all individuals: 394
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 256
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 504
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 881
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 434
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1054
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1756
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 280
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 139
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 234
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 490
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 28798
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 513
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 154
bin: 9.75e1
variant carriers: 1

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6030
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3576
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 44826
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6392
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 12242
num of homozygotes: 0

Latino
type: Population
allele count: 1
allele frequency: 1.228501228501228e-4
allele num: 8140
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 578
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: 4.59e0

QD
type: SiteQuality
SIO_000300: 8.06e0

DP
type: SiteQuality
SIO_000300: 9.89657e5

ReadPosRankSum
type: SiteQuality
SIO_000300: -1.47e-1

MQ
type: SiteQuality
SIO_000300: 5.934e1

FS
type: SiteQuality
SIO_000300: 0.0e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 5.7e-3

MQRankSum
type: SiteQuality
SIO_000300: 9.389999999999999e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 1.35e0

BaseQRankSum
type: SiteQuality
SIO_000300: -8.47e-1

GenotypeQuality
all individuals: 234
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 137
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 490
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 513
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 20911
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1935
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 434
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 256
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 154
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 28798
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 280
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 475
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 394
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 139
bin: 8.75e1
variant carriers: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8140
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3576
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 12242
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6030
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 578
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 44826
num of homozygotes: 0

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

ClippingRankSum
type: SiteQuality
SIO_000300: 1.35e0

FS
type: SiteQuality
SIO_000300: 0.0e0

ReadPosRankSum
type: SiteQuality
SIO_000300: -1.47e-1

DP
type: SiteQuality
SIO_000300: 9.89657e5

MQRankSum
type: SiteQuality
SIO_000300: 9.389999999999999e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -8.47e-1

QD
type: SiteQuality
SIO_000300: 8.06e0

VQSLOD
type: SiteQuality
SIO_000300: 4.59e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 5.7e-3

MQ
type: SiteQuality
SIO_000300: 5.934e1

GenotypeQuality
all individuals: 156
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 1682
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 272
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2102
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 135
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 448
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 154
bin: 9.75e1
variant carriers: 2

GenotypeQuality
all individuals: 499
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1286
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 521
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 257
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 501
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 138
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 25435
bin: 6.25e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3538
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 574
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5938
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6218
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7914
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 2
allele frequency: 4.56141951375268e-5
allele num: 43846
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 12094
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: -9.391e-1

MQRankSum
type: SiteQuality
SIO_000300: 1.25e0

BaseQRankSum
type: SiteQuality
SIO_000300: -8.69e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -3.82e-1

DP
type: SiteQuality
SIO_000300: 9.60974e5

QD
type: SiteQuality
SIO_000300: 8.25e0

FS
type: SiteQuality
SIO_000300: 2.261e0

MQ
type: SiteQuality
SIO_000300: 5.906e1

ReadPosRankSum
type: SiteQuality
SIO_000300: -3.82e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -6.1e-3

GenotypeQuality
all individuals: 26145
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1053
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 138
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 443
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 110
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 2088
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 644
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 477
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 22909
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 546
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 273
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 135
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 507
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 251
bin: 4.25e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3548
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7938
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5954
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 576
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 2.27842333105491e-5
allele num: 43890
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 12126
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6238
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 5.917e1

BaseQRankSum
type: SiteQuality
SIO_000300: -3.6e-1

DP
type: SiteQuality
SIO_000300: 9.60356e5

ClippingRankSum
type: SiteQuality
SIO_000300: -1.079e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -5.9e-3

VQSLOD
type: SiteQuality
SIO_000300: -2.35e-2

FS
type: SiteQuality
SIO_000300: 0.0e0

MQRankSum
type: SiteQuality
SIO_000300: 1.46e0

QD
type: SiteQuality
SIO_000300: 1.481e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.32e0

GenotypeQuality
all individuals: 455
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 395
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 24572
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 122
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 1449
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2171
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 269
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 434
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 593
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1139
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 156
bin: 9.75e1
variant carriers: 3

GenotypeQuality
all individuals: 243
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1636
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 134
bin: 9.25e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5870
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6092
num of homozygotes: 0

Latino
type: Population
allele count: 2
allele frequency: 2.581311306143521e-4
allele num: 7748
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 2
allele frequency: 4.629843974258068e-5
allele num: 43198
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 564
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 12052
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3458
num of homozygotes: 0

ClippingRankSum
type: SiteQuality
SIO_000300: 9.2e-2

VQSLOD
type: SiteQuality
SIO_000300: 8.96e-1

MQRankSum
type: SiteQuality
SIO_000300: -4.36e-1

DP
type: SiteQuality
SIO_000300: 9.35413e5

MQ
type: SiteQuality
SIO_000300: 6.0e1

ReadPosRankSum
type: SiteQuality
SIO_000300: -8.699999999999999e-2

InbreedingCoeff
type: SiteQuality
SIO_000300: -5.7e-3

FS
type: SiteQuality
SIO_000300: 1.615e0

BaseQRankSum
type: SiteQuality
SIO_000300: -1.65e-1

QD
type: SiteQuality
SIO_000300: 8.31e0

GenotypeQuality
all individuals: 139
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2346
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 529
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1281
bin: 3.25e1
variant carriers: 1

GenotypeQuality
all individuals: 146
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 303
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1661
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 660
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 351
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1568
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 466
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 165
bin: 9.75e1
variant carriers: 13

GenotypeQuality
all individuals: 507
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 22033
bin: 6.25e1
variant carriers: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 560
num of homozygotes: 0

South Asian
type: Population
allele count: 3
allele frequency: 2.518891687657431e-4
allele num: 11910
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 10
allele frequency: 2.372591819303407e-4
allele num: 42148
num of homozygotes: 0

Latino
type: Population
allele count: 1
allele frequency: 1.330849081714134e-4
allele num: 7514
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3416
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5926
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5780
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 6.0e1

FS
type: SiteQuality
SIO_000300: 1.143e0

QD
type: SiteQuality
SIO_000300: 9.880000000000001e0

DP
type: SiteQuality
SIO_000300: 9.01809e5

InbreedingCoeff
type: SiteQuality
SIO_000300: -6.5e-3

ClippingRankSum
type: SiteQuality
SIO_000300: 0.0e0

VQSLOD
type: SiteQuality
SIO_000300: 1.37e0

MQRankSum
type: SiteQuality
SIO_000300: -2.78e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: -1.86e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -2.14e0

GenotypeQuality
all individuals: 669
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 406
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 255
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 155
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 324
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 152
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 2515
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 20061
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1873
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1393
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 28407
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 134
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 342
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 263
bin: 8.25e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5666
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 2.411730657920123e-5
allele num: 41464
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 544
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7374
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5816
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11818
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3370
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 5.875e1

MQRankSum
type: SiteQuality
SIO_000300: -4.95e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: -4.95e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -6.4e-3

FS
type: SiteQuality
SIO_000300: 2.963e0

QD
type: SiteQuality
SIO_000300: 2.33e0

VQSLOD
type: SiteQuality
SIO_000300: -3.058e0

DP
type: SiteQuality
SIO_000300: 8.76795e5

BaseQRankSum
type: SiteQuality
SIO_000300: 7.099999999999999e-2

ClippingRankSum
type: SiteQuality
SIO_000300: 2.12e-1

GenotypeQuality
all individuals: 401
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 327
bin: 4.75e1
variant carriers: 1

GenotypeQuality
all individuals: 1940
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 484
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 456
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 675
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 352
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 28930
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 328
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 155
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 244
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1451
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 134
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 19392
bin: 6.25e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5636
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 546
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7316
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 8.478887569950823e-5
allele num: 11794
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 41262
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5786
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3350
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: -4.67e-1

VQSLOD
type: SiteQuality
SIO_000300: 8.04e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 7.62e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 1.07e0

DP
type: SiteQuality
SIO_000300: 8.68351e5

FS
type: SiteQuality
SIO_000300: 0.0e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 2.59e-1

QD
type: SiteQuality
SIO_000300: 1.201e1

InbreedingCoeff
type: SiteQuality
SIO_000300: -6.6e-3

MQ
type: SiteQuality
SIO_000300: 6.0e1

GenotypeQuality
all individuals: 219
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2143
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1290
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2790
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 197
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 619
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 196
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 34033
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 272
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 258
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 136
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 155
bin: 9.75e1
variant carriers: 1

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6680
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 514
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5200
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 8.729050279329609e-5
allele num: 11456
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3096
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 38314
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5236
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: 5.8e-2

DP
type: SiteQuality
SIO_000300: 7.63399e5

MQRankSum
type: SiteQuality
SIO_000300: -1.048e0

QD
type: SiteQuality
SIO_000300: 1.331e1

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.0e-2

MQ
type: SiteQuality
SIO_000300: 5.988e1

FS
type: SiteQuality
SIO_000300: 7.52e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -4.855e0

ReadPosRankSum
type: SiteQuality
SIO_000300: -9.330000000000001e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 9.4e-2

GenotypeQuality
all individuals: 136
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 177
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 444
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 133
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1285
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 879
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 4184
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 230
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 156
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 34168
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 361
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 252
bin: 5.25e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5184
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11454
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6654
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 512
num of homozygotes: 0

East Asian
type: Population
allele count: 1
allele frequency: 1.923076923076923e-4
allele num: 5200
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 38158
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3084
num of homozygotes: 0

DP
type: SiteQuality
SIO_000300: 7.5697e5

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.02e-2

MQRankSum
type: SiteQuality
SIO_000300: -5.78e-1

FS
type: SiteQuality
SIO_000300: 0.0e0

BaseQRankSum
type: SiteQuality
SIO_000300: 1.11e0

ClippingRankSum
type: SiteQuality
SIO_000300: 1.02e0

MQ
type: SiteQuality
SIO_000300: 5.572e1

QD
type: SiteQuality
SIO_000300: 1.315e1

VQSLOD
type: SiteQuality
SIO_000300: -1.632e0

ReadPosRankSum
type: SiteQuality
SIO_000300: -1.2e0

GenotypeQuality
all individuals: 2182
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2875
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 4381
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 172
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 271
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 710
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 848
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 173
bin: 9.75e1
variant carriers: 18

GenotypeQuality
all individuals: 34255
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 204
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 133
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 160
bin: 4.75e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5150
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 514
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6596
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3048
num of homozygotes: 0

South Asian
type: Population
allele count: 18
allele frequency: 1.577010688628001e-3
allele num: 11414
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5140
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 37850
num of homozygotes: 0

BaseQRankSum
type: SiteQuality
SIO_000300: -2.152e0

QD
type: SiteQuality
SIO_000300: 1.015e1

MQRankSum
type: SiteQuality
SIO_000300: -2.78e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 3.8e-2

DP
type: SiteQuality
SIO_000300: 7.53407e5

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.07e-2

VQSLOD
type: SiteQuality
SIO_000300: 6.68e-1

FS
type: SiteQuality
SIO_000300: 5.89e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 4.7e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

GenotypeQuality
all individuals: 135
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1218
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 358
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 3183
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2502
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 34410
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 5756
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 8331
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 168
bin: 9.75e1
variant carriers: 4

GenotypeQuality
all individuals: 86
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 133
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 434
bin: 7.75e1
variant carriers: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4960
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 36784
num of homozygotes: 0

Latino
type: Population
allele count: 4
allele frequency: 6.321112515802782e-4
allele num: 6328
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11292
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5028
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 2930
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 502
num of homozygotes: 0

ClippingRankSum
type: SiteQuality
SIO_000300: 1.01e-1

FS
type: SiteQuality
SIO_000300: 3.129e0

ReadPosRankSum
type: SiteQuality
SIO_000300: -2.96e-1

MQRankSum
type: SiteQuality
SIO_000300: 1.14e0

QD
type: SiteQuality
SIO_000300: 1.383e1

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.24e-2

DP
type: SiteQuality
SIO_000300: 7.13332e5

VQSLOD
type: SiteQuality
SIO_000300: 3.97e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

BaseQRankSum
type: SiteQuality
SIO_000300: 2.78e0

GenotypeQuality
all individuals: 339
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 2686
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 6925
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1343
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 429
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 135
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 133
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 358
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1150
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 71
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 87
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 257
bin: 8.25e1
variant carriers: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6080
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4840
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4724
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 2826
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 484
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 2.820078962210942e-5
allele num: 35460
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11128
num of homozygotes: 0

BaseQRankSum
type: SiteQuality
SIO_000300: 3.11e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.57e-2

MQRankSum
type: SiteQuality
SIO_000300: 4.73e-1

DP
type: SiteQuality
SIO_000300: 6.87911e5

FS
type: SiteQuality
SIO_000300: 1.972e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.58e-1

VQSLOD
type: SiteQuality
SIO_000300: 2.85e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 1.36e0

QD
type: SiteQuality
SIO_000300: 8.640000000000001e0

GenotypeQuality
all individuals: 5351
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 13417
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 426
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 6177
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 133
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 4689
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2857
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 165
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 1073
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 256
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 135
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 351
bin: 7.25e1
variant carriers: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9580
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 1642
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 2928
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 4.232625074070939e-5
allele num: 23626
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3122
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3646
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 352
num of homozygotes: 0

QD
type: SiteQuality
SIO_000300: 7.85e0

ClippingRankSum
type: SiteQuality
SIO_000300: 9.72e-1

VQSLOD
type: SiteQuality
SIO_000300: -8.799e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -2.9e-2

MQRankSum
type: SiteQuality
SIO_000300: 4.2e-2

MQ
type: SiteQuality
SIO_000300: 6.0e1

DP
type: SiteQuality
SIO_000300: 5.82302e5

ReadPosRankSum
type: SiteQuality
SIO_000300: -9.72e-1

FS
type: SiteQuality
SIO_000300: 6.107e0

BaseQRankSum
type: SiteQuality
SIO_000300: 2.92e0

GenotypeQuality
all individuals: 15257
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 327
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 6923
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2744
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1622
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 258
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 275
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1067
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2693
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 135
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 4529
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 133
bin: 9.25e1
variant carriers: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9376
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 1418
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 2620
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 2834
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 4.587576841912102e-5
allele num: 21798
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 326
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 3166
num of homozygotes: 0

BaseQRankSum
type: SiteQuality
SIO_000300: 1.37e0

FS
type: SiteQuality
SIO_000300: 0.0e0

VQSLOD
type: SiteQuality
SIO_000300: -2.474e0

ClippingRankSum
type: SiteQuality
SIO_000300: 1.49e0

QD
type: SiteQuality
SIO_000300: 8.710000000000001e0

MQ
type: SiteQuality
SIO_000300: 5.866e1

InbreedingCoeff
type: SiteQuality
SIO_000300: -3.02e-2

ReadPosRankSum
type: SiteQuality
SIO_000300: -8.110000000000001e-1

MQRankSum
type: SiteQuality
SIO_000300: 1.2e0

DP
type: SiteQuality
SIO_000300: 5.76173e5

GenotypeQuality
all individuals: 7340
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 621
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1508
bin: 7.75e1
variant carriers: 0

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

GenotypeQuality
all individuals: 72
bin: 5.75e1
variant carriers: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11538
num of homozygotes: 0

South Asian
type: Population
allele count: 2
allele frequency: 1.559332605644784e-4
allele num: 12826
num of homozygotes: 0

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

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

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10342
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 65520
num of homozygotes: 0

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

FS
type: SiteQuality
SIO_000300: 2.043e0

DP
type: SiteQuality
SIO_000300: 1.640805e6

MQRankSum
type: SiteQuality
SIO_000300: 1.02e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.67e0

VQSLOD
type: SiteQuality
SIO_000300: 6.43e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 3.64e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -7.0e-4

QD
type: SiteQuality
SIO_000300: 1.453e1

MQ
type: SiteQuality
SIO_000300: 5.952e1

ClippingRankSum
type: SiteQuality
SIO_000300: -1.242e0

GenotypeQuality
all individuals: 290
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1564
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 629
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 41801
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1754
bin: 2.25e1
variant carriers: 0

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

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8634
num of homozygotes: 0

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

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10342
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.52597204419215e-5
allele num: 65532
num of homozygotes: 0

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

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 12904
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: 8.68e-1

DP
type: SiteQuality
SIO_000300: 1.641875e6

ReadPosRankSum
type: SiteQuality
SIO_000300: 7.29e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

FS
type: SiteQuality
SIO_000300: 2.954e0

MQRankSum
type: SiteQuality
SIO_000300: 7.29e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -1.652e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 7.0e-4

QD
type: SiteQuality
SIO_000300: 1.461e1

ClippingRankSum
type: SiteQuality
SIO_000300: -4.5e-2

GenotypeQuality
all individuals: 41801
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1564
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 293
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1609
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 629
bin: 3.75e1
variant carriers: 0

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

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

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

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10342
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8634
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 12904
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 65532
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: 7.29e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -1.652e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 7.0e-4

MQ
type: SiteQuality
SIO_000300: 6.0e1

FS
type: SiteQuality
SIO_000300: 2.954e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 7.29e-1

VQSLOD
type: SiteQuality
SIO_000300: 8.68e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -4.5e-2

QD
type: SiteQuality
SIO_000300: 1.461e1

DP
type: SiteQuality
SIO_000300: 1.641875e6

GenotypeQuality
all individuals: 268
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 574
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 42522
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 277
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 7382
bin: 6.75e1
variant carriers: 0

South Asian
type: Population
allele count: 1
allele frequency: 7.544892108042855e-5
allele num: 13254
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 2
allele frequency: 3.044788843893676e-5
allele num: 65686
num of homozygotes: 0

African
type: Population
allele count: 155
allele frequency: 1.496716879103901e-2
allele num: 10356
num of homozygotes: 3

Latino
type: Population
allele count: 10
allele frequency: 8.664009703690869e-4
allele num: 11542
num of homozygotes: 0

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

Other
type: Population
allele count: 1
allele frequency: 1.146788990825688e-3
allele num: 872
num of homozygotes: 0

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

QD
type: SiteQuality
SIO_000300: 1.427e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.7e-2

MQ
type: SiteQuality
SIO_000300: 5.968e1

BaseQRankSum
type: SiteQuality
SIO_000300: 2.51e0

DP
type: SiteQuality
SIO_000300: 1.650637e6

FS
type: SiteQuality
SIO_000300: 7.74e-1

MQRankSum
type: SiteQuality
SIO_000300: 2.12e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 3.94e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -1.2e-2

VQSLOD
type: SiteQuality
SIO_000300: 5.34e0

GenotypeQuality
all individuals: 53
bin: 5.75e1
variant carriers: 1

GenotypeQuality
all individuals: 589
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 731
bin: 8.25e1
variant carriers: 3

GenotypeQuality
all individuals: 1570
bin: 7.25e1
variant carriers: 1

GenotypeQuality
all individuals: 134
bin: 4.25e1
variant carriers: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 13364
num of homozygotes: 0

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

European (Non-Finnish)
type: Population
allele count: 47
allele frequency: 7.150028904372166e-4
allele num: 65734
num of homozygotes: 0

Other
type: Population
allele count: 1
allele frequency: 1.1441647597254e-3
allele num: 874
num of homozygotes: 0

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

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

Latino
type: Population
allele count: 1
allele frequency: 8.667013347200555e-5
allele num: 11538
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 5.973e1

FS
type: SiteQuality
SIO_000300: 0.0e0

QD
type: SiteQuality
SIO_000300: 1.442e1

InbreedingCoeff
type: SiteQuality
SIO_000300: -8.0e-4

ClippingRankSum
type: SiteQuality
SIO_000300: -4.12e-1

DP
type: SiteQuality
SIO_000300: 1.648899e6

ReadPosRankSum
type: SiteQuality
SIO_000300: 5.97e-1

VQSLOD
type: SiteQuality
SIO_000300: 5.58e0

MQRankSum
type: SiteQuality
SIO_000300: 1.33e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 2.57e0

GenotypeQuality
all individuals: 7439
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 119
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 268
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1579
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 96
bin: 4.25e1
variant carriers: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11544
num of homozygotes: 0

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

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

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

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

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

South Asian
type: Population
allele count: 1
allele frequency: 7.31528895391368e-5
allele num: 13670
num of homozygotes: 0

FS
type: SiteQuality
SIO_000300: 1.044e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -2.0e-4

DP
type: SiteQuality
SIO_000300: 1.654958e6

VQSLOD
type: SiteQuality
SIO_000300: -1.952e-1

MQRankSum
type: SiteQuality
SIO_000300: -9.25e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: -6.870000000000001e-1

QD
type: SiteQuality
SIO_000300: 9.93e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

ClippingRankSum
type: SiteQuality
SIO_000300: 9.98e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 1.63e0

GenotypeQuality
all individuals: 1583
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 64
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 115
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 267
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 86
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 21
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 7488
bin: 6.75e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.516530178950561e-5
allele num: 65940
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 14300
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11550
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10378
num of homozygotes: 0

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

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

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

InbreedingCoeff
type: SiteQuality
SIO_000300: -3.0e-4

ClippingRankSum
type: SiteQuality
SIO_000300: -2.01e-1

DP
type: SiteQuality
SIO_000300: 1.666451e6

MQ
type: SiteQuality
SIO_000300: 5.963e1

FS
type: SiteQuality
SIO_000300: 2.489e0

BaseQRankSum
type: SiteQuality
SIO_000300: 2.3e-1

MQRankSum
type: SiteQuality
SIO_000300: -1.22e0

VQSLOD
type: SiteQuality
SIO_000300: 6.1e-2

ReadPosRankSum
type: SiteQuality
SIO_000300: 6.74e-1

QD
type: SiteQuality
SIO_000300: 1.017e1

GenotypeQuality
all individuals: 114
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 311
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 104
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 88
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 289
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 7515
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 44874
bin: 6.25e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66072
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10386
num of homozygotes: 0

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

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 14716
num of homozygotes: 0

Latino
type: Population
allele count: 1
allele frequency: 8.655011251514626e-5
allele num: 11554
num of homozygotes: 0

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

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

QD
type: SiteQuality
SIO_000300: 1.331e1

FS
type: SiteQuality
SIO_000300: 5.11e-1

MQRankSum
type: SiteQuality
SIO_000300: 2.72e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 3.63e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

ClippingRankSum
type: SiteQuality
SIO_000300: -6.34e-1

DP
type: SiteQuality
SIO_000300: 1.674026e6

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.0e-4

BaseQRankSum
type: SiteQuality
SIO_000300: -3.086e0

VQSLOD
type: SiteQuality
SIO_000300: 3.26e0

GenotypeQuality
all individuals: 1593
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 17
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 114
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 311
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 104
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1499
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 44874
bin: 6.25e1
variant carriers: 0

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

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

South Asian
type: Population
allele count: 8
allele frequency: 5.436259853220984e-4
allele num: 14716
num of homozygotes: 0

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

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10386
num of homozygotes: 0

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

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66072
num of homozygotes: 0

FS
type: SiteQuality
SIO_000300: 5.11e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 3.63e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -3.086e0

QD
type: SiteQuality
SIO_000300: 1.331e1

VQSLOD
type: SiteQuality
SIO_000300: 3.26e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.0e-4

MQ
type: SiteQuality
SIO_000300: 6.0e1

MQRankSum
type: SiteQuality
SIO_000300: 2.72e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -6.34e-1

DP
type: SiteQuality
SIO_000300: 1.674026e6

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

GenotypeQuality
all individuals: 1508
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 23
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 88
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 131
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 7543
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 266
bin: 8.75e1
variant carriers: 0

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

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11560
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 15264
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10390
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8652
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.50952510340247e-5
allele num: 66246
num of homozygotes: 0

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

VQSLOD
type: SiteQuality
SIO_000300: 6.73e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -5.94e-1

MQRankSum
type: SiteQuality
SIO_000300: 6.24e-1

QD
type: SiteQuality
SIO_000300: 1.046e1

MQ
type: SiteQuality
SIO_000300: 5.977e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 8.800000000000001e-3

FS
type: SiteQuality
SIO_000300: 1.984e0

ClippingRankSum
type: SiteQuality
SIO_000300: 3.55e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.09e0

DP
type: SiteQuality
SIO_000300: 1.683202e6

GenotypeQuality
all individuals: 1427
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 17
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 736
bin: 8.25e1
variant carriers: 0

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

GenotypeQuality
all individuals: 131
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 102
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1508
bin: 7.75e1
variant carriers: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8652
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10390
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 6.551362683438155e-5
allele num: 15264
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11560
num of homozygotes: 0

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

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

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

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.09e0

FS
type: SiteQuality
SIO_000300: 1.984e0

BaseQRankSum
type: SiteQuality
SIO_000300: -5.94e-1

QD
type: SiteQuality
SIO_000300: 1.046e1

MQRankSum
type: SiteQuality
SIO_000300: 6.24e-1

MQ
type: SiteQuality
SIO_000300: 5.977e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 8.800000000000001e-3

VQSLOD
type: SiteQuality
SIO_000300: 6.73e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 3.55e-1

DP
type: SiteQuality
SIO_000300: 1.683202e6

GenotypeQuality
all individuals: 74
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 65
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1521
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 270
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 444
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 60
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 277
bin: 9.25e1
variant carriers: 0

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

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

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8654
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10396
num of homozygotes: 0

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

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.504211793020457e-5
allele num: 66480
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 15946
num of homozygotes: 0

QD
type: SiteQuality
SIO_000300: 1.212e1

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.0e-4

MQ
type: SiteQuality
SIO_000300: 5.975e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 6.73e-1

MQRankSum
type: SiteQuality
SIO_000300: 1.12e0

FS
type: SiteQuality
SIO_000300: 4.287e0

DP
type: SiteQuality
SIO_000300: 1.693725e6

BaseQRankSum
type: SiteQuality
SIO_000300: 2.44e0

VQSLOD
type: SiteQuality
SIO_000300: 8.89e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -2.074e0

GenotypeQuality
all individuals: 6
bin: 7.5e0
variant carriers: 0

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

GenotypeQuality
all individuals: 7612
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1610
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 55
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 263
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1516
bin: 7.75e1
variant carriers: 0

Other
type: Population
allele count: 2
allele frequency: 2.222222222222222e-3
allele num: 900
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 6.240639041437844e-5
allele num: 16024
num of homozygotes: 0

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

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8654
num of homozygotes: 0

Latino
type: Population
allele count: 24
allele frequency: 2.073971655720705e-3
allele num: 11572
num of homozygotes: 0

African
type: Population
allele count: 231
allele frequency: 2.222008464794152e-2
allele num: 10396
num of homozygotes: 1

European (Non-Finnish)
type: Population
allele count: 12
allele frequency: 1.804402742692169e-4
allele num: 66504
num of homozygotes: 1

DP
type: SiteQuality
SIO_000300: 1.707269e6

FS
type: SiteQuality
SIO_000300: 0.0e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.23e-2

VQSLOD
type: SiteQuality
SIO_000300: 5.37e0

BaseQRankSum
type: SiteQuality
SIO_000300: 1.9e0

QD
type: SiteQuality
SIO_000300: 1.238e1

MQRankSum
type: SiteQuality
SIO_000300: 4.5e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 8.94e-1

MQ
type: SiteQuality
SIO_000300: 5.975e1

ClippingRankSum
type: SiteQuality
SIO_000300: -2.47e-1

GenotypeQuality
all individuals: 58
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 736
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1518
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 275
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 264
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 58
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 7654
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 41
bin: 4.25e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10396
num of homozygotes: 0

East Asian
type: Population
allele count: 2
allele frequency: 2.31107002542177e-4
allele num: 8654
num of homozygotes: 0

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

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

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16158
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66542
num of homozygotes: 0

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

ClippingRankSum
type: SiteQuality
SIO_000300: -1.438e0

ReadPosRankSum
type: SiteQuality
SIO_000300: -6.21e-1

MQRankSum
type: SiteQuality
SIO_000300: 2.22e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.0e-4

DP
type: SiteQuality
SIO_000300: 1.692255e6

MQ
type: SiteQuality
SIO_000300: 6.033e1

BaseQRankSum
type: SiteQuality
SIO_000300: -2.37e-1

FS
type: SiteQuality
SIO_000300: 3.019e0

QD
type: SiteQuality
SIO_000300: 1.185e1

VQSLOD
type: SiteQuality
SIO_000300: 2.65e0

GenotypeQuality
all individuals: 7654
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 56
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 263
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 7
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 69
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 44
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 54
bin: 5.25e1
variant carriers: 0

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

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

East Asian
type: Population
allele count: 1
allele frequency: 1.155535012710885e-4
allele num: 8654
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 904
num of homozygotes: 0

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

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11578
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10400
num of homozygotes: 0

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.0e-4

QD
type: SiteQuality
SIO_000300: 7.99e0

ClippingRankSum
type: SiteQuality
SIO_000300: 1.94e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -3.347e0

MQRankSum
type: SiteQuality
SIO_000300: 4.8e-1

VQSLOD
type: SiteQuality
SIO_000300: -1.362e-1

FS
type: SiteQuality
SIO_000300: 1.299e0

MQ
type: SiteQuality
SIO_000300: 5.949e1

ReadPosRankSum
type: SiteQuality
SIO_000300: -3.01e-1

DP
type: SiteQuality
SIO_000300: 1.696045e6

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

GenotypeQuality
all individuals: 44
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1630
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 32
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1522
bin: 7.75e1
variant carriers: 0

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

GenotypeQuality
all individuals: 46995
bin: 6.25e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66630
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10402
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 6.101281269066504e-5
allele num: 16390
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8654
num of homozygotes: 0

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

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 906
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11578
num of homozygotes: 0

ClippingRankSum
type: SiteQuality
SIO_000300: -1.767e0

VQSLOD
type: SiteQuality
SIO_000300: 6.67e-1

MQRankSum
type: SiteQuality
SIO_000300: 3.02e-1

MQ
type: SiteQuality
SIO_000300: 5.987e1

BaseQRankSum
type: SiteQuality
SIO_000300: 2.44e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.0e-4

DP
type: SiteQuality
SIO_000300: 1.696864e6

FS
type: SiteQuality
SIO_000300: 4.015e0

QD
type: SiteQuality
SIO_000300: 1.109e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.75e0

GenotypeQuality
all individuals: 1220
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 1625
bin: 7.25e1
variant carriers: 0

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

GenotypeQuality
all individuals: 30
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 732
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 7691
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 47066
bin: 6.25e1
variant carriers: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 906
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8654
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10402
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.500105007350515e-5
allele num: 66662
num of homozygotes: 0

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

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11578
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16448
num of homozygotes: 0

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.17e0

BaseQRankSum
type: SiteQuality
SIO_000300: -2.87e0

MQRankSum
type: SiteQuality
SIO_000300: -1.032e0

VQSLOD
type: SiteQuality
SIO_000300: -2.97e0

DP
type: SiteQuality
SIO_000300: 1.698036e6

QD
type: SiteQuality
SIO_000300: 4.05e0

FS
type: SiteQuality
SIO_000300: 2.583e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.85e-2

MQ
type: SiteQuality
SIO_000300: 6.0e1

ClippingRankSum
type: SiteQuality
SIO_000300: -2.34e0

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

GenotypeQuality
all individuals: 29
bin: 5.75e1
variant carriers: 0

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

GenotypeQuality
all individuals: 1626
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 25
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 274
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1221
bin: 9.75e1
variant carriers: 4

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66660
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 906
num of homozygotes: 0

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

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11578
num of homozygotes: 0

South Asian
type: Population
allele count: 4
allele frequency: 2.430133657351154e-4
allele num: 16460
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10402
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8654
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 6.0e1

BaseQRankSum
type: SiteQuality
SIO_000300: -2.733e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.31e-2

FS
type: SiteQuality
SIO_000300: 1.9225e1

DP
type: SiteQuality
SIO_000300: 1.698647e6

QD
type: SiteQuality
SIO_000300: 9.949999999999999e0

ClippingRankSum
type: SiteQuality
SIO_000300: -4.17e-1

MQRankSum
type: SiteQuality
SIO_000300: -5.13e-1

VQSLOD
type: SiteQuality
SIO_000300: -2.662e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 0.0e0

GenotypeQuality
all individuals: 1627
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 17
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 12
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 7702
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 733
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 35
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 27
bin: 4.75e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10402
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66672
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 906
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11578
num of homozygotes: 0

East Asian
type: Population
allele count: 1
allele frequency: 1.155535012710885e-4
allele num: 8654
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16460
num of homozygotes: 0

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

ClippingRankSum
type: SiteQuality
SIO_000300: 7.41e-1

VQSLOD
type: SiteQuality
SIO_000300: -5.770999999999999e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: -1.017e0

MQRankSum
type: SiteQuality
SIO_000300: 2.49e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.62e-2

MQ
type: SiteQuality
SIO_000300: 5.971e1

DP
type: SiteQuality
SIO_000300: 1.698912e6

FS
type: SiteQuality
SIO_000300: 5.99e-1

QD
type: SiteQuality
SIO_000300: 9.220000000000001e0

BaseQRankSum
type: SiteQuality
SIO_000300: -5.004e0

GenotypeQuality
all individuals: 17
bin: 3.25e1
variant carriers: 0

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

GenotypeQuality
all individuals: 40
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 21
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1199
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 260
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 272
bin: 9.25e1
variant carriers: 0

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

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8654
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10404
num of homozygotes: 0

Latino
type: Population
allele count: 1
allele frequency: 8.637070305752289e-5
allele num: 11578
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 908
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16498
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66696
num of homozygotes: 0

FS
type: SiteQuality
SIO_000300: 3.797e0

MQ
type: SiteQuality
SIO_000300: 5.915e1

DP
type: SiteQuality
SIO_000300: 1.69966e6

QD
type: SiteQuality
SIO_000300: 1.08e1

MQRankSum
type: SiteQuality
SIO_000300: -3.76e-1

VQSLOD
type: SiteQuality
SIO_000300: 5.0e-2

ClippingRankSum
type: SiteQuality
SIO_000300: -2.76e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 3.7e-3

BaseQRankSum
type: SiteQuality
SIO_000300: -4.83e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 6.840000000000001e-1

GenotypeQuality
all individuals: 18
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 728
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 47259
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 7697
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 11
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 13
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 272
bin: 9.25e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66700
num of homozygotes: 0

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

East Asian
type: Population
allele count: 1
allele frequency: 1.155535012710885e-4
allele num: 8654
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 908
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10404
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16498
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11578
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 5.934e1

MQRankSum
type: SiteQuality
SIO_000300: 4.82e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 9.99e-1

VQSLOD
type: SiteQuality
SIO_000300: 5.11e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 1.03e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 3.5e-3

FS
type: SiteQuality
SIO_000300: 1.377e0

ReadPosRankSum
type: SiteQuality
SIO_000300: -4.48e-1

QD
type: SiteQuality
SIO_000300: 1.334e1

DP
type: SiteQuality
SIO_000300: 1.699723e6

GenotypeQuality
all individuals: 7698
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 10
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 7
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1510
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 47295
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 17
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 7
bin: 4.75e1
variant carriers: 0

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

South Asian
type: Population
allele count: 7
allele frequency: 4.241910071506484e-4
allele num: 16502
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10404
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 7
allele frequency: 1.049443794788762e-4
allele num: 66702
num of homozygotes: 0

Other
type: Population
allele count: 1
allele frequency: 1.101321585903084e-3
allele num: 908
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11578
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8654
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: 3.38e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.0e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.1e-3

DP
type: SiteQuality
SIO_000300: 1.700299e6

FS
type: SiteQuality
SIO_000300: 1.833e0

ClippingRankSum
type: SiteQuality
SIO_000300: -3.73e-1

MQ
type: SiteQuality
SIO_000300: 5.974e1

VQSLOD
type: SiteQuality
SIO_000300: 2.45e0

BaseQRankSum
type: SiteQuality
SIO_000300: 1.02e0

QD
type: SiteQuality
SIO_000300: 1.272e1

GenotypeQuality
all individuals: 10
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 15
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 8
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1196
bin: 9.75e1
variant carriers: 8

GenotypeQuality
all individuals: 1632
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 13
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 257
bin: 8.75e1
variant carriers: 0

Latino
type: Population
allele count: 1
allele frequency: 8.637070305752289e-5
allele num: 11578
num of homozygotes: 0

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

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10406
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8654
num of homozygotes: 0

South Asian
type: Population
allele count: 8
allele frequency: 4.846722403974312e-4
allele num: 16506
num of homozygotes: 1

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66706
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 908
num of homozygotes: 0

BaseQRankSum
type: SiteQuality
SIO_000300: -7.99e-1

MQ
type: SiteQuality
SIO_000300: 5.971e1

MQRankSum
type: SiteQuality
SIO_000300: 6.4e-2

FS
type: SiteQuality
SIO_000300: 5.47e-1

QD
type: SiteQuality
SIO_000300: 1.302e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.022e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.09e0

VQSLOD
type: SiteQuality
SIO_000300: -3.827e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -9.13e-1

DP
type: SiteQuality
SIO_000300: 1.700205e6

GenotypeQuality
all individuals: 8
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 10
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1630
bin: 7.25e1
variant carriers: 0

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

GenotypeQuality
all individuals: 6
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1189
bin: 9.75e1
variant carriers: 3

GenotypeQuality
all individuals: 273
bin: 9.25e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66716
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10406
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 908
num of homozygotes: 0

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

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8654
num of homozygotes: 0

Latino
type: Population
allele count: 3
allele frequency: 2.591121091725686e-4
allele num: 11578
num of homozygotes: 0

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

ReadPosRankSum
type: SiteQuality
SIO_000300: 6.53e-1

MQRankSum
type: SiteQuality
SIO_000300: -3.99e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 4.3e-3

DP
type: SiteQuality
SIO_000300: 1.700175e6

MQ
type: SiteQuality
SIO_000300: 5.969e1

FS
type: SiteQuality
SIO_000300: 4.04e-1

QD
type: SiteQuality
SIO_000300: 9.56e0

BaseQRankSum
type: SiteQuality
SIO_000300: -3.525e0

VQSLOD
type: SiteQuality
SIO_000300: 6.26e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -8.3e-2

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

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

GenotypeQuality
all individuals: 20
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1511
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 7707
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 47365
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 257
bin: 8.75e1
variant carriers: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8654
num of homozygotes: 0

South Asian
type: Population
allele count: 4
allele frequency: 2.422480620155039e-4
allele num: 16512
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 908
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66718
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10406
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11578
num of homozygotes: 0

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

MQ
type: SiteQuality
SIO_000300: 5.961e1

BaseQRankSum
type: SiteQuality
SIO_000300: 1.37e0

MQRankSum
type: SiteQuality
SIO_000300: 5.82e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.7e-3

FS
type: SiteQuality
SIO_000300: 3.233e0

VQSLOD
type: SiteQuality
SIO_000300: 1.09e0

DP
type: SiteQuality
SIO_000300: 1.700336e6

QD
type: SiteQuality
SIO_000300: 1.294e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.72e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 3.02e-1

GenotypeQuality
all individuals: 257
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 7710
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 19
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1510
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 5
bin: 4.75e1
variant carriers: 0

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

GenotypeQuality
all individuals: 273
bin: 9.25e1
variant carriers: 0

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

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

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8654
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66718
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10406
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11578
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 908
num of homozygotes: 0

InbreedingCoeff
type: SiteQuality
SIO_000300: 4.4e-3

DP
type: SiteQuality
SIO_000300: 1.699979e6

BaseQRankSum
type: SiteQuality
SIO_000300: 1.88e0

MQRankSum
type: SiteQuality
SIO_000300: -5.53e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -8.090000000000001e-1

MQ
type: SiteQuality
SIO_000300: 5.968e1

FS
type: SiteQuality
SIO_000300: 0.0e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 9.49e-1

QD
type: SiteQuality
SIO_000300: 1.04e1

VQSLOD
type: SiteQuality
SIO_000300: 5.72e-1

GenotypeQuality
all individuals: 257
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1628
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 8
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 47370
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 4
bin: 4.25e1
variant carriers: 0