3-46497294-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497294
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497294
    reference: chr 3
allele count: 1
allele frequency: 8.949827268333721e-6
allele num: 111734
alternate allele: G
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.491T>C
  hgvsp: ENSP00000231751.4:p.Ile164Thr
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.491T>C
  hgvsp: ENSP00000405546.1:p.Ile164Thr
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.359T>C
  hgvsp: ENSP00000405719.2:p.Ile120Thr
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000462667
  gene symbol: LTF
  hgvsc: ENST00000462667.1:n.20T>C
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.452T>C
  hgvsp: ENSP00000397427.1:p.Ile151Thr
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.524T>C
  hgvsp: ENSP00000395234.1:p.Ile175Thr
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.359T>C
  hgvsp: ENSP00000400254.1:p.Ile120Thr
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7663T>C
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 1257
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14831
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 386
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3731
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 45
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 756
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 65
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29609
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8345
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1042
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 160
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 39
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 207
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 111
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 967
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 926
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 168
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 41
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3514
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 40833
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 282
  bin: 2.75e1
  variant carriers: 0
hgvs: p.Ile164Thr
num of homozygotes: 0
population: East Asian
population: African
population: European (Non-Finnish)
population: South Asian
population: Latino
population: European (Finnish)
population: Other
reference allele: A
site quality: FS
site quality: QD
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: VQSLOD
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: MQ
site quality: DP
site quality: InbreedingCoeff

3-46497295-T-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497295
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497295
    reference: chr 3
allele count: 3
allele frequency: 2.684371588611106e-5
allele num: 111758
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.358A>C
  hgvsp: ENSP00000400254.1:p.Ile120Leu
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.451A>C
  hgvsp: ENSP00000397427.1:p.Ile151Leu
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.490A>C
  hgvsp: ENSP00000405546.1:p.Ile164Leu
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.358A>C
  hgvsp: ENSP00000405719.2:p.Ile120Leu
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000462667
  gene symbol: LTF
  hgvsc: ENST00000462667.1:n.19A>C
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.523A>C
  hgvsp: ENSP00000395234.1:p.Ile175Leu
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7662A>C
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.490A>C
  hgvsp: ENSP00000231751.4:p.Ile164Leu
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 3750
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 111
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 772
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14806
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1006
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8351
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 387
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 207
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29607
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 183
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 9.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 65
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 38
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1256
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 289
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 293
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 969
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 86
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 926
  bin: 9.75e1
  variant carriers: 3
genotype quality: GenotypeQuality
  all individuals: 72
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 166
  bin: 1.25e1
  variant carriers: 0
hgvs: p.Ile164Leu
num of homozygotes: 0
population: Latino
population: European (Non-Finnish)
population: South Asian
population: Other
population: European (Finnish)
population: East Asian
population: African
reference allele: T
site quality: MQ
site quality: VQSLOD
site quality: BaseQRankSum
site quality: DP
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: FS
site quality: QD
site quality: ClippingRankSum
site quality: InbreedingCoeff

3-46497297-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497297
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497297
    reference: chr 3
allele count: 4
allele frequency: 3.575962380875753e-5
allele num: 111858
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000462667
  gene symbol: LTF
  hgvsc: ENST00000462667.1:n.17C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.356C>T
  hgvsp: ENSP00000405719.2:p.Pro119Leu
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.449C>T
  hgvsp: ENSP00000397427.1:p.Pro150Leu
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7660C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.521C>T
  hgvsp: ENSP00000395234.1:p.Pro174Leu
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.356C>T
  hgvsp: ENSP00000400254.1:p.Pro119Leu
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.488C>T
  hgvsp: ENSP00000405546.1:p.Pro163Leu
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.488C>T
  hgvsp: ENSP00000231751.4:p.Pro163Leu
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 931
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3778
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 111
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14820
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 206
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 185
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1252
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 64
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 797
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29620
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17
  bin: 7.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 17
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 386
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8353
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 40
  bin: 6.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 290
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 49
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 340
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 40797
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 923
  bin: 9.75e1
  variant carriers: 4
genotype quality: GenotypeQuality
  all individuals: 135
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3556
  bin: 2.25e1
  variant carriers: 0
hgvs: p.Pro163Leu
num of homozygotes: 0
population: East Asian
population: African
population: European (Finnish)
population: Latino
population: European (Non-Finnish)
population: Other
population: South Asian
reference allele: G
site quality: VQSLOD
site quality: MQRankSum
site quality: FS
site quality: QD
site quality: DP
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: MQ
site quality: ClippingRankSum
site quality: ReadPosRankSum

3-46497304-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497304
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497304
    reference: chr 3
allele count: 1
allele frequency: 8.900756564307967e-6
allele num: 112350
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.442C>T
  hgvsp: ENSP00000397427.1:p.Pro148Ser
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.514C>T
  hgvsp: ENSP00000395234.1:p.Pro172Ser
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.349C>T
  hgvsp: ENSP00000400254.1:p.Pro117Ser
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.481C>T
  hgvsp: ENSP00000231751.4:p.Pro161Ser
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.481C>T
  hgvsp: ENSP00000405546.1:p.Pro161Ser
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000462667
  gene symbol: LTF
  hgvsc: ENST00000462667.1:n.10C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7653C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.349C>T
  hgvsp: ENSP00000405719.2:p.Pro117Ser
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 238
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1250
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29667
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 659
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8343
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3819
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 915
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 64
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 111
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 37
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14858
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 385
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 339
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3692
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 327
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 649
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 356
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 75
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 290
  bin: 9.25e1
  variant carriers: 0
hgvs: p.Pro161Ser
num of homozygotes: 0
population: European (Non-Finnish)
population: African
population: Latino
population: European (Finnish)
population: East Asian
population: South Asian
population: Other
reference allele: G
site quality: FS
site quality: DP
site quality: QD
site quality: InbreedingCoeff
site quality: ClippingRankSum
site quality: BaseQRankSum
site quality: MQ
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: VQSLOD

3-46497312-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497312
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497312
    reference: chr 3
allele count: 15
allele frequency: 1.325861367935369e-4
allele num: 113134
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000462667
  gene symbol: LTF
  hgvsc: ENST00000462667.1:n.2C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.473C>T
  hgvsp: ENSP00000405546.1:p.Thr158Met
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.341C>T
  hgvsp: ENSP00000400254.1:p.Thr114Met
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7645C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.434C>T
  hgvsp: ENSP00000397427.1:p.Thr145Met
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.506C>T
  hgvsp: ENSP00000395234.1:p.Thr169Met
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.473C>T
  hgvsp: ENSP00000231751.4:p.Thr158Met
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.341C>T
  hgvsp: ENSP00000405719.2:p.Thr114Met
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 424
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 64
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29701
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 352
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25
  bin: 7.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1244
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 110
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8339
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 15008
  bin: 2.25e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 205
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 385
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1064
  bin: 1.25e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 3629
  bin: 7.5e0
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 17
  bin: 7.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 37
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17
  bin: 9.75e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 108
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 97
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7394
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3652
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1951
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 77
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 49
  bin: 2.5e0
  variant carriers: 0
hgvs: p.Thr158Met
num of homozygotes: 0
population: European (Finnish)
population: South Asian
population: Latino
population: European (Non-Finnish)
population: African
population: Other
population: East Asian
reference allele: G
site quality: VQSLOD
site quality: QD
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: MQ
site quality: DP
site quality: ReadPosRankSum
site quality: FS
site quality: MQRankSum
site quality: BaseQRankSum

3-46497318-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497318
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497318
    reference: chr 3
allele count: 1
allele frequency: 8.781481611577505e-6
allele num: 113876
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7639A>G
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.467A>G
  hgvsp: ENSP00000231751.4:p.Asn156Ser
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.467A>G
  hgvsp: ENSP00000405546.1:p.Asn156Ser
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.335A>G
  hgvsp: ENSP00000405719.2:p.Asn112Ser
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.428A>G
  hgvsp: ENSP00000397427.1:p.Asn143Ser
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.335A>G
  hgvsp: ENSP00000400254.1:p.Asn112Ser
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.500A>G
  hgvsp: ENSP00000395234.1:p.Asn167Ser
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 37
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3448
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1084
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 470
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 380
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 64
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 15244
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 292
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 109
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29684
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8322
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1234
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 7.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 300
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 41272
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 46
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 334
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 16
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 955
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 280
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 91
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 49
  bin: 5.75e1
  variant carriers: 0
hgvs: p.Asn156Ser
num of homozygotes: 0
population: African
population: Latino
population: European (Non-Finnish)
population: South Asian
population: Other
population: East Asian
population: European (Finnish)
reference allele: T
site quality: FS
site quality: MQRankSum
site quality: QD
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: DP
site quality: ClippingRankSum
site quality: VQSLOD
site quality: MQ
site quality: ReadPosRankSum

3-46497330-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497330
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497330
    reference: chr 3
allele count: 42
allele frequency: 3.64741641337386e-4
allele num: 115150
alternate allele: T
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.455G>A
  hgvsp: ENSP00000231751.4:p.Arg152His
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.455G>A
  hgvsp: ENSP00000405546.1:p.Arg152His
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.488G>A
  hgvsp: ENSP00000395234.1:p.Arg163His
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.323G>A
  hgvsp: ENSP00000405719.2:p.Arg108His
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7627G>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.323G>A
  hgvsp: ENSP00000400254.1:p.Arg108His
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.416G>A
  hgvsp: ENSP00000397427.1:p.Arg139His
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 63
  bin: 5.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 15911
  bin: 2.25e1
  variant carriers: 5
genotype depth: GenotypeDepth
  all individuals: 169
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 204
  bin: 4.75e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 1233
  bin: 3.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 108
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 39
  bin: 6.75e1
  variant carriers: 5
genotype depth: GenotypeDepth
  all individuals: 2847
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 7.25e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 379
  bin: 4.25e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 29633
  bin: 2.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 1069
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 656
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 15
  bin: 9.75e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 46
  bin: 6.25e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 8.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 7.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8259
  bin: 3.25e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 86
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1928
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 282
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 268
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 42
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 456
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7333
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 327
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 41483
  bin: 6.25e1
  variant carriers: 0
hgvs: p.Arg152His
num of homozygotes: 0
population: Latino
population: European (Finnish)
population: European (Non-Finnish)
population: East Asian
population: South Asian
population: Other
population: African
reference allele: C
site quality: DP
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: MQ
site quality: ClippingRankSum
site quality: FS
site quality: QD

3-46497331-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497331
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497331
    reference: chr 3
allele count: 2
allele frequency: 1.729116594331956e-5
allele num: 115666
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.322C>T
  hgvsp: ENSP00000400254.1:p.Arg108Cys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.454C>T
  hgvsp: ENSP00000231751.4:p.Arg152Cys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.415C>T
  hgvsp: ENSP00000397427.1:p.Arg139Cys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.487C>T
  hgvsp: ENSP00000395234.1:p.Arg163Cys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.454C>T
  hgvsp: ENSP00000405546.1:p.Arg152Cys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.322C>T
  hgvsp: ENSP00000405719.2:p.Arg108Cys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7626C>T
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 373
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29659
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 610
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16216
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 6.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1002
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1235
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 153
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 198
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8248
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 108
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 21
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2684
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 15
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 63
  bin: 5.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 190
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 14
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 282
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 71
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 144
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 429
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 317
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2903
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1932
  bin: 7.25e1
  variant carriers: 0
hgvs: p.Arg152Cys
num of homozygotes: 0
population: South Asian
population: Latino
population: Other
population: African
population: European (Finnish)
population: East Asian
population: European (Non-Finnish)
reference allele: G
site quality: DP
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: FS
site quality: ReadPosRankSum
site quality: QD
site quality: VQSLOD
site quality: MQ

3-46497334-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497334
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497334
    reference: chr 3
allele count: 3
allele frequency: 2.583578773316798e-5
allele num: 116118
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.319C>T
  hgvsp: ENSP00000405719.2:p.Leu107Phe
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.319C>T
  hgvsp: ENSP00000400254.1:p.Leu107Phe
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.451C>T
  hgvsp: ENSP00000405546.1:p.Leu151Phe
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7623C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.412C>T
  hgvsp: ENSP00000397427.1:p.Leu138Phe
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.451C>T
  hgvsp: ENSP00000231751.4:p.Leu151Phe
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.484C>T
  hgvsp: ENSP00000395234.1:p.Leu162Phe
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 62
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1225
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 15
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 199
  bin: 4.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 8235
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 373
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2490
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16538
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 21
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 133
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 609
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 935
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 108
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 43
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29642
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 23
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 199
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 197
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 876
  bin: 9.75e1
  variant carriers: 3
genotype quality: GenotypeQuality
  all individuals: 1933
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2701
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 39
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 123
  bin: 5.75e1
  variant carriers: 0
hgvs: p.Leu151Phe
num of homozygotes: 0
population: African
population: European (Non-Finnish)
population: East Asian
population: European (Finnish)
population: Latino
population: South Asian
population: Other
reference allele: G
site quality: FS
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: QD
site quality: MQ
site quality: MQRankSum
site quality: ClippingRankSum
site quality: DP
site quality: BaseQRankSum

3-46497342-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497342
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497342
    reference: chr 3
allele count: 50
allele frequency: 4.24758312520176e-4
allele num: 117714
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.311T>C
  hgvsp: ENSP00000405719.2:p.Ile104Thr
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.476T>C
  hgvsp: ENSP00000395234.1:p.Ile159Thr
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.443T>C
  hgvsp: ENSP00000405546.1:p.Ile148Thr
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7615T>C
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.404T>C
  hgvsp: ENSP00000397427.1:p.Ile135Thr
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.443T>C
  hgvsp: ENSP00000231751.4:p.Ile148Thr
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.311T>C
  hgvsp: ENSP00000400254.1:p.Ile104Thr
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 107
  bin: 5.25e1
  variant carriers: 5
genotype depth: GenotypeDepth
  all individuals: 87
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 8.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 66
  bin: 5.75e1
  variant carriers: 7
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 8.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 34
  bin: 6.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 1744
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 711
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8178
  bin: 3.25e1
  variant carriers: 5
genotype depth: GenotypeDepth
  all individuals: 196
  bin: 4.75e1
  variant carriers: 6
genotype depth: GenotypeDepth
  all individuals: 566
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1208
  bin: 3.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 17588
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 15
  bin: 9.75e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 17
  bin: 7.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 21
  bin: 7.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 29724
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 47
  bin: 6.25e1
  variant carriers: 6
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 370
  bin: 4.25e1
  variant carriers: 2
genotype quality: GenotypeQuality
  all individuals: 7400
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 277
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 320
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 926
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 19
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 169
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 108
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 314
  bin: 3.25e1
  variant carriers: 0
hgvs: p.Ile148Thr
num of homozygotes: 0
population: African
population: Latino
population: European (Non-Finnish)
population: European (Finnish)
population: Other
population: East Asian
population: South Asian
reference allele: A
site quality: MQ
site quality: FS
site quality: VQSLOD
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: DP
site quality: ClippingRankSum
site quality: MQRankSum
site quality: QD

3-46497348-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497348
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497348
    reference: chr 3
allele count: 1
allele frequency: 8.422613031466883e-6
allele num: 118728
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.398T>C
  hgvsp: ENSP00000397427.1:p.Val133Ala
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.305T>C
  hgvsp: ENSP00000405719.2:p.Val102Ala
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7609T>C
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.437T>C
  hgvsp: ENSP00000231751.4:p.Val146Ala
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.305T>C
  hgvsp: ENSP00000400254.1:p.Val102Ala
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.437T>C
  hgvsp: ENSP00000405546.1:p.Val146Ala
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.470T>C
  hgvsp: ENSP00000395234.1:p.Val157Ala
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 191
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 21
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 58
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 573
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 41
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 556
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 32
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18183
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8174
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1187
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 58
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 104
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1273
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29841
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 367
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 257
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 15
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 55
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7405
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1919
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 188
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 275
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 231
  bin: 3.75e1
  variant carriers: 0
hgvs: p.Val146Ala
num of homozygotes: 0
population: Other
population: European (Finnish)
population: African
population: South Asian
population: Latino
population: European (Non-Finnish)
population: East Asian
reference allele: A
site quality: QD
site quality: FS
site quality: DP
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: ClippingRankSum
site quality: MQRankSum
site quality: MQ
site quality: VQSLOD
site quality: BaseQRankSum

3-46497351-T-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497351
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497351
    reference: chr 3
allele count: 1
allele frequency: 8.398280032249395e-6
allele num: 119072
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.302A>T
  hgvsp: ENSP00000400254.1:p.Asn101Ile
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.434A>T
  hgvsp: ENSP00000405546.1:p.Asn145Ile
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7606A>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.395A>T
  hgvsp: ENSP00000397427.1:p.Asn132Ile
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.434A>T
  hgvsp: ENSP00000231751.4:p.Asn145Ile
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.467A>T
  hgvsp: ENSP00000395234.1:p.Asn156Ile
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.302A>T
  hgvsp: ENSP00000405719.2:p.Asn101Ile
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: VQSRTrancheSNP99.60to99.80
genotype depth: GenotypeDepth
  all individuals: 51
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 32
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 104
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 532
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 191
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1113
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 573
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29872
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 21
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8169
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 58
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 367
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1185
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18351
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 41
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 922
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 317
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 139
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 18
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 225
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 184
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 48
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 841
  bin: 9.75e1
  variant carriers: 1
hgvs: p.Asn145Ile
num of homozygotes: 0
population: Latino
population: European (Non-Finnish)
population: South Asian
population: European (Finnish)
population: African
population: Other
population: East Asian
reference allele: T
site quality: ClippingRankSum
site quality: DP
site quality: MQRankSum
site quality: FS
site quality: InbreedingCoeff
site quality: QD
site quality: VQSLOD
site quality: MQ
site quality: BaseQRankSum
site quality: ReadPosRankSum

3-46497353-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497353
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497353
    reference: chr 3
allele count: 1
allele frequency: 8.391655337931961e-6
allele num: 119166
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: stop_gained
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.465G>A
  hgvsp: ENSP00000395234.1:p.Trp155Ter
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7604G>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: stop_gained
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.432G>A
  hgvsp: ENSP00000231751.4:p.Trp144Ter
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: stop_gained
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.300G>A
  hgvsp: ENSP00000400254.1:p.Trp100Ter
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: stop_gained
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.300G>A
  hgvsp: ENSP00000405719.2:p.Trp100Ter
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: stop_gained
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.432G>A
  hgvsp: ENSP00000405546.1:p.Trp144Ter
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: stop_gained
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.393G>A
  hgvsp: ENSP00000397427.1:p.Trp131Ter
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: stop gained
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 524
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 368
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1188
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 614
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29876
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 191
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 41
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 58
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1050
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8180
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 49
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18364
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 32
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 104
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 21
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 53
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 178
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7372
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 18
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 920
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 235
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 9
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 240
  bin: 5.25e1
  variant carriers: 0
hgvs: p.Trp144Ter
num of homozygotes: 0
population: Other
population: European (Non-Finnish)
population: European (Finnish)
population: South Asian
population: African
population: Latino
population: East Asian
reference allele: C
site quality: QD
site quality: MQRankSum
site quality: DP
site quality: ClippingRankSum
site quality: MQ
site quality: ReadPosRankSum
site quality: FS
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: BaseQRankSum

http://identifiers.org/exac.variant/3-46497361-C-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497361
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497361
    reference: chr 3
allele count: 1
allele frequency: 8.371423309391063e-6
allele num: 119454
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.385G>T
  hgvsp: ENSP00000397427.1:p.Ala129Ser
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7596G>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.292G>T
  hgvsp: ENSP00000405719.2:p.Ala98Ser
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.424G>T
  hgvsp: ENSP00000405546.1:p.Ala142Ser
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.292G>T
  hgvsp: ENSP00000400254.1:p.Ala98Ser
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.424G>T
  hgvsp: ENSP00000231751.4:p.Ala142Ser
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.457G>T
  hgvsp: ENSP00000395234.1:p.Ala153Ser
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 18614
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 40
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 655
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1172
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29835
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 190
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 41
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 905
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 498
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8130
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 21
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 32
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 365
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 104
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 58
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 180
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 41
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 832
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 898
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 257
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7308
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 343
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 311
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 207
  bin: 4.25e1
  variant carriers: 0
hgvs: p.Ala142Ser
num of homozygotes: 0
population: South Asian
population: East Asian
population: European (Finnish)
population: Latino
population: European (Non-Finnish)
population: African
population: Other
reference allele: C
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: MQ
site quality: DP
site quality: FS
site quality: VQSLOD
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: ClippingRankSum
site quality: QD

3-46497361-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497361
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497361
    reference: chr 3
allele count: 5
allele frequency: 4.185711654695531e-5
allele num: 119454
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.457G>A
  hgvsp: ENSP00000395234.1:p.Ala153Thr
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.424G>A
  hgvsp: ENSP00000405546.1:p.Ala142Thr
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.385G>A
  hgvsp: ENSP00000397427.1:p.Ala129Thr
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.292G>A
  hgvsp: ENSP00000405719.2:p.Ala98Thr
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7596G>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.424G>A
  hgvsp: ENSP00000231751.4:p.Ala142Thr
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.292G>A
  hgvsp: ENSP00000400254.1:p.Ala98Thr
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 21
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 104
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 905
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18614
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 32
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 365
  bin: 4.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 655
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 58
  bin: 5.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 29835
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 40
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 41
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 498
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8130
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1172
  bin: 3.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 190
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 220
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 207
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 28
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 257
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 41
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1879
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 226
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 44177
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 310
  bin: 8.75e1
  variant carriers: 0
hgvs: p.Ala142Thr
num of homozygotes: 0
population: European (Finnish)
population: Latino
population: European (Non-Finnish)
population: South Asian
population: East Asian
population: African
population: Other
reference allele: C
site quality: VQSLOD
site quality: QD
site quality: DP
site quality: FS
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: MQ
site quality: ClippingRankSum

3-46497362-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497362
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497362
    reference: chr 3
allele count: 2
allele frequency: 1.673304106288277e-5
allele num: 119524
alternate allele: A
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.423C>T
  hgvsp: ENST00000231751.4:c.423C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.456C>T
  hgvsp: ENST00000431944.1:c.456C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.291C>T
  hgvsp: ENST00000415180.1:c.291C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7595C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.291C>T
  hgvsp: ENST00000426532.2:c.291C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.384C>T
  hgvsp: ENST00000443496.1:c.384C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.423C>T
  hgvsp: ENST00000417439.1:c.423C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 41
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 103
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1156
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 58
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29859
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 652
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 32
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 880
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 503
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18686
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 354
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 39
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 187
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8088
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 9
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 250
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 298
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2008
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 824
  bin: 9.75e1
  variant carriers: 2
genotype quality: GenotypeQuality
  all individuals: 28
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1170
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 263
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 309
  bin: 8.75e1
  variant carriers: 0
hgvs: p.Thr141Thr
num of homozygotes: 0
population: European (Finnish)
population: Other
population: East Asian
population: South Asian
population: African
population: European (Non-Finnish)
population: Latino
reference allele: G
site quality: DP
site quality: QD
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: VQSLOD
site quality: MQ
site quality: ReadPosRankSum
site quality: FS
site quality: BaseQRankSum
site quality: ClippingRankSum

3-46497362-G-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497362
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497362
    reference: chr 3
allele count: 1
allele frequency: 8.366520531441385e-6
allele num: 119524
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.291C>G
  hgvsp: ENST00000415180.1:c.291C>G(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7595C>G
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.423C>G
  hgvsp: ENST00000231751.4:c.423C>G(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.291C>G
  hgvsp: ENST00000426532.2:c.291C>G(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.384C>G
  hgvsp: ENST00000443496.1:c.384C>G(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.456C>G
  hgvsp: ENST00000431944.1:c.456C>G(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.423C>G
  hgvsp: ENST00000417439.1:c.423C>G(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 354
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 39
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 652
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29859
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8088
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18686
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 58
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 503
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 880
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 7.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 103
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 32
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 41
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 187
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1156
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 894
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 186
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1871
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2008
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 176
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 9
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 250
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 263
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 38
  bin: 7.5e0
  variant carriers: 0
hgvs: p.Thr141Thr
num of homozygotes: 0
population: African
population: South Asian
population: European (Non-Finnish)
population: Other
population: European (Finnish)
population: East Asian
population: Latino
reference allele: G
site quality: DP
site quality: MQRankSum
site quality: FS
site quality: MQ
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: ClippingRankSum
site quality: QD

3-46497366-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497366
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497366
    reference: chr 3
allele count: 1
allele frequency: 8.361903169161301e-6
allele num: 119590
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.452G>A
  hgvsp: ENSP00000395234.1:p.Arg151Lys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.287G>A
  hgvsp: ENSP00000405719.2:p.Arg96Lys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.287G>A
  hgvsp: ENSP00000400254.1:p.Arg96Lys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.380G>A
  hgvsp: ENSP00000397427.1:p.Arg127Lys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7591G>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.419G>A
  hgvsp: ENSP00000405546.1:p.Arg140Lys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.419G>A
  hgvsp: ENSP00000231751.4:p.Arg140Lys
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 103
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 350
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 517
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18783
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 671
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 865
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1136
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7988
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 57
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 32
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29877
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 21
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 36
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 184
  bin: 4.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 41
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 816
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 254
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 44104
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 210
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 36
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 187
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 180
  bin: 4.25e1
  variant carriers: 0
hgvs: p.Arg140Lys
num of homozygotes: 0
population: South Asian
population: European (Non-Finnish)
population: African
population: Latino
population: East Asian
population: European (Finnish)
population: Other
reference allele: C
site quality: ReadPosRankSum
site quality: MQ
site quality: DP
site quality: FS
site quality: BaseQRankSum
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: ClippingRankSum
site quality: QD

3-46497368-G-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497368
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497368
    reference: chr 3
allele count: 208
allele frequency: 1.738316507320987e-3
allele num: 119656
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.285C>A
  hgvsp: ENST00000426532.2:c.285C>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7589C>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.378C>A
  hgvsp: ENST00000443496.1:c.378C>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.285C>A
  hgvsp: ENST00000415180.1:c.285C>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.417C>A
  hgvsp: ENST00000417439.1:c.417C>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.450C>A
  hgvsp: ENST00000431944.1:c.450C>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.417C>A
  hgvsp: ENST00000231751.4:c.417C>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 109
  bin: 5.25e1
  variant carriers: 21
genotype depth: GenotypeDepth
  all individuals: 644
  bin: 1.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 833
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 507
  bin: 1.25e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 7963
  bin: 3.25e1
  variant carriers: 26
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 9.75e1
  variant carriers: 13
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 9.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 8.25e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 29810
  bin: 2.75e1
  variant carriers: 14
genotype depth: GenotypeDepth
  all individuals: 1129
  bin: 3.75e1
  variant carriers: 17
genotype depth: GenotypeDepth
  all individuals: 32
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18918
  bin: 2.25e1
  variant carriers: 9
genotype depth: GenotypeDepth
  all individuals: 45
  bin: 6.25e1
  variant carriers: 11
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 7.75e1
  variant carriers: 7
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 8.75e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 62
  bin: 5.75e1
  variant carriers: 21
genotype depth: GenotypeDepth
  all individuals: 351
  bin: 4.25e1
  variant carriers: 20
genotype depth: GenotypeDepth
  all individuals: 185
  bin: 4.75e1
  variant carriers: 20
genotype depth: GenotypeDepth
  all individuals: 36
  bin: 6.75e1
  variant carriers: 10
genotype depth: GenotypeDepth
  all individuals: 21
  bin: 7.25e1
  variant carriers: 3
genotype quality: GenotypeQuality
  all individuals: 1838
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 166
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 34
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 158
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 161
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1148
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 198
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 239
  bin: 3.25e1
  variant carriers: 0
hgvs: p.Arg139Arg
num of homozygotes: 1
population: European (Finnish)
population: South Asian
population: African
population: Latino
population: European (Non-Finnish)
population: East Asian
population: Other
reference allele: G
site quality: VQSLOD
site quality: MQRankSum
site quality: FS
site quality: ClippingRankSum
site quality: QD
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: MQ
site quality: DP
site quality: ReadPosRankSum

3-46497369-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497369
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497369
    reference: chr 3
allele count: 9
allele frequency: 7.520681875156681e-5
allele num: 119670
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.284G>A
  hgvsp: ENSP00000400254.1:p.Arg95His
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.416G>A
  hgvsp: ENSP00000231751.4:p.Arg139His
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7588G>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.284G>A
  hgvsp: ENSP00000405719.2:p.Arg95His
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.416G>A
  hgvsp: ENSP00000405546.1:p.Arg139His
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.449G>A
  hgvsp: ENSP00000395234.1:p.Arg150His
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.377G>A
  hgvsp: ENSP00000397427.1:p.Arg126His
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 7968
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 340
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 35
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 624
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 815
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29912
  bin: 2.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 31
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 167
  bin: 4.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 1120
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 42
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 27
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19
  bin: 7.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 90
  bin: 5.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 506
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18977
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 737
  bin: 9.75e1
  variant carriers: 9
genotype quality: GenotypeQuality
  all individuals: 235
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 12
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1835
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 166
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 18
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 135
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 245
  bin: 9.25e1
  variant carriers: 0
hgvs: p.Arg139His
num of homozygotes: 0
population: European (Finnish)
population: African
population: South Asian
population: Other
population: European (Non-Finnish)
population: East Asian
population: Latino
reference allele: C
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: FS
site quality: ReadPosRankSum
site quality: QD
site quality: DP
site quality: VQSLOD
site quality: BaseQRankSum
site quality: MQ
site quality: MQRankSum

3-46497370-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497370
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497370
    reference: chr 3
allele count: 8
allele frequency: 6.68371012749177e-5
allele num: 119694
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.283C>T
  hgvsp: ENSP00000405719.2:p.Arg95Cys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.376C>T
  hgvsp: ENSP00000397427.1:p.Arg126Cys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.448C>T
  hgvsp: ENSP00000395234.1:p.Arg150Cys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7587C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.283C>T
  hgvsp: ENSP00000400254.1:p.Arg95Cys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.415C>T
  hgvsp: ENSP00000405546.1:p.Arg139Cys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.415C>T
  hgvsp: ENSP00000231751.4:p.Arg139Cys
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 502
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19065
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7937
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 808
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 329
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29900
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 42
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 165
  bin: 4.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 608
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 88
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1118
  bin: 3.75e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 35
  bin: 6.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 27
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1122
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 286
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 154
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 193
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 254
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7249
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 136
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 15
  bin: 1.75e1
  variant carriers: 0
hgvs: p.Arg139Cys
num of homozygotes: 0
population: East Asian
population: Other
population: European (Finnish)
population: European (Non-Finnish)
population: Latino
population: South Asian
population: African
reference allele: G
site quality: MQRankSum
site quality: MQ
site quality: ClippingRankSum
site quality: FS
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: DP
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: QD

http://identifiers.org/exac.variant/3-46497385-A-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497385
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497385
    reference: chr 3
allele count: 1
allele frequency: 8.358688020328329e-6
allele num: 119636
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.268T>G
  hgvsp: ENSP00000405719.2:p.Cys90Gly
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.400T>G
  hgvsp: ENSP00000231751.4:p.Cys134Gly
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7572T>G
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.433T>G
  hgvsp: ENSP00000395234.1:p.Cys145Gly
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.361T>G
  hgvsp: ENSP00000397427.1:p.Cys121Gly
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.400T>G
  hgvsp: ENSP00000405546.1:p.Cys134Gly
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.268T>G
  hgvsp: ENSP00000400254.1:p.Cys90Gly
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 1075
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 535
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29839
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 42
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19294
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 841
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 646
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 159
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7733
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 312
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 88
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 27
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 164
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7107
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 230
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 112
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1885
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 713
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 231
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 174
  bin: 2.75e1
  variant carriers: 0
hgvs: p.Cys134Gly
num of homozygotes: 0
population: East Asian
population: South Asian
population: Latino
population: Other
population: European (Non-Finnish)
population: European (Finnish)
population: African
reference allele: A
site quality: MQ
site quality: FS
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: BaseQRankSum
site quality: VQSLOD
site quality: QD
site quality: ReadPosRankSum
site quality: DP

3-46497397-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497397
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497397
    reference: chr 3
allele count: 1
allele frequency: 8.39602364320258e-6
allele num: 119104
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.256G>A
  hgvsp: ENSP00000405719.2:p.Gly86Ser
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.388G>A
  hgvsp: ENSP00000405546.1:p.Gly130Ser
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.421G>A
  hgvsp: ENSP00000395234.1:p.Gly141Ser
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7560G>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.349G>A
  hgvsp: ENSP00000397427.1:p.Gly117Ser
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.256G>A
  hgvsp: ENSP00000400254.1:p.Gly86Ser
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.388G>A
  hgvsp: ENSP00000231751.4:p.Gly130Ser
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19030
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7618
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1100
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 306
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 932
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 582
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29649
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1047
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 157
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 43
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 87
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 42
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28
  bin: 6.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 290
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 162
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 118
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6934
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 47
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 192
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 44991
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 248
  bin: 2.75e1
  variant carriers: 0
hgvs: p.Gly130Ser
num of homozygotes: 0
population: European (Finnish)
population: Other
population: Latino
population: African
population: East Asian
population: South Asian
population: European (Non-Finnish)
reference allele: C
site quality: FS
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: ClippingRankSum
site quality: MQRankSum
site quality: MQ
site quality: VQSLOD
site quality: QD
site quality: DP

3-46497404-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497404
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497404
    reference: chr 3
allele count: 1
allele frequency: 8.43469019382918e-6
allele num: 118558
alternate allele: C
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.381A>G
  hgvsp: ENST00000231751.4:c.381A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.342A>G
  hgvsp: ENST00000443496.1:c.342A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.414A>G
  hgvsp: ENST00000431944.1:c.414A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.381A>G
  hgvsp: ENST00000417439.1:c.381A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.249A>G
  hgvsp: ENST00000426532.2:c.249A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.249A>G
  hgvsp: ENST00000415180.1:c.249A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7553A>G
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1007
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18635
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 57
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1245
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 153
  bin: 4.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 300
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29455
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1356
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 86
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7494
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 27
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 763
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 42
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1772
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 315
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 44333
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1694
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 358
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 780
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 148
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 62
  bin: 7.5e0
  variant carriers: 0
hgvs: p.Glu127Glu
num of homozygotes: 0
population: Other
population: Latino
population: South Asian
population: East Asian
population: European (Non-Finnish)
population: African
population: European (Finnish)
reference allele: T
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: FS
site quality: QD
site quality: MQRankSum
site quality: MQ
site quality: BaseQRankSum
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: DP

3-46497406-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497406
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497406
    reference: chr 3
allele count: 3
allele frequency: 2.532928064842958e-5
allele num: 118440
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.379G>A
  hgvsp: ENSP00000405546.1:p.Glu127Lys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.340G>A
  hgvsp: ENSP00000397427.1:p.Glu114Lys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.412G>A
  hgvsp: ENSP00000395234.1:p.Glu138Lys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.247G>A
  hgvsp: ENSP00000405719.2:p.Glu83Lys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7551G>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.247G>A
  hgvsp: ENSP00000400254.1:p.Glu83Lys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.379G>A
  hgvsp: ENSP00000231751.4:p.Glu127Lys
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18577
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 86
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 27
  bin: 6.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 782
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7497
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 60
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29389
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 43
  bin: 5.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1397
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 155
  bin: 4.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1298
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1012
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 297
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 197
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 67
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 373
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 212
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 44337
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 22
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1749
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1674
  bin: 7.25e1
  variant carriers: 0
hgvs: p.Glu127Lys
num of homozygotes: 0
population: European (Non-Finnish)
population: Other
population: Latino
population: East Asian
population: African
population: South Asian
population: European (Finnish)
reference allele: C
site quality: MQRankSum
site quality: ClippingRankSum
site quality: QD
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: FS
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: DP
site quality: MQ

3-46497407-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497407
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497407
    reference: chr 3
allele count: 3
allele frequency: 2.535882740782066e-5
allele num: 118302
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.246C>T
  hgvsp: ENST00000415180.1:c.246C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.378C>T
  hgvsp: ENST00000231751.4:c.378C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.378C>T
  hgvsp: ENST00000417439.1:c.378C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.411C>T
  hgvsp: ENST00000431944.1:c.411C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7550C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.339C>T
  hgvsp: ENST00000443496.1:c.339C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.246C>T
  hgvsp: ENST00000426532.2:c.246C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 996
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1365
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 36
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 65
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 153
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7482
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 86
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 288
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18475
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 25
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 821
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1462
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29360
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 40
  bin: 5.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 393
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 72
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 758
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 226
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1655
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 272
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 191
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 211
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1731
  bin: 7.75e1
  variant carriers: 0
hgvs: p.Asn126Asn
num of homozygotes: 0
population: European (Finnish)
population: East Asian
population: South Asian
population: African
population: European (Non-Finnish)
population: Latino
population: Other
reference allele: G
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: MQ
site quality: InbreedingCoeff
site quality: ClippingRankSum
site quality: VQSLOD
site quality: FS
site quality: QD
site quality: BaseQRankSum
site quality: DP

3-46497407-G-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497407
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497407
    reference: chr 3
allele count: 11
allele frequency: 9.29823671620091e-5
allele num: 118302
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.339C>G
  hgvsp: ENSP00000397427.1:p.Asn113Lys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.246C>G
  hgvsp: ENSP00000405719.2:p.Asn82Lys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.378C>G
  hgvsp: ENSP00000231751.4:p.Asn126Lys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.411C>G
  hgvsp: ENSP00000395234.1:p.Asn137Lys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.246C>G
  hgvsp: ENSP00000400254.1:p.Asn82Lys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.378C>G
  hgvsp: ENSP00000405546.1:p.Asn126Lys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7550C>G
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 36
  bin: 6.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 821
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 65
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 86
  bin: 5.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 7482
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 288
  bin: 4.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 18475
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1462
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1365
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 40
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 153
  bin: 4.75e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29360
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 996
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 72
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1655
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 22
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 272
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 264
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6734
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 11
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 250
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2417
  bin: 2.25e1
  variant carriers: 0
hgvs: p.Asn126Lys
num of homozygotes: 0
population: South Asian
population: European (Finnish)
population: European (Non-Finnish)
population: African
population: Other
population: Latino
population: East Asian
reference allele: G
site quality: VQSLOD
site quality: ClippingRankSum
site quality: MQ
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: QD
site quality: FS
site quality: InbreedingCoeff
site quality: DP
site quality: BaseQRankSum

http://identifiers.org/exac.variant/3-46497417-A-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497417
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497417
    reference: chr 3
allele count: 1
allele frequency: 8.560178051703475e-6
allele num: 116820
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.329T>G
  hgvsp: ENSP00000397427.1:p.Phe110Cys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.236T>G
  hgvsp: ENSP00000400254.1:p.Phe79Cys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.368T>G
  hgvsp: ENSP00000405546.1:p.Phe123Cys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7540T>G
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.368T>G
  hgvsp: ENSP00000231751.4:p.Phe123Cys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.236T>G
  hgvsp: ENSP00000405719.2:p.Phe79Cys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.401T>G
  hgvsp: ENSP00000395234.1:p.Phe134Cys
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 1191
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 100
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 143
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28669
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2162
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 38
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17717
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 270
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2166
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7120
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 931
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 84
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 24
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 232
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 725
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6493
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 46
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 232
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 42549
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 407
  bin: 3.75e1
  variant carriers: 0
hgvs: p.Phe123Cys
num of homozygotes: 0
population: European (Finnish)
population: South Asian
population: African
population: Other
population: European (Non-Finnish)
population: Latino
population: East Asian
reference allele: A
site quality: ClippingRankSum
site quality: MQ
site quality: FS
site quality: DP
site quality: VQSLOD
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: QD
site quality: MQRankSum
site quality: ReadPosRankSum

3-46497419-G-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497419
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497419
    reference: chr 3
allele count: 1
allele frequency: 8.578536501672815e-6
allele num: 116570
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.366C>A
  hgvsp: ENSP00000405546.1:p.Ser122Arg
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.366C>A
  hgvsp: ENSP00000231751.4:p.Ser122Arg
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.234C>A
  hgvsp: ENSP00000400254.1:p.Ser78Arg
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.234C>A
  hgvsp: ENSP00000405719.2:p.Ser78Arg
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.399C>A
  hgvsp: ENSP00000395234.1:p.Ser133Arg
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.327C>A
  hgvsp: ENSP00000397427.1:p.Ser109Arg
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7538C>A
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 104
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 144
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28510
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17619
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2274
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 84
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1235
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7096
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2290
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 269
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 38
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 928
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6455
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 717
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 42196
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 251
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 228
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1648
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 38
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3824
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7
  bin: 2.5e0
  variant carriers: 0
hgvs: p.Ser122Arg
num of homozygotes: 0
population: East Asian
population: Other
population: African
population: European (Finnish)
population: South Asian
population: Latino
population: European (Non-Finnish)
reference allele: G
site quality: ReadPosRankSum
site quality: MQ
site quality: DP
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: QD
site quality: MQRankSum
site quality: VQSLOD
site quality: FS
site quality: BaseQRankSum

3-46497424-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497424
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497424
    reference: chr 3
allele count: 1
allele frequency: 8.655910255522471e-6
allele num: 115528
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.361G>A
  hgvsp: ENSP00000405546.1:p.Gly121Ser
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.229G>A
  hgvsp: ENSP00000405719.2:p.Gly77Ser
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.394G>A
  hgvsp: ENSP00000395234.1:p.Gly132Ser
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7533G>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.322G>A
  hgvsp: ENSP00000397427.1:p.Gly108Ser
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.361G>A
  hgvsp: ENSP00000231751.4:p.Gly121Ser
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.229G>A
  hgvsp: ENSP00000400254.1:p.Gly77Ser
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 6953
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 132
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2753
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 38
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 84
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17086
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2727
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1220
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28278
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 273
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 144
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 901
  bin: 3.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 163
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 28
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1472
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 439
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 259
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 593
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 658
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6329
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 657
  bin: 9.75e1
  variant carriers: 1
hgvs: p.Gly121Ser
num of homozygotes: 0
population: African
population: South Asian
population: Latino
population: European (Non-Finnish)
population: Other
population: European (Finnish)
population: East Asian
reference allele: C
site quality: MQRankSum
site quality: FS
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: MQ
site quality: InbreedingCoeff
site quality: DP
site quality: ClippingRankSum
site quality: QD
site quality: BaseQRankSum

3-46497425-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497425
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497425
    reference: chr 3
allele count: 3
allele frequency: 2.597987425740859e-5
allele num: 115474
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.393C>T
  hgvsp: ENST00000431944.1:c.393C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7532C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.228C>T
  hgvsp: ENST00000426532.2:c.228C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.228C>T
  hgvsp: ENST00000415180.1:c.228C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.321C>T
  hgvsp: ENST00000443496.1:c.321C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.360C>T
  hgvsp: ENST00000231751.4:c.360C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.360C>T
  hgvsp: ENST00000417439.1:c.360C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 17188
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 900
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28285
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1176
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2753
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 265
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 133
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 141
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6872
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 38
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2754
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 83
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 8.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6289
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 654
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 166
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 442
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 73
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 41810
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 306
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 244
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4593
  bin: 2.25e1
  variant carriers: 0
hgvs: p.Gly120Gly
num of homozygotes: 0
population: European (Finnish)
population: Latino
population: South Asian
population: East Asian
population: Other
population: African
population: European (Non-Finnish)
reference allele: G
site quality: MQ
site quality: ClippingRankSum
site quality: QD
site quality: FS
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: VQSLOD
site quality: DP

3-46497428-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497428
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497428
    reference: chr 3
allele count: 1
allele frequency: 8.697164724299877e-6
allele num: 114980
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.390G>A
  hgvsp: ENST00000431944.1:c.390G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.225G>A
  hgvsp: ENST00000415180.1:c.225G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.357G>A
  hgvsp: ENST00000417439.1:c.357G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.318G>A
  hgvsp: ENST00000443496.1:c.318G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7529G>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.357G>A
  hgvsp: ENST00000231751.4:c.357G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.225G>A
  hgvsp: ENST00000426532.2:c.225G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 875
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17130
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28110
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2948
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 38
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 83
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 163
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 143
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1114
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2963
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 260
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6761
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 267
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 209
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 237
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6186
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 54
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 388
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1425
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 205
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 413
  bin: 3.75e1
  variant carriers: 0
hgvs: p.Lys119Lys
num of homozygotes: 0
population: European (Non-Finnish)
population: Other
population: South Asian
population: East Asian
population: Latino
population: European (Finnish)
population: African
reference allele: C
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: FS
site quality: DP
site quality: ReadPosRankSum
site quality: MQ
site quality: QD

3-46497432-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497432
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497432
    reference: chr 3
allele count: 9
allele frequency: 7.878565050685435e-5
allele num: 114234
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.221A>G
  hgvsp: ENSP00000400254.1:p.Lys74Arg
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.221A>G
  hgvsp: ENSP00000405719.2:p.Lys74Arg
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.386A>G
  hgvsp: ENSP00000395234.1:p.Lys129Arg
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.314A>G
  hgvsp: ENSP00000397427.1:p.Lys105Arg
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.353A>G
  hgvsp: ENSP00000231751.4:p.Lys118Arg
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.353A>G
  hgvsp: ENSP00000405546.1:p.Lys118Arg
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7525A>G
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 6635
  bin: 3.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1073
  bin: 1.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 3374
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19
  bin: 7.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3352
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 27858
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 38
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 847
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16746
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 144
  bin: 4.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 183
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 82
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 255
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1467
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 183
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 19
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 200
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 194
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 203
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 80
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6117
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5618
  bin: 2.25e1
  variant carriers: 0
hgvs: p.Lys118Arg
num of homozygotes: 0
population: South Asian
population: European (Finnish)
population: East Asian
population: Latino
population: African
population: European (Non-Finnish)
population: Other
reference allele: T
site quality: VQSLOD
site quality: ClippingRankSum
site quality: BaseQRankSum
site quality: QD
site quality: MQ
site quality: MQRankSum
site quality: DP
site quality: FS
site quality: ReadPosRankSum
site quality: InbreedingCoeff

3-46497445-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497445
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497445
    reference: chr 3
allele count: 4
allele frequency: 3.643518181155724e-5
allele num: 109784
alternate allele: T
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.340G>A
  hgvsp: ENSP00000231751.4:p.Val114Met
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.301G>A
  hgvsp: ENSP00000397427.1:p.Val101Met
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.208G>A
  hgvsp: ENSP00000400254.1:p.Val70Met
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.208G>A
  hgvsp: ENSP00000405719.2:p.Val70Met
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7512G>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.340G>A
  hgvsp: ENSP00000405546.1:p.Val114Met
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.373G>A
  hgvsp: ENSP00000395234.1:p.Val125Met
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 5502
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 370
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25458
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5859
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 38
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 777
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 34
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5290
  bin: 7.5e0
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 15556
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 139
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1269
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 238
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8791
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 179
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 555
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 293
  bin: 4.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 64
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 161
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5292
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 97
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 427
  bin: 7.5e0
  variant carriers: 1
hgvs: p.Val114Met
num of homozygotes: 0
population: European (Finnish)
population: Other
population: South Asian
population: Latino
population: African
population: East Asian
population: European (Non-Finnish)
reference allele: C
site quality: MQRankSum
site quality: DP
site quality: VQSLOD
site quality: QD
site quality: MQ
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: FS
site quality: InbreedingCoeff
site quality: ReadPosRankSum

3-46497446-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497446
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497446
    reference: chr 3
allele count: 2
allele frequency: 1.82822041025266e-5
allele num: 109396
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.300C>T
  hgvsp: ENST00000443496.1:c.300C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.339C>T
  hgvsp: ENST00000417439.1:c.339C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.207C>T
  hgvsp: ENST00000415180.1:c.207C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.372C>T
  hgvsp: ENST00000431944.1:c.372C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7511C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.339C>T
  hgvsp: ENST00000231751.4:c.339C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.207C>T
  hgvsp: ENST00000426532.2:c.207C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 25212
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5685
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1285
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5718
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 5458
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 138
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 762
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 381
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 38
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 15584
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 235
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 299
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 616
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 37580
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 377
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1112
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5212
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1110
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1127
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 168
  bin: 1.75e1
  variant carriers: 0
hgvs: p.Ala113Ala
num of homozygotes: 0
population: Latino
population: European (Finnish)
population: East Asian
population: South Asian
population: European (Non-Finnish)
population: African
population: Other
reference allele: G
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: MQRankSum
site quality: ClippingRankSum
site quality: BaseQRankSum
site quality: FS
site quality: QD
site quality: DP
site quality: MQ

3-46497450-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497450
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497450
    reference: chr 3
allele count: 1
allele frequency: 9.321749505947275e-6
allele num: 107276
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.335A>G
  hgvsp: ENSP00000405546.1:p.Tyr112Cys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.203A>G
  hgvsp: ENSP00000400254.1:p.Tyr68Cys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.368A>G
  hgvsp: ENSP00000395234.1:p.Tyr123Cys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.296A>G
  hgvsp: ENSP00000397427.1:p.Tyr99Cys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.203A>G
  hgvsp: ENSP00000405719.2:p.Tyr68Cys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.335A>G
  hgvsp: ENSP00000231751.4:p.Tyr112Cys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7507A>G
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1504
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7015
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14875
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 137
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 38
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 230
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 511
  bin: 2.5e0
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 6464
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 701
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23805
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5215
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 40
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 548
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 35548
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 10810
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1047
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 109
  bin: 1.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 182
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 304
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4812
  bin: 6.75e1
  variant carriers: 0
hgvs: p.Tyr112Cys
num of homozygotes: 0
population: South Asian
population: European (Finnish)
population: European (Non-Finnish)
population: African
population: East Asian
population: Latino
population: Other
reference allele: T
site quality: InbreedingCoeff
site quality: QD
site quality: ReadPosRankSum
site quality: MQ
site quality: ClippingRankSum
site quality: FS
site quality: BaseQRankSum
site quality: MQRankSum
site quality: DP
site quality: VQSLOD

3-46497455-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497455
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497455
    reference: chr 3
allele count: 2
allele frequency: 1.923039941539586e-5
allele num: 104002
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.198C>T
  hgvsp: ENST00000426532.2:c.198C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.330C>T
  hgvsp: ENST00000231751.4:c.330C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.291C>T
  hgvsp: ENST00000443496.1:c.291C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7502C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.198C>T
  hgvsp: ENST00000415180.1:c.198C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.363C>T
  hgvsp: ENST00000431944.1:c.363C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.330C>T
  hgvsp: ENST00000417439.1:c.330C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 710
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 35
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20969
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7843
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4650
  bin: 3.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 2171
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9542
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 38
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 135
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 660
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13537
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 80
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 229
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1938
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 13582
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 164
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 934
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 925
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 429
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 338
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 968
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 973
  bin: 7.75e1
  variant carriers: 0
hgvs: p.His110His
num of homozygotes: 0
population: Other
population: European (Non-Finnish)
population: European (Finnish)
population: Latino
population: East Asian
population: South Asian
population: African
reference allele: G
site quality: BaseQRankSum
site quality: FS
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: ClippingRankSum
site quality: QD
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: MQ
site quality: DP

3-46497463-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497463
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497463
    reference: chr 3
allele count: 3
allele frequency: 2.99186213499282e-5
allele num: 100272
alternate allele: A
annotation: Annotation
  canonical: true
  consequence: stop_gained
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.322C>T
  hgvsp: ENSP00000231751.4:p.Arg108Ter
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: stop_gained
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.322C>T
  hgvsp: ENSP00000405546.1:p.Arg108Ter
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: stop_gained
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.283C>T
  hgvsp: ENSP00000397427.1:p.Arg95Ter
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: stop_gained
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.190C>T
  hgvsp: ENSP00000405719.2:p.Arg64Ter
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: stop_gained
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.190C>T
  hgvsp: ENSP00000400254.1:p.Arg64Ter
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: stop_gained
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.355C>T
  hgvsp: ENSP00000395234.1:p.Arg119Ter
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7494C>T
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: stop gained
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 963
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17415
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 133
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 219
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2711
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9346
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 38
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3412
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13485
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 12194
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 81
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 562
  bin: 3.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 974
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 376
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 446
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 608
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 790
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 103
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 844
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2515
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2533
  bin: 2.75e1
  variant carriers: 0
hgvs: p.Arg108Ter
num of homozygotes: 0
population: South Asian
population: East Asian
population: African
population: Latino
population: European (Finnish)
population: Other
population: European (Non-Finnish)
reference allele: G
site quality: DP
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: FS
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: MQ
site quality: ClippingRankSum
site quality: QD
site quality: VQSLOD

http://identifiers.org/exac.variant/3-46497475-A-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497475
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497475
    reference: chr 3
allele count: 1
allele frequency: 1.072777205629935e-5
allele num: 93216
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.278-7T>G
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.317-7T>G
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.185-7T>G
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.350-7T>G
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.185-7T>G
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.317-7T>G
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7482T>G
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: splice region
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9754
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2121
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10765
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19288
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11906
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3895
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1851
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 481
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 39
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 130
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 80
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 216
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 616
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 4036
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2255
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1881
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 522
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 23044
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 133
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 299
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 379
  bin: 1.25e1
  variant carriers: 0
hgvs: c.317-7T>G
num of homozygotes: 0
population: African
population: South Asian
population: European (Non-Finnish)
population: Other
population: Latino
population: East Asian
population: European (Finnish)
reference allele: A
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: MQ
site quality: FS
site quality: MQRankSum
site quality: VQSLOD
site quality: ClippingRankSum
site quality: DP
site quality: ReadPosRankSum
site quality: QD

3-46497475-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497475
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497475
    reference: chr 3
allele count: 3
allele frequency: 3.218331616889804e-5
allele num: 93216
alternate allele: G
annotation: Annotation
  canonical: true
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.317-7T>C
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.350-7T>C
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.185-7T>C
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.185-7T>C
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.278-7T>C
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.317-7T>C
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7482T>C
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: splice region
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 9754
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 216
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3895
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 481
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1851
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10765
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 19288
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 80
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2121
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 39
  bin: 5.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 130
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11906
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 596
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2255
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4036
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 144
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1881
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 592
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1958
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 512
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 16742
  bin: 6.25e1
  variant carriers: 0
hgvs: c.317-7T>C
num of homozygotes: 0
population: European (Finnish)
population: South Asian
population: East Asian
population: Latino
population: African
population: Other
population: European (Non-Finnish)
reference allele: A
site quality: MQRankSum
site quality: MQ
site quality: VQSLOD
site quality: QD
site quality: FS
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: ClippingRankSum
site quality: DP

3-46497479-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497479
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497479
    reference: chr 3
allele count: 1
allele frequency: 1.088020890001088e-5
allele num: 91910
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.185-11C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.185-11C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.278-11C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.317-11C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7478C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.350-11C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.317-11C>T
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 129
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 37
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9517
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1903
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 34
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2000
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9860
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 216
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20105
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3872
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12340
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 80
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 466
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 140
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 464
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 606
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1894
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 611
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 23974
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 543
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 16511
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 465
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 452
  bin: 1.25e1
  variant carriers: 0
num of homozygotes: 0
population: South Asian
population: Other
population: European (Non-Finnish)
population: East Asian
population: European (Finnish)
population: Latino
population: African
reference allele: G
site quality: QD
site quality: DP
site quality: ReadPosRankSum
site quality: MQ
site quality: ClippingRankSum
site quality: FS
site quality: BaseQRankSum
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: VQSLOD

http://identifiers.org/exac.variant/3-46497480-C-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497480
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497480
    reference: chr 3
allele count: 1
allele frequency: 1.09632293288311e-5
allele num: 91214
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.278-12G>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.185-12G>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.317-12G>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.350-12G>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.185-12G>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7477G>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.317-12G>T
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9235
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 80
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 458
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12517
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1825
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 38
  bin: 5.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9361
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2103
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3954
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 216
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 129
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20608
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 24323
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 691
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 277
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4275
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 507
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1976
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 646
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 506
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 482
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2262
  bin: 7.5e0
  variant carriers: 0
num of homozygotes: 0
population: African
population: European (Finnish)
population: South Asian
population: Other
population: Latino
population: European (Non-Finnish)
population: East Asian
reference allele: C
site quality: DP
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: FS
site quality: QD
site quality: ClippingRankSum
site quality: MQ
site quality: VQSLOD

3-46497491-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497491
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497491
    reference: chr 3
allele count: 2310
allele frequency: 2.663991143094381e-2
allele num: 86712
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7466C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.317-23C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.278-23C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.350-23C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.317-23C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.185-23C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.185-23C>T
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 13531
  bin: 7.5e0
  variant carriers: 216
genotype depth: GenotypeDepth
  all individuals: 57
  bin: 6.25e1
  variant carriers: 26
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 225
  bin: 4.25e1
  variant carriers: 50
genotype depth: GenotypeDepth
  all individuals: 106
  bin: 5.25e1
  variant carriers: 35
genotype depth: GenotypeDepth
  all individuals: 1337
  bin: 3.25e1
  variant carriers: 103
genotype depth: GenotypeDepth
  all individuals: 24745
  bin: 1.25e1
  variant carriers: 557
genotype depth: GenotypeDepth
  all individuals: 5188
  bin: 1.75e1
  variant carriers: 628
genotype depth: GenotypeDepth
  all individuals: 3229
  bin: 2.5e0
  variant carriers: 9
genotype depth: GenotypeDepth
  all individuals: 57
  bin: 5.75e1
  variant carriers: 26
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 7.25e1
  variant carriers: 12
genotype depth: GenotypeDepth
  all individuals: 427
  bin: 3.75e1
  variant carriers: 57
genotype depth: GenotypeDepth
  all individuals: 5660
  bin: 2.75e1
  variant carriers: 192
genotype depth: GenotypeDepth
  all individuals: 5738
  bin: 2.25e1
  variant carriers: 398
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 7.75e1
  variant carriers: 13
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 8.75e1
  variant carriers: 5
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 9.75e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 150
  bin: 4.75e1
  variant carriers: 40
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 8.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 41
  bin: 6.75e1
  variant carriers: 18
genotype quality: GenotypeQuality
  all individuals: 854
  bin: 1.25e1
  variant carriers: 7
genotype quality: GenotypeQuality
  all individuals: 2338
  bin: 3.75e1
  variant carriers: 21
genotype quality: GenotypeQuality
  all individuals: 237
  bin: 5.75e1
  variant carriers: 20
genotype quality: GenotypeQuality
  all individuals: 3460
  bin: 7.5e0
  variant carriers: 6
genotype quality: GenotypeQuality
  all individuals: 388
  bin: 7.75e1
  variant carriers: 23
genotype quality: GenotypeQuality
  all individuals: 314
  bin: 5.25e1
  variant carriers: 31
genotype quality: GenotypeQuality
  all individuals: 776
  bin: 1.75e1
  variant carriers: 10
genotype quality: GenotypeQuality
  all individuals: 353
  bin: 4.75e1
  variant carriers: 29
genotype quality: GenotypeQuality
  all individuals: 302
  bin: 2.5e0
  variant carriers: 2
genotype quality: GenotypeQuality
  all individuals: 166
  bin: 8.75e1
  variant carriers: 44
num of homozygotes: 155
population: Other
population: Latino
population: African
population: South Asian
population: East Asian
population: European (Finnish)
population: European (Non-Finnish)
reference allele: G
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: FS
site quality: QD
site quality: InbreedingCoeff
site quality: DP
site quality: MQ

3-46497500-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497500
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497500
    reference: chr 3
allele count: 2
allele frequency: 2.462205150933176e-5
allele num: 81228
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.317-32A>G
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.317-32A>G
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.278-32A>G
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.185-32A>G
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.185-32A>G
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7457A>G
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.350-32A>G
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 3334
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 37
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2974
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 205
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4647
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 43
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25828
  bin: 1.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 28
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6842
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1021
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 86
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 136
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 404
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14867
  bin: 7.5e0
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1529
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1761
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3383
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 129
  bin: 5.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 25458
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 294
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 613
  bin: 9.75e1
  variant carriers: 2
genotype quality: GenotypeQuality
  all individuals: 1102
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 199
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4971
  bin: 6.25e1
  variant carriers: 0
num of homozygotes: 0
population: European (Non-Finnish)
population: African
population: Latino
population: East Asian
population: European (Finnish)
population: South Asian
population: Other
reference allele: T
site quality: DP
site quality: BaseQRankSum
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: MQ
site quality: QD
site quality: MQRankSum
site quality: FS
site quality: ClippingRankSum

3-46497502-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497502
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497502
    reference: chr 3
allele count: 1
allele frequency: 1.266560275603516e-5
allele num: 78954
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.350-34C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.317-34C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7455C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.317-34C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.185-34C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.185-34C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.278-34C>T
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 4968
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 37
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2656
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 7486
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 937
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 86
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 15489
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 397
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 136
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25159
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2799
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 207
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 43
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5696
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 243
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2008
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2176
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 132
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3623
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7257
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 24293
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 398
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 165
  bin: 5.75e1
  variant carriers: 0
num of homozygotes: 0
population: European (Finnish)
population: Other
population: South Asian
population: European (Non-Finnish)
population: Latino
population: African
population: East Asian
reference allele: G
site quality: ClippingRankSum
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: DP
site quality: FS
site quality: BaseQRankSum
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: QD
site quality: MQ

3-46497502-G-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497502
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497502
    reference: chr 3
allele count: 2
allele frequency: 2.533120551207032e-5
allele num: 78954
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.278-34C>G
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7455C>G
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.185-34C>G
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.185-34C>G
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.350-34C>G
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.317-34C>G
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.317-34C>G
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7486
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2656
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 15489
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2799
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25159
  bin: 1.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 136
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 37
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4968
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 397
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 937
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 43
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 28
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 207
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 86
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 4040
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 345
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3623
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6245
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 971
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 937
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 243
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 398
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 24293
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2008
  bin: 1.75e1
  variant carriers: 0
num of homozygotes: 0
population: South Asian
population: East Asian
population: Latino
population: African
population: European (Finnish)
population: European (Non-Finnish)
population: Other
reference allele: G
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: BaseQRankSum
site quality: VQSLOD
site quality: ClippingRankSum
site quality: MQ
site quality: FS
site quality: DP
site quality: QD
site quality: ReadPosRankSum

3-46497730-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497730
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497730
    reference: chr 3
allele count: 1
allele frequency: 8.385603595746822e-6
allele num: 119252
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7227C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.316+50C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.184+50C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.277+50C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.316+50C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.184+50C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.349+50C>T
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 20866
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 50
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 861
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8644
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7060
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 611
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1103
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 389
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 109
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14274
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3555
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2554
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 184
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 70
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1961
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1317
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1026
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 207
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 949
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 72
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8320
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 800
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3318
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 51
  bin: 2.5e0
  variant carriers: 0
num of homozygotes: 0
population: East Asian
population: Latino
population: African
population: South Asian
population: European (Finnish)
population: European (Non-Finnish)
population: Other
reference allele: G
site quality: VQSLOD
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: FS
site quality: MQ
site quality: ReadPosRankSum
site quality: ClippingRankSum
site quality: QD
site quality: DP

3-46497732-G-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497732
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497732
    reference: chr 3
allele count: 2
allele frequency: 1.677599020282172e-5
allele num: 119218
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.184+48C>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.277+48C>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.349+48C>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7225C>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.184+48C>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.316+48C>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.316+48C>A
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 8561
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 50
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3544
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2544
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 109
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 611
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 70
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 389
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 867
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6862
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20890
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
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  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 184
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1100
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1635
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2763
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 76
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  variant carriers: 0
genotype quality: GenotypeQuality
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genotype quality: GenotypeQuality
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  variant carriers: 0
genotype quality: GenotypeQuality
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  variant carriers: 0
genotype quality: GenotypeQuality
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  variant carriers: 0
genotype quality: GenotypeQuality
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  bin: 2.5e0
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genotype quality: GenotypeQuality
  all individuals: 80
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3224
  bin: 7.75e1
  variant carriers: 0
num of homozygotes: 0
population: African
population: European (Finnish)
population: East Asian
population: South Asian
population: European (Non-Finnish)
population: Other
population: Latino
reference allele: G
site quality: MQRankSum
site quality: ClippingRankSum
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: MQ
site quality: QD
site quality: FS
site quality: BaseQRankSum
site quality: DP

3-46497749-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497749
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497749
    reference: chr 3
allele count: 2
allele frequency: 1.671625823275718e-5
allele num: 119644
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.184+31G>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.316+31G>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.277+31G>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.349+31G>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7208G>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.184+31G>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.316+31G>A
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 22868
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 21
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19125
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8807
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 752
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 610
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2537
  bin: 3.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 25
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  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2133
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  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 184
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 109
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
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  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1101
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1626
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 70
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 388
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 376
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 39
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 938
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 38
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 57
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1045
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 38
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 725
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 709
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2565
  bin: 7.25e1
  variant carriers: 0
num of homozygotes: 0
population: European (Non-Finnish)
population: European (Finnish)
population: Latino
population: East Asian
population: African
population: Other
population: South Asian
reference allele: C
site quality: VQSLOD
site quality: BaseQRankSum
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: MQ
site quality: FS
site quality: QD
site quality: ClippingRankSum
site quality: DP

3-46497750-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497750
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497750
    reference: chr 3
allele count: 3
allele frequency: 2.504884524823406e-5
allele num: 119766
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.277+30C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.316+30C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.316+30C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.184+30C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7207C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.349+30C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.184+30C>T
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1404
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 387
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23039
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 722
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 71
  bin: 7.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 19390
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8843
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1926
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1104
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2525
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 183
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 109
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 610
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 35547
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 891
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2578
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 413
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2754
  bin: 9.75e1
  variant carriers: 3
genotype quality: GenotypeQuality
  all individuals: 37
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 50
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 670
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 834
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 439
  bin: 4.75e1
  variant carriers: 0
num of homozygotes: 0
population: Latino
population: European (Finnish)
population: East Asian
population: South Asian
population: Other
population: European (Non-Finnish)
population: African
reference allele: G
site quality: QD
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: VQSLOD
site quality: BaseQRankSum
site quality: DP
site quality: MQRankSum
site quality: MQ
site quality: FS

3-46497759-G-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497759
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497759
    reference: chr 3
allele count: 4
allele frequency: 3.325905477766322e-5
allele num: 120268
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.349+21C>G
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.316+21C>G
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.184+21C>G
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.316+21C>G
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.277+21C>G
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7198C>G
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.184+21C>G
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 710
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8874
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 23734
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 183
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 613
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2526
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 526
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20293
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1190
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 70
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 109
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 389
  bin: 5.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 1101
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2924
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8668
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 793
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 20
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2758
  bin: 9.75e1
  variant carriers: 4
genotype quality: GenotypeQuality
  all individuals: 22
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1712
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 216
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 198
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 439
  bin: 3.75e1
  variant carriers: 0
num of homozygotes: 0
population: European (Finnish)
population: East Asian
population: European (Non-Finnish)
population: Other
population: African
population: Latino
population: South Asian
reference allele: G
site quality: QD
site quality: ClippingRankSum
site quality: FS
site quality: DP
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: MQ
site quality: MQRankSum
site quality: VQSLOD

3-46497759-G-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497759
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497759
    reference: chr 3
allele count: 2
allele frequency: 1.662952738883161e-5
allele num: 120268
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.184+21C>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.277+21C>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.184+21C>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7198C>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.316+21C>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.316+21C>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.349+21C>A
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 70
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8874
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2526
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 710
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1101
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 613
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20293
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1190
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23734
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 389
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 526
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 109
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 183
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 10
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 430
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 439
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 216
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8668
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 20
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2758
  bin: 9.75e1
  variant carriers: 2
genotype quality: GenotypeQuality
  all individuals: 10
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 22
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 198
  bin: 5.25e1
  variant carriers: 0
num of homozygotes: 0
population: African
population: South Asian
population: East Asian
population: Other
population: European (Finnish)
population: Latino
population: European (Non-Finnish)
reference allele: G
site quality: MQ
site quality: VQSLOD
site quality: QD
site quality: DP
site quality: ReadPosRankSum
site quality: FS
site quality: MQRankSum
site quality: ClippingRankSum
site quality: BaseQRankSum
site quality: InbreedingCoeff

3-46497760-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497760
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497760
    reference: chr 3
allele count: 1
allele frequency: 8.31282835672009e-6
allele num: 120296
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.184+20C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7197C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.349+20C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.316+20C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.277+20C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.184+20C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.316+20C>T
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 110
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 183
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 509
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1142
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 388
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 660
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20347
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23788
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1096
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 612
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 70
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8888
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2526
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 170
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 159
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 414
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2592
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 711
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8674
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 37607
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 13
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 418
  bin: 2.75e1
  variant carriers: 0
num of homozygotes: 0
population: African
population: European (Finnish)
population: East Asian
population: South Asian
population: European (Non-Finnish)
population: Other
population: Latino
reference allele: G
site quality: VQSLOD
site quality: FS
site quality: BaseQRankSum
site quality: DP
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: ClippingRankSum
site quality: ReadPosRankSum
site quality: QD
site quality: MQ

3-46497765-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497765
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497765
    reference: chr 3
allele count: 1
allele frequency: 8.299030673217368e-6
allele num: 120496
alternate allele: T
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.316+15G>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.349+15G>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.184+15G>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.277+15G>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7192G>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.316+15G>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.184+15G>A
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20507
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 498
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2530
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 387
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 70
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 429
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 611
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 281
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 184
  bin: 6.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 877
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24121
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1096
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 109
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8902
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 144
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 378
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 131
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 12
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8728
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 661
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 15
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 890
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 303
  bin: 3.75e1
  variant carriers: 0
num of homozygotes: 0
population: Latino
population: South Asian
population: European (Finnish)
population: African
population: European (Non-Finnish)
population: Other
population: East Asian
reference allele: C
site quality: InbreedingCoeff
site quality: FS
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: VQSLOD
site quality: MQ
site quality: MQRankSum
site quality: QD
site quality: ClippingRankSum
site quality: DP

3-46497774-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497774
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497774
    reference: chr 3
allele count: 1
allele frequency: 8.276638360563474e-6
allele num: 120822
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.184+6T>C
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.316+6T>C
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.277+6T>C
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7183T>C
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.316+6T>C
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.349+6T>C
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.184+6T>C
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: splice region
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 282
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 109
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8947
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 282
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20759
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24540
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 540
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2521
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 70
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1097
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 609
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 183
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 387
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 8.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 8
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 74
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 64
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 886
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 108
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 193
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1710
  bin: 8.25e1
  variant carriers: 0
hgvs: c.316+6T>C
num of homozygotes: 0
population: East Asian
population: South Asian
population: African
population: European (Finnish)
population: European (Non-Finnish)
population: Other
population: Latino
reference allele: A
site quality: MQRankSum
site quality: VQSLOD
site quality: FS
site quality: DP
site quality: ClippingRankSum
site quality: QD
site quality: BaseQRankSum
site quality: MQ
site quality: InbreedingCoeff
site quality: ReadPosRankSum

3-46497780-G-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497780
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497780
    reference: chr 3
allele count: 1
allele frequency: 8.26801600687899e-6
allele num: 120948
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.184C>G
  hgvsp: ENSP00000405719.2:p.Gln62Glu
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.184C>G
  hgvsp: ENSP00000400254.1:p.Gln62Glu
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7177C>G
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.277C>G
  hgvsp: ENSP00000397427.1:p.Gln93Glu
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.316C>G
  hgvsp: ENSP00000231751.4:p.Gln106Glu
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.316C>G
  hgvsp: ENSP00000405546.1:p.Gln106Glu
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.349C>G
  hgvsp: ENSP00000395234.1:p.Gln117Glu
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 2520
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 233
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8986
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 109
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 413
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20774
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1095
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 221
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 610
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 72
  bin: 7.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 183
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 387
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24724
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1707
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 77
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2938
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 887
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 2.5e0
  variant carriers: 0
hgvs: p.Gln106Glu
num of homozygotes: 0
population: South Asian
population: Other
population: Latino
population: African
population: European (Non-Finnish)
population: European (Finnish)
population: East Asian
reference allele: G
site quality: MQ
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: QD
site quality: VQSLOD
site quality: FS
site quality: DP
site quality: ClippingRankSum

3-46497786-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497786
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497786
    reference: chr 3
allele count: 14
allele frequency: 1.156795346377578e-4
allele num: 121024
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.271G>A
  hgvsp: ENSP00000397427.1:p.Glu91Lys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.343G>A
  hgvsp: ENSP00000395234.1:p.Glu115Lys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.310G>A
  hgvsp: ENSP00000405546.1:p.Glu104Lys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.310G>A
  hgvsp: ENSP00000231751.4:p.Glu104Lys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.178G>A
  hgvsp: ENSP00000400254.1:p.Glu60Lys
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7171G>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.178G>A
  hgvsp: ENSP00000405719.2:p.Glu60Lys
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 20813
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 182
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 27
  bin: 7.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 9008
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 609
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 9.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 339
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 175
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 8.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 109
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24821
  bin: 2.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1101
  bin: 4.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 2520
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 387
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 72
  bin: 7.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 9.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 183
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25
  bin: 8.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 8829
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 126
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 63
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 276
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 147
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 39309
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2929
  bin: 7.75e1
  variant carriers: 0
hgvs: p.Glu104Lys
num of homozygotes: 0
population: East Asian
population: European (Finnish)
population: European (Non-Finnish)
population: Latino
population: Other
population: African
population: South Asian
reference allele: C
site quality: MQRankSum
site quality: BaseQRankSum
site quality: QD
site quality: VQSLOD
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: MQ
site quality: FS
site quality: DP
site quality: ReadPosRankSum

3-46497787-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497787
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497787
    reference: chr 3
allele count: 14
allele frequency: 1.156489558551414e-4
allele num: 121056
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.309C>T
  hgvsp: ENST00000417439.1:c.309C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.177C>T
  hgvsp: ENST00000426532.2:c.177C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.309C>T
  hgvsp: ENST00000231751.4:c.309C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.342C>T
  hgvsp: ENST00000431944.1:c.342C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.177C>T
  hgvsp: ENST00000415180.1:c.177C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7170C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.270C>T
  hgvsp: ENST00000443496.1:c.270C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 308
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9011
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 183
  bin: 6.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1096
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24855
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 73
  bin: 7.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 9.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 153
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 170
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 609
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 8.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 281
  bin: 5.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2515
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20850
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 112
  bin: 6.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 387
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 25
  bin: 9.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 25
  bin: 8.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 257
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 52
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 39463
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 43
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1710
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 67
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8839
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 884
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 81
  bin: 3.75e1
  variant carriers: 0
hgvs: p.Thr103Thr
num of homozygotes: 0
population: South Asian
population: European (Non-Finnish)
population: European (Finnish)
population: East Asian
population: Other
population: African
population: Latino
reference allele: G
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: VQSLOD
site quality: QD
site quality: DP
site quality: ReadPosRankSum
site quality: FS
site quality: MQ
site quality: ClippingRankSum

3-46497791-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497791
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497791
    reference: chr 3
allele count: 1
allele frequency: 8.25695648583932e-6
allele num: 121110
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7166G>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.173G>A
  hgvsp: ENSP00000405719.2:p.Gly58Glu
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.173G>A
  hgvsp: ENSP00000400254.1:p.Gly58Glu
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.338G>A
  hgvsp: ENSP00000395234.1:p.Gly113Glu
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.266G>A
  hgvsp: ENSP00000397427.1:p.Gly89Glu
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.305G>A
  hgvsp: ENSP00000405546.1:p.Gly102Glu
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.305G>A
  hgvsp: ENSP00000231751.4:p.Gly102Glu
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 253
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 145
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2517
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 610
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 71
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24925
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 182
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20872
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9036
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 109
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 387
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 124
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1096
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 73
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 703
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 69
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2633
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 886
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 99
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 103
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 213
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 7.5e0
  variant carriers: 0
hgvs: p.Gly102Glu
num of homozygotes: 0
population: European (Non-Finnish)
population: South Asian
population: Other
population: Latino
population: African
population: European (Finnish)
population: East Asian
reference allele: C
site quality: FS
site quality: DP
site quality: QD
site quality: BaseQRankSum
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: MQ
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: ClippingRankSum

3-46497792-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497792
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497792
    reference: chr 3
allele count: 2
allele frequency: 1.651391297167864e-5
allele num: 121110
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.337G>A
  hgvsp: ENSP00000395234.1:p.Gly113Arg
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.172G>A
  hgvsp: ENSP00000400254.1:p.Gly58Arg
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.304G>A
  hgvsp: ENSP00000231751.4:p.Gly102Arg
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7165G>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.265G>A
  hgvsp: ENSP00000397427.1:p.Gly89Arg
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.172G>A
  hgvsp: ENSP00000405719.2:p.Gly58Arg
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.304G>A
  hgvsp: ENSP00000405546.1:p.Gly102Arg
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9050
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 612
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2520
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 183
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 124
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20844
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 72
  bin: 7.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 387
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 141
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 243
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24943
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1099
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 110
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 5
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2750
  bin: 9.75e1
  variant carriers: 2
genotype quality: GenotypeQuality
  all individuals: 884
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 98
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 60
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 208
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2937
  bin: 7.75e1
  variant carriers: 0
hgvs: p.Gly102Arg
num of homozygotes: 0
population: East Asian
population: Latino
population: European (Finnish)
population: European (Non-Finnish)
population: South Asian
population: Other
population: African
reference allele: C
site quality: DP
site quality: BaseQRankSum
site quality: VQSLOD
site quality: MQ
site quality: QD
site quality: FS
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: ClippingRankSum

3-46497793-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497793
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497793
    reference: chr 3
allele count: 3
allele frequency: 2.476882430647292e-5
allele num: 121120
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7164C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.303C>T
  hgvsp: ENST00000417439.1:c.303C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.336C>T
  hgvsp: ENST00000431944.1:c.336C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.171C>T
  hgvsp: ENST00000426532.2:c.171C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.303C>T
  hgvsp: ENST00000231751.4:c.303C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.264C>T
  hgvsp: ENST00000443496.1:c.264C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.171C>T
  hgvsp: ENST00000415180.1:c.171C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 222
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2517
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24984
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1097
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 138
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 9053
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 20840
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 610
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 184
  bin: 6.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 71
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 117
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 388
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 109
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 87
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 50
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1701
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 882
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 71
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 36
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 198
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 6
  bin: 1.75e1
  variant carriers: 0
hgvs: p.Tyr101Tyr
num of homozygotes: 0
population: South Asian
population: East Asian
population: African
population: Latino
population: European (Non-Finnish)
population: European (Finnish)
population: Other
reference allele: G
site quality: MQ
site quality: MQRankSum
site quality: VQSLOD
site quality: QD
site quality: DP
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: FS
site quality: ClippingRankSum
site quality: BaseQRankSum

3-46497794-T-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497794
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497794
    reference: chr 3
allele count: 1
allele frequency: 8.254502831294471e-6
allele num: 121146
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.263A>T
  hgvsp: ENSP00000397427.1:p.Tyr88Phe
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.170A>T
  hgvsp: ENSP00000405719.2:p.Tyr57Phe
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.335A>T
  hgvsp: ENSP00000395234.1:p.Tyr112Phe
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.302A>T
  hgvsp: ENSP00000231751.4:p.Tyr101Phe
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.170A>T
  hgvsp: ENSP00000400254.1:p.Tyr57Phe
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7163A>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.302A>T
  hgvsp: ENSP00000405546.1:p.Tyr101Phe
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9051
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24998
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 182
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 109
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 609
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1093
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20865
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 131
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2517
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 71
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 111
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 388
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 205
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 32
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 63
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 78
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8853
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 39686
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 703
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 89
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 39
  bin: 4.75e1
  variant carriers: 0
hgvs: p.Tyr101Phe
num of homozygotes: 0
population: European (Finnish)
population: Other
population: European (Non-Finnish)
population: Latino
population: South Asian
population: East Asian
population: African
reference allele: T
site quality: MQRankSum
site quality: FS
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: VQSLOD
site quality: DP
site quality: QD
site quality: MQ

3-46497795-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497795
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497795
    reference: chr 3
allele count: 1
allele frequency: 8.253140319891718e-6
allele num: 121166
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.169T>C
  hgvsp: ENSP00000400254.1:p.Tyr57His
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.169T>C
  hgvsp: ENSP00000405719.2:p.Tyr57His
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.334T>C
  hgvsp: ENSP00000395234.1:p.Tyr112His
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.301T>C
  hgvsp: ENSP00000405546.1:p.Tyr101His
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.262T>C
  hgvsp: ENSP00000397427.1:p.Tyr88His
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7162T>C
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.301T>C
  hgvsp: ENSP00000231751.4:p.Tyr101His
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 20886
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24999
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 122
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2514
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 609
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1093
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9056
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 182
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 104
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 197
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 71
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 388
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 109
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25
  bin: 8.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 176
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2640
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 704
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 89
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 54
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8859
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 40
  bin: 4.75e1
  variant carriers: 0
hgvs: p.Tyr101His
num of homozygotes: 0
population: Latino
population: European (Finnish)
population: South Asian
population: European (Non-Finnish)
population: African
population: East Asian
population: Other
reference allele: A
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: VQSLOD
site quality: FS
site quality: MQRankSum
site quality: ClippingRankSum
site quality: DP
site quality: QD
site quality: InbreedingCoeff
site quality: MQ

3-46497802-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497802
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497802
    reference: chr 3
allele count: 6
allele frequency: 4.949025042066713e-5
allele num: 121236
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.162G>A
  hgvsp: ENST00000415180.1:c.162G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.162G>A
  hgvsp: ENST00000426532.2:c.162G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.255G>A
  hgvsp: ENST00000443496.1:c.255G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7155G>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.327G>A
  hgvsp: ENST00000431944.1:c.327G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.294G>A
  hgvsp: ENST00000417439.1:c.294G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.294G>A
  hgvsp: ENST00000231751.4:c.294G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 1096
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 611
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9079
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 387
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 25106
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 82
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 112
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2513
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 109
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25
  bin: 8.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 183
  bin: 6.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 71
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20935
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 8.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 9.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 51
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 17
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2642
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 21
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 703
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 27
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 39898
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 19
  bin: 4.75e1
  variant carriers: 0
hgvs: p.Ala98Ala
num of homozygotes: 0
population: African
population: South Asian
population: European (Finnish)
population: Latino
population: Other
population: European (Non-Finnish)
population: East Asian
reference allele: C
site quality: MQ
site quality: DP
site quality: FS
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: ClippingRankSum
site quality: QD
site quality: MQRankSum
site quality: BaseQRankSum

3-46497803-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497803
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497803
    reference: chr 3
allele count: 6
allele frequency: 4.948535233570863e-5
allele num: 121248
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.254C>T
  hgvsp: ENSP00000397427.1:p.Ala85Val
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.293C>T
  hgvsp: ENSP00000405546.1:p.Ala98Val
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.293C>T
  hgvsp: ENSP00000231751.4:p.Ala98Val
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7154C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.161C>T
  hgvsp: ENSP00000400254.1:p.Ala54Val
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.161C>T
  hgvsp: ENSP00000405719.2:p.Ala54Val
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.326C>T
  hgvsp: ENSP00000395234.1:p.Ala109Val
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 79
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20931
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2515
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25128
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9073
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 27
  bin: 7.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 609
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 388
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1097
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 110
  bin: 6.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 182
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 39
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 9.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 72
  bin: 7.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 107
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 111
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 20
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 23
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 877
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2933
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1701
  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: 2.5e0
  variant carriers: 0
hgvs: p.Ala98Val
num of homozygotes: 0
population: African
population: East Asian
population: Latino
population: European (Finnish)
population: Other
population: South Asian
population: European (Non-Finnish)
reference allele: G
site quality: QD
site quality: ReadPosRankSum
site quality: FS
site quality: VQSLOD
site quality: BaseQRankSum
site quality: MQ
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: ClippingRankSum
site quality: DP

3-46497804-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497804
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497804
    reference: chr 3
allele count: 4
allele frequency: 3.298642608566575e-5
allele num: 121262
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.292G>A
  hgvsp: ENSP00000405546.1:p.Ala98Thr
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.253G>A
  hgvsp: ENSP00000397427.1:p.Ala85Thr
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.325G>A
  hgvsp: ENSP00000395234.1:p.Ala109Thr
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7153G>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.160G>A
  hgvsp: ENSP00000400254.1:p.Ala54Thr
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.292G>A
  hgvsp: ENSP00000231751.4:p.Ala98Thr
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.160G>A
  hgvsp: ENSP00000405719.2:p.Ala54Thr
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 74
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9070
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 37
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 72
  bin: 7.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2512
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 109
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 99
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 281
  bin: 5.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 25138
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1096
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 388
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 20945
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 182
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 610
  bin: 4.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 18
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2752
  bin: 9.75e1
  variant carriers: 4
genotype quality: GenotypeQuality
  all individuals: 2646
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 39
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 44
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 39945
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2934
  bin: 7.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 15
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 1.75e1
  variant carriers: 0
hgvs: p.Ala98Thr
num of homozygotes: 0
population: South Asian
population: European (Finnish)
population: Latino
population: European (Non-Finnish)
population: African
population: East Asian
population: Other
reference allele: C
site quality: ClippingRankSum
site quality: DP
site quality: BaseQRankSum
site quality: FS
site quality: ReadPosRankSum
site quality: VQSLOD
site quality: MQRankSum
site quality: MQ
site quality: QD
site quality: InbreedingCoeff

3-46497805-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497805
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497805
    reference: chr 3
allele count: 2
allele frequency: 1.649348507339601e-5
allele num: 121260
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.159G>A
  hgvsp: ENST00000426532.2:c.159G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.291G>A
  hgvsp: ENST00000417439.1:c.291G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.159G>A
  hgvsp: ENST00000415180.1:c.159G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.324G>A
  hgvsp: ENST00000431944.1:c.324G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.291G>A
  hgvsp: ENST00000231751.4:c.291G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.252G>A
  hgvsp: ENST00000443496.1:c.252G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7152G>A
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 96
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 27
  bin: 7.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 73
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20934
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 387
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 109
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1099
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2513
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 609
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 39
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 182
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 71
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9073
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25147
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 41
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 877
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 19
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2643
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 104
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 26
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 39
  bin: 3.25e1
  variant carriers: 0
hgvs: p.Ala97Ala
num of homozygotes: 0
population: Latino
population: Other
population: South Asian
population: European (Finnish)
population: African
population: East Asian
population: European (Non-Finnish)
reference allele: C
site quality: QD
site quality: DP
site quality: FS
site quality: ClippingRankSum
site quality: BaseQRankSum
site quality: VQSLOD
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: MQ
site quality: ReadPosRankSum

3-46497806-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497806
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497806
    reference: chr 3
allele count: 7
allele frequency: 5.772434153018983e-5
allele num: 121266
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.323C>T
  hgvsp: ENSP00000395234.1:p.Ala108Val
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.158C>T
  hgvsp: ENSP00000400254.1:p.Ala53Val
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7151C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.158C>T
  hgvsp: ENSP00000405719.2:p.Ala53Val
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.290C>T
  hgvsp: ENSP00000405546.1:p.Ala97Val
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.290C>T
  hgvsp: ENSP00000231751.4:p.Ala97Val
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.251C>T
  hgvsp: ENSP00000397427.1:p.Ala84Val
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 183
  bin: 6.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 71
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 9.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 609
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 388
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 69
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2515
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20930
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 92
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 110
  bin: 6.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 40
  bin: 1.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1096
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9071
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 9.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 25156
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 39940
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2642
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 37
  bin: 3.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 15
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2754
  bin: 9.75e1
  variant carriers: 7
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 100
  bin: 2.25e1
  variant carriers: 0
hgvs: p.Ala97Val
num of homozygotes: 0
population: Other
population: Latino
population: European (Finnish)
population: East Asian
population: European (Non-Finnish)
population: South Asian
population: African
reference allele: G
site quality: ReadPosRankSum
site quality: ClippingRankSum
site quality: VQSLOD
site quality: FS
site quality: DP
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: QD
site quality: MQ

3-46497815-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497815
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497815
    reference: chr 3
allele count: 3
allele frequency: 2.472962279082036e-5
allele num: 121312
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.242G>A
  hgvsp: ENSP00000397427.1:p.Arg81Gln
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.149G>A
  hgvsp: ENSP00000400254.1:p.Arg50Gln
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7142G>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.314G>A
  hgvsp: ENSP00000395234.1:p.Arg105Gln
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.281G>A
  hgvsp: ENSP00000231751.4:p.Arg94Gln
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.149G>A
  hgvsp: ENSP00000405719.2:p.Arg50Gln
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.281G>A
  hgvsp: ENSP00000405546.1:p.Arg94Gln
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 387
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1095
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 609
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 49
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9069
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 182
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 70
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 281
  bin: 5.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20959
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25185
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 71
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 8.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 109
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2515
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 701
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 9
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 10
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 16
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 76
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 13
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2648
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 8890
  bin: 6.75e1
  variant carriers: 0
hgvs: p.Arg94Gln
num of homozygotes: 0
population: African
population: South Asian
population: European (Non-Finnish)
population: European (Finnish)
population: East Asian
population: Latino
population: Other
reference allele: C
site quality: MQRankSum
site quality: FS
site quality: DP
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: MQ
site quality: ClippingRankSum
site quality: VQSLOD
site quality: QD

3-46497816-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497816
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497816
    reference: chr 3
allele count: 1
allele frequency: 8.24334350012365e-6
allele num: 121310
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: stop_gained
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.280C>T
  hgvsp: ENSP00000405546.1:p.Arg94Ter
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: stop_gained
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.313C>T
  hgvsp: ENSP00000395234.1:p.Arg105Ter
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7141C>T
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: stop_gained
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.241C>T
  hgvsp: ENSP00000397427.1:p.Arg81Ter
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: stop_gained
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.148C>T
  hgvsp: ENSP00000400254.1:p.Arg50Ter
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: stop_gained
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.148C>T
  hgvsp: ENSP00000405719.2:p.Arg50Ter
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: stop_gained
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.280C>T
  hgvsp: ENSP00000231751.4:p.Arg94Ter
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: stop gained
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9074
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 608
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2515
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1096
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 71
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25190
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 69
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 47
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 109
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 34
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20951
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 182
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 387
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 9
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2647
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 40015
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 73
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 877
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 3
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 701
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 21
  bin: 5.25e1
  variant carriers: 0
hgvs: p.Arg94Ter
num of homozygotes: 0
population: European (Finnish)
population: Other
population: South Asian
population: East Asian
population: African
population: European (Non-Finnish)
population: Latino
reference allele: G
site quality: MQ
site quality: FS
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: VQSLOD
site quality: DP
site quality: ClippingRankSum
site quality: QD

3-46497817-C-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497817
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497817
    reference: chr 3
allele count: 1
allele frequency: 8.242935804015958e-6
allele num: 121316
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.240G>C
  hgvsp: ENST00000443496.1:c.240G>C(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.147G>C
  hgvsp: ENST00000426532.2:c.147G>C(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.279G>C
  hgvsp: ENST00000231751.4:c.279G>C(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.279G>C
  hgvsp: ENST00000417439.1:c.279G>C(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.147G>C
  hgvsp: ENST00000415180.1:c.147G>C(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7140G>C
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.312G>C
  hgvsp: ENST00000431944.1:c.312G>C(p.%3D)
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 9073
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20958
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 48
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 387
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2514
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 71
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1096
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25189
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 608
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 109
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 67
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 182
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 23
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 1
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 7
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 21
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 10
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 11
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 2747
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 701
  bin: 8.75e1
  variant carriers: 0
hgvs: p.Leu93Leu
num of homozygotes: 0
population: Latino
population: European (Non-Finnish)
population: African
population: Other
population: South Asian
population: European (Finnish)
population: East Asian
reference allele: C
site quality: BaseQRankSum
site quality: MQ
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: FS
site quality: VQSLOD
site quality: DP
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: QD

3-46497823-G-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 46497823
    reference: chr 3
  end: Position
    type: ExactPosition
    position: 46497823
    reference: chr 3
allele count: 1
allele frequency: 8.241984669908513e-6
allele num: 121330
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: stop_gained
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000400254
  ensembl transcript: ENST00000415180
  gene symbol: LTF
  hgvsc: ENST00000415180.1:c.141C>A
  hgvsp: ENSP00000400254.1:p.Tyr47Ter
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: stop_gained
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405719
  ensembl transcript: ENST00000426532
  gene symbol: LTF
  hgvsc: ENST00000426532.2:c.141C>A
  hgvsp: ENSP00000405719.2:p.Tyr47Ter
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: true
  consequence: stop_gained
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000231751
  ensembl transcript: ENST00000231751
  gene symbol: LTF
  hgvsc: ENST00000231751.4:c.273C>A
  hgvsp: ENSP00000231751.4:p.Tyr91Ter
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000012223
  ensembl transcript: ENST00000478874
  gene symbol: LTF
  hgvsc: ENST00000478874.2:n.178+7134C>A
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: stop_gained
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000405546
  ensembl transcript: ENST00000417439
  gene symbol: LTF
  hgvsc: ENST00000417439.1:c.273C>A
  hgvsp: ENSP00000405546.1:p.Tyr91Ter
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: stop_gained
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000397427
  ensembl transcript: ENST00000443496
  gene symbol: LTF
  hgvsc: ENST00000443496.1:c.234C>A
  hgvsp: ENSP00000397427.1:p.Tyr78Ter
  variant of: http://identifiers.org/hgnc/6720
annotation: Annotation
  canonical: false
  consequence: stop_gained
  ensembl gene: ENSG00000012223
  ensembl protein: ENSP00000395234
  ensembl transcript: ENST00000431944
  gene symbol: LTF
  hgvsc: ENST00000431944.1:c.306C>A
  hgvsp: ENSP00000395234.1:p.Tyr102Ter
  variant of: http://identifiers.org/hgnc/6720
canonical: true
consequence: stop gained
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 8.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1096
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 280
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 59
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25193
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2512
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20973
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9073
  bin: 3.25e1
  variant carriers: 0
hgvs: p.Tyr91Ter
num of homozygotes: 0
reference allele: G

GenotypeQuality
all individuals: 282
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 47
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 36
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 341
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 130
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2128
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1001
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 210
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 19
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1988
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 7432
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 293
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 31
bin: 4.75e1
variant carriers: 0

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

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10212
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.557729453548508e-5
allele num: 64196
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9842
num of homozygotes: 0

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

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

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 804
num of homozygotes: 0

FS
type: SiteQuality
SIO_000300: 2.677e0

QD
type: SiteQuality
SIO_000300: 1.174e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.34e0

MQRankSum
type: SiteQuality
SIO_000300: 8.72e-1

VQSLOD
type: SiteQuality
SIO_000300: 8.46e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 4.75e0

ClippingRankSum
type: SiteQuality
SIO_000300: -7.26e-1

MQ
type: SiteQuality
SIO_000300: 5.947e1

DP
type: SiteQuality
SIO_000300: 1.528723e6

InbreedingCoeff
type: SiteQuality
SIO_000300: 8.0e-4

GenotypeQuality
all individuals: 40720
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 295
bin: 1.75e1
variant carriers: 0

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

GenotypeQuality
all individuals: 1988
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 42
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 7418
bin: 6.75e1
variant carriers: 0

GenotypeQuality
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bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 135
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 341
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2128
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 967
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 286
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 3457
bin: 2.25e1
variant carriers: 0

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

European (Non-Finnish)
type: Population
allele count: 3
allele frequency: 4.672314976326937e-5
allele num: 64208
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9858
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 804
num of homozygotes: 0

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

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

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10208
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 5.872e1

VQSLOD
type: SiteQuality
SIO_000300: 1.5e-2

BaseQRankSum
type: SiteQuality
SIO_000300: 9.31e-1

DP
type: SiteQuality
SIO_000300: 1.528957e6

ReadPosRankSum
type: SiteQuality
SIO_000300: 3.93e-1

MQRankSum
type: SiteQuality
SIO_000300: -7.19e-1

FS
type: SiteQuality
SIO_000300: 4.38e-1

QD
type: SiteQuality
SIO_000300: 1.285e1

ClippingRankSum
type: SiteQuality
SIO_000300: -1.035e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 8.0e-4

GenotypeQuality
all individuals: 151
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 46
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 232
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 298
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1983
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 41
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 967
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2122
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 897
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 77
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 7425
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 292
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 51
bin: 4.25e1
variant carriers: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8578
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10214
num of homozygotes: 0

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

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

European (Non-Finnish)
type: Population
allele count: 4
allele frequency: 6.228589224540641e-5
allele num: 64220
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 810
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9932
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: 7.87e-1

MQRankSum
type: SiteQuality
SIO_000300: -4.62e-1

FS
type: SiteQuality
SIO_000300: 5.032e0

QD
type: SiteQuality
SIO_000300: 1.184e1

DP
type: SiteQuality
SIO_000300: 1.529846e6

BaseQRankSum
type: SiteQuality
SIO_000300: -1.242e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 9.0e-4

MQ
type: SiteQuality
SIO_000300: 5.953e1

ClippingRankSum
type: SiteQuality
SIO_000300: -8.29e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 6.79e-1

GenotypeQuality
all individuals: 42
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 67
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2115
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 40901
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 62
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 189
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 174
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 101
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 28
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 1976
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 962
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 919
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 7414
bin: 6.75e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 64354
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10212
num of homozygotes: 0

Latino
type: Population
allele count: 1
allele frequency: 8.695652173913044e-5
allele num: 11500
num of homozygotes: 0

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

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

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

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 812
num of homozygotes: 0

FS
type: SiteQuality
SIO_000300: 7.65e-1

DP
type: SiteQuality
SIO_000300: 1.533003e6

QD
type: SiteQuality
SIO_000300: 1.038e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.6e-3

ClippingRankSum
type: SiteQuality
SIO_000300: 1.52e0

BaseQRankSum
type: SiteQuality
SIO_000300: -4.125e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

ReadPosRankSum
type: SiteQuality
SIO_000300: -1.705e0

MQRankSum
type: SiteQuality
SIO_000300: -6.4e-1

VQSLOD
type: SiteQuality
SIO_000300: -1.076e0

GenotypeQuality
all individuals: 286
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2107
bin: 7.75e1
variant carriers: 1

GenotypeQuality
all individuals: 337
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 409
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 67
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 347
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 424
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 921
bin: 9.75e1
variant carriers: 14

GenotypeQuality
all individuals: 957
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 41083
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 128
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 45
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 253
bin: 3.75e1
variant carriers: 1

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

South Asian
type: Population
allele count: 1
allele frequency: 9.260974254491573e-5
allele num: 10798
num of homozygotes: 0

Latino
type: Population
allele count: 1
allele frequency: 8.691117677733357e-5
allele num: 11506
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 12
allele frequency: 1.857987799213452e-4
allele num: 64586
num of homozygotes: 0

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

Other
type: Population
allele count: 1
allele frequency: 1.225490196078431e-3
allele num: 816
num of homozygotes: 0

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

VQSLOD
type: SiteQuality
SIO_000300: 2.91e0

QD
type: SiteQuality
SIO_000300: 1.17e1

ClippingRankSum
type: SiteQuality
SIO_000300: -1.24e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.9e-3

MQ
type: SiteQuality
SIO_000300: 5.99e1

DP
type: SiteQuality
SIO_000300: 1.538863e6

ReadPosRankSum
type: SiteQuality
SIO_000300: 9.8e-2

FS
type: SiteQuality
SIO_000300: 5.24e-1

MQRankSum
type: SiteQuality
SIO_000300: 1.7e-2

BaseQRankSum
type: SiteQuality
SIO_000300: 9.56e-1

GenotypeQuality
all individuals: 1952
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2098
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 448
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 139
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 353
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 7386
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 903
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 286
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 3559
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 114
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 115
bin: 5.25e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10242
num of homozygotes: 0

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

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.544449249397665e-5
allele num: 64748
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11334
num of homozygotes: 0

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

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8614
num of homozygotes: 0

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

FS
type: SiteQuality
SIO_000300: 3.176e0

MQRankSum
type: SiteQuality
SIO_000300: 1.3e-1

QD
type: SiteQuality
SIO_000300: 1.651e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 4.9e-3

BaseQRankSum
type: SiteQuality
SIO_000300: 4.21e0

DP
type: SiteQuality
SIO_000300: 1.542254e6

ClippingRankSum
type: SiteQuality
SIO_000300: -8.2e-1

VQSLOD
type: SiteQuality
SIO_000300: 5.610000000000001e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 9.53e-1

GenotypeQuality
all individuals: 199
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 3035
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 210
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 52
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 373
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 176
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 179
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 340
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2069
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 915
bin: 9.75e1
variant carriers: 42

GenotypeQuality
all individuals: 946
bin: 8.25e1
variant carriers: 0

Latino
type: Population
allele count: 3
allele frequency: 2.605976372480889e-4
allele num: 11512
num of homozygotes: 0

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

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 65026
num of homozygotes: 0

East Asian
type: Population
allele count: 1
allele frequency: 1.159017153453871e-4
allele num: 8628
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 12280
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 834
num of homozygotes: 0

African
type: Population
allele count: 38
allele frequency: 3.702981874878191e-3
allele num: 10262
num of homozygotes: 0

DP
type: SiteQuality
SIO_000300: 1.552108e6

BaseQRankSum
type: SiteQuality
SIO_000300: 8.95e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.2e-1

MQRankSum
type: SiteQuality
SIO_000300: 1.76e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.8e-3

VQSLOD
type: SiteQuality
SIO_000300: 3.68e0

MQ
type: SiteQuality
SIO_000300: 5.971e1

ClippingRankSum
type: SiteQuality
SIO_000300: -5.1e-2

FS
type: SiteQuality
SIO_000300: 5.22e-1

QD
type: SiteQuality
SIO_000300: 1.274e1

GenotypeQuality
all individuals: 327
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 161
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 41
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 42074
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2067
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 33
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 337
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 878
bin: 9.75e1
variant carriers: 2

GenotypeQuality
all individuals: 942
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 7369
bin: 6.75e1
variant carriers: 0

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

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 12660
num of homozygotes: 0

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

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 838
num of homozygotes: 0

African
type: Population
allele count: 1
allele frequency: 9.735202492211838e-5
allele num: 10272
num of homozygotes: 0

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

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8634
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 65138
num of homozygotes: 0

DP
type: SiteQuality
SIO_000300: 1.554466e6

BaseQRankSum
type: SiteQuality
SIO_000300: -8.0e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 1.25e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 3.7e-3

MQRankSum
type: SiteQuality
SIO_000300: 4.06e-1

FS
type: SiteQuality
SIO_000300: 0.0e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 3.95e-1

QD
type: SiteQuality
SIO_000300: 1.465e1

VQSLOD
type: SiteQuality
SIO_000300: 5.61e0

MQ
type: SiteQuality
SIO_000300: 5.972e1

GenotypeQuality
all individuals: 157
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 125
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 7383
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 324
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 296
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 42294
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 324
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 281
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2065
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 416
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 936
bin: 8.25e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10280
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 3
allele frequency: 4.595869844965991e-5
allele num: 65276
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: 6608
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11522
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 12950
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 842
num of homozygotes: 0

FS
type: SiteQuality
SIO_000300: 2.377e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 3.7e-3

VQSLOD
type: SiteQuality
SIO_000300: 4.77e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 6.52e-1

QD
type: SiteQuality
SIO_000300: 1.192e1

MQ
type: SiteQuality
SIO_000300: 5.932e1

MQRankSum
type: SiteQuality
SIO_000300: -8.8e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -5.639999999999999e-1

DP
type: SiteQuality
SIO_000300: 1.557723e6

BaseQRankSum
type: SiteQuality
SIO_000300: -2.33e0

GenotypeQuality
all individuals: 265
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 43405
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1915
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 223
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 82
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 1967
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2060
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 889
bin: 9.75e1
variant carriers: 50

GenotypeQuality
all individuals: 145
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 21
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 191
bin: 4.75e1
variant carriers: 0

African
type: Population
allele count: 47
allele frequency: 4.553381127688432e-3
allele num: 10322
num of homozygotes: 0

Latino
type: Population
allele count: 3
allele frequency: 2.599653379549393e-4
allele num: 11540
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 65652
num of homozygotes: 0

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

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

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

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 14086
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 5.966e1

FS
type: SiteQuality
SIO_000300: 0.0e0

VQSLOD
type: SiteQuality
SIO_000300: 6.0e0

BaseQRankSum
type: SiteQuality
SIO_000300: 3.61e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 4.0e-3

ReadPosRankSum
type: SiteQuality
SIO_000300: 5.16e-1

DP
type: SiteQuality
SIO_000300: 1.571571e6

ClippingRankSum
type: SiteQuality
SIO_000300: -2.67e-1

MQRankSum
type: SiteQuality
SIO_000300: 3.58e-1

QD
type: SiteQuality
SIO_000300: 1.47e1

GenotypeQuality
all individuals: 124
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 5
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 1514
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 44130
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 842
bin: 9.75e1
variant carriers: 1

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

GenotypeQuality
all individuals: 316
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 99
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 171
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 921
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2053
bin: 7.75e1
variant carriers: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 878
num of homozygotes: 0

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

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10348
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 14752
num of homozygotes: 0

Latino
type: Population
allele count: 1
allele frequency: 8.668515950069348e-5
allele num: 11536
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 65958
num of homozygotes: 0

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

QD
type: SiteQuality
SIO_000300: 1.029e1

FS
type: SiteQuality
SIO_000300: 0.0e0

DP
type: SiteQuality
SIO_000300: 1.578883e6

InbreedingCoeff
type: SiteQuality
SIO_000300: 6.2e-3

ReadPosRankSum
type: SiteQuality
SIO_000300: 3.11e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -2.59e-1

MQRankSum
type: SiteQuality
SIO_000300: 1.4e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

VQSLOD
type: SiteQuality
SIO_000300: 2.6e-2

BaseQRankSum
type: SiteQuality
SIO_000300: 2.8e0

GenotypeQuality
all individuals: 191
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 6
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 181
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 105
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 7400
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2054
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 246
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 276
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 44284
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1916
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1351
bin: 2.25e1
variant carriers: 0

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

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.514233797698365e-5
allele num: 66040
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 14992
num of homozygotes: 0

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

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10358
num of homozygotes: 0

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

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8652
num of homozygotes: 0

ClippingRankSum
type: SiteQuality
SIO_000300: -2.975e0

DP
type: SiteQuality
SIO_000300: 1.581634e6

MQRankSum
type: SiteQuality
SIO_000300: 1.03e0

FS
type: SiteQuality
SIO_000300: 1.1732e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 6.5e-3

QD
type: SiteQuality
SIO_000300: 1.6e0

VQSLOD
type: SiteQuality
SIO_000300: -3.177e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

BaseQRankSum
type: SiteQuality
SIO_000300: 2.25e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 2.48e0

GenotypeQuality
all individuals: 1911
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1301
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 262
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 216
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 165
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 44164
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 273
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 186
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 837
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 315
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2045
bin: 7.75e1
variant carriers: 0

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

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66042
num of homozygotes: 0

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

South Asian
type: Population
allele count: 1
allele frequency: 6.62778366914104e-5
allele num: 15088
num of homozygotes: 0

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

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

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8652
num of homozygotes: 0

QD
type: SiteQuality
SIO_000300: 9.15e0

MQRankSum
type: SiteQuality
SIO_000300: 1.27e0

DP
type: SiteQuality
SIO_000300: 1.582662e6

ClippingRankSum
type: SiteQuality
SIO_000300: 1.58e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 3.17e-1

FS
type: SiteQuality
SIO_000300: 1.366e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 5.6e-3

VQSLOD
type: SiteQuality
SIO_000300: -2.56e-2

BaseQRankSum
type: SiteQuality
SIO_000300: -3.074e0

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

GenotypeQuality
all individuals: 220
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 9
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1190
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 13
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 28
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 310
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 44177
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1879
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2012
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 226
bin: 3.75e1
variant carriers: 0

South Asian
type: Population
allele count: 1
allele frequency: 6.519754857217368e-5
allele num: 15338
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8646
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6594
num of homozygotes: 0

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

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66104
num of homozygotes: 0

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

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

ReadPosRankSum
type: SiteQuality
SIO_000300: 6.39e-1

MQRankSum
type: SiteQuality
SIO_000300: 5.32e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

DP
type: SiteQuality
SIO_000300: 1.58399e6

FS
type: SiteQuality
SIO_000300: 5.29e-1

VQSLOD
type: SiteQuality
SIO_000300: 2.89e0

BaseQRankSum
type: SiteQuality
SIO_000300: 5.0e-2

InbreedingCoeff
type: SiteQuality
SIO_000300: 7.0e-4

ClippingRankSum
type: SiteQuality
SIO_000300: -4.65e-1

QD
type: SiteQuality
SIO_000300: 1.351e1

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

GenotypeQuality
all individuals: 1190
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 343
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 832
bin: 9.75e1
variant carriers: 5

GenotypeQuality
all individuals: 9
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 7308
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2012
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 13
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 311
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 898
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 180
bin: 2.75e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6594
num of homozygotes: 0

Latino
type: Population
allele count: 1
allele frequency: 8.673026886383348e-5
allele num: 11530
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 3
allele frequency: 4.538303279680504e-5
allele num: 66104
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 6.519754857217368e-5
allele num: 15338
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8646
num of homozygotes: 0

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

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

VQSLOD
type: SiteQuality
SIO_000300: 2.89e0

QD
type: SiteQuality
SIO_000300: 1.351e1

DP
type: SiteQuality
SIO_000300: 1.58399e6

FS
type: SiteQuality
SIO_000300: 5.29e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 6.39e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 5.0e-2

MQRankSum
type: SiteQuality
SIO_000300: 5.32e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 7.0e-4

MQ
type: SiteQuality
SIO_000300: 6.0e1

ClippingRankSum
type: SiteQuality
SIO_000300: -4.65e-1

GenotypeQuality
all individuals: 224
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 112
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 6
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 38
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 176
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 44406
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 7327
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 894
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1871
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 307
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 186
bin: 4.25e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6596
num of homozygotes: 0

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

East Asian
type: Population
allele count: 1
allele frequency: 1.156604210039325e-4
allele num: 8646
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 15394
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10348
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.512447442451375e-5
allele num: 66118
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11526
num of homozygotes: 0

DP
type: SiteQuality
SIO_000300: 1.583534e6

QD
type: SiteQuality
SIO_000300: 1.332e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 3.0e-4

MQRankSum
type: SiteQuality
SIO_000300: -2.7e-1

VQSLOD
type: SiteQuality
SIO_000300: 1.73e0

MQ
type: SiteQuality
SIO_000300: 5.95e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.45e-1

FS
type: SiteQuality
SIO_000300: 4.466e0

BaseQRankSum
type: SiteQuality
SIO_000300: -1.87e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -3.53e-1

GenotypeQuality
all individuals: 298
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 6
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 7327
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 44406
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 28
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 112
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 224
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 307
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 309
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1170
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 824
bin: 9.75e1
variant carriers: 1

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10348
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 6.496037417175523e-5
allele num: 15394
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66118
num of homozygotes: 0

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

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6596
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8646
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11526
num of homozygotes: 0

DP
type: SiteQuality
SIO_000300: 1.583534e6

MQRankSum
type: SiteQuality
SIO_000300: -2.7e-1

FS
type: SiteQuality
SIO_000300: 4.466e0

MQ
type: SiteQuality
SIO_000300: 5.95e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.45e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -1.87e-1

VQSLOD
type: SiteQuality
SIO_000300: 1.73e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 3.0e-4

ClippingRankSum
type: SiteQuality
SIO_000300: -3.53e-1

QD
type: SiteQuality
SIO_000300: 1.332e1

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

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

GenotypeQuality
all individuals: 260
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 487
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1179
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1986
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 18
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 878
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 7282
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1860
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 297
bin: 8.75e1
variant carriers: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 15458
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66124
num of homozygotes: 0

African
type: Population
allele count: 1
allele frequency: 9.66183574879227e-5
allele num: 10350
num of homozygotes: 0

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

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

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6594
num of homozygotes: 0

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

ReadPosRankSum
type: SiteQuality
SIO_000300: 5.7e-2

MQ
type: SiteQuality
SIO_000300: 6.0e1

DP
type: SiteQuality
SIO_000300: 1.582183e6

FS
type: SiteQuality
SIO_000300: 0.0e0

BaseQRankSum
type: SiteQuality
SIO_000300: -1.877e0

MQRankSum
type: SiteQuality
SIO_000300: -4.21e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -2.0e-4

VQSLOD
type: SiteQuality
SIO_000300: 1.11e0

ClippingRankSum
type: SiteQuality
SIO_000300: 5.12e-1

QD
type: SiteQuality
SIO_000300: 1.405e1

GenotypeQuality
all individuals: 380
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 18
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 6
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 44536
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 861
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 7249
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 286
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 292
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 246
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 933
bin: 9.75e1
variant carriers: 207

GenotypeQuality
all individuals: 1955
bin: 7.75e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6594
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 15510
num of homozygotes: 0

African
type: Population
allele count: 179
allele frequency: 1.729468599033816e-2
allele num: 10350
num of homozygotes: 1

Latino
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allele count: 21
allele frequency: 1.823233200208369e-3
allele num: 11518
num of homozygotes: 0

European (Non-Finnish)
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allele count: 8
allele frequency: 1.209555488358028e-4
allele num: 66140
num of homozygotes: 0

East Asian
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allele count: 0
allele frequency: 0.0e0
allele num: 8648
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Other
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allele count: 0
allele frequency: 0.0e0
allele num: 896
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VQSLOD
type: SiteQuality
SIO_000300: 4.69e0

MQRankSum
type: SiteQuality
SIO_000300: 2.99e-1

FS
type: SiteQuality
SIO_000300: 5.19e-1

ClippingRankSum
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SIO_000300: -2.6e-2

QD
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InbreedingCoeff
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SIO_000300: 1.41e-2

BaseQRankSum
type: SiteQuality
SIO_000300: -2.933e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

DP
type: SiteQuality
SIO_000300: 1.58445e6

ReadPosRankSum
type: SiteQuality
SIO_000300: 4.08e-1

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

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6594
num of homozygotes: 0

African
type: Population
allele count: 8
allele frequency: 7.735447689035003e-4
allele num: 10342
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 15528
num of homozygotes: 0

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

European (Non-Finnish)
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allele count: 0
allele frequency: 0.0e0
allele num: 66152
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8646
num of homozygotes: 0

Latino
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allele count: 1
allele frequency: 8.685079034219212e-5
allele num: 11514
num of homozygotes: 0

ClippingRankSum
type: SiteQuality
SIO_000300: -4.17e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 5.4e-3

FS
type: SiteQuality
SIO_000300: 0.0e0

ReadPosRankSum
type: SiteQuality
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QD
type: SiteQuality
SIO_000300: 1.231e1

DP
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VQSLOD
type: SiteQuality
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BaseQRankSum
type: SiteQuality
SIO_000300: 7.24e-1

MQ
type: SiteQuality
SIO_000300: 5.922e1

MQRankSum
type: SiteQuality
SIO_000300: -8.3e-2

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 8

East Asian
type: Population
allele count: 1
allele frequency: 1.156604210039325e-4
allele num: 8646
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 896
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European (Finnish)
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allele count: 0
allele frequency: 0.0e0
allele num: 6592
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European (Non-Finnish)
type: Population
allele count: 3
allele frequency: 4.534461910519952e-5
allele num: 66160
num of homozygotes: 0

Latino
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allele count: 0
allele frequency: 0.0e0
allele num: 11514
num of homozygotes: 0

South Asian
type: Population
allele count: 3
allele frequency: 1.929508618471829e-4
allele num: 15548
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African
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allele count: 1
allele frequency: 9.67305088024763e-5
allele num: 10338
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MQRankSum
type: SiteQuality
SIO_000300: 1.88e-1

MQ
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SIO_000300: 6.0e1

ClippingRankSum
type: SiteQuality
SIO_000300: -4.34e-1

FS
type: SiteQuality
SIO_000300: 1.764e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 5.7e-3

VQSLOD
type: SiteQuality
SIO_000300: 2.55e0

DP
type: SiteQuality
SIO_000300: 1.579814e6

ReadPosRankSum
type: SiteQuality
SIO_000300: 4.7e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -6.909999999999999e-1

QD
type: SiteQuality
SIO_000300: 1.151e1

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

East Asian
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allele count: 0
allele frequency: 0.0e0
allele num: 8646
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 15602
num of homozygotes: 0

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

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

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.51267622678042e-5
allele num: 66108
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6586
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10312
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MQ
type: SiteQuality
SIO_000300: 6.0e1

FS
type: SiteQuality
SIO_000300: 6.601e0

ClippingRankSum
type: SiteQuality
SIO_000300: -3.51e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -2.0e-4

MQRankSum
type: SiteQuality
SIO_000300: 3.5e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -3.16e-1

VQSLOD
type: SiteQuality
SIO_000300: 7.39e-1

QD
type: SiteQuality
SIO_000300: 1.324e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.36e0

DP
type: SiteQuality
SIO_000300: 1.57504e6

GenotypeQuality
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variant carriers: 0

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

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6570
num of homozygotes: 0

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

Latino
type: Population
allele count: 1
allele frequency: 8.724480893386844e-5
allele num: 11462
num of homozygotes: 0

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

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 15344
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 65898
num of homozygotes: 0

FS
type: SiteQuality
SIO_000300: 0.0e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -3.0e-4

BaseQRankSum
type: SiteQuality
SIO_000300: -3.955e0

ReadPosRankSum
type: SiteQuality
SIO_000300: -3.21e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 2.2e-1

MQRankSum
type: SiteQuality
SIO_000300: 1.78e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

VQSLOD
type: SiteQuality
SIO_000300: 4.12e-1

QD
type: SiteQuality
SIO_000300: 1.225e1

DP
type: SiteQuality
SIO_000300: 1.565793e6

GenotypeQuality
all individuals: 23
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 2210
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GenotypeQuality
all individuals: 216
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variant carriers: 0

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

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11432
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 15076
num of homozygotes: 0

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

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 65706
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10276
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European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6558
num of homozygotes: 0

ClippingRankSum
type: SiteQuality
SIO_000300: -1.309e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -3.0e-4

FS
type: SiteQuality
SIO_000300: 0.0e0

QD
type: SiteQuality
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MQRankSum
type: SiteQuality
SIO_000300: -1.87e-1

MQ
type: SiteQuality
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BaseQRankSum
type: SiteQuality
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VQSLOD
type: SiteQuality
SIO_000300: 2.92e0

ReadPosRankSum
type: SiteQuality
SIO_000300: -1.04e-1

DP
type: SiteQuality
SIO_000300: 1.555015e6

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

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 65658
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 872
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11426
num of homozygotes: 0

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

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10272
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South Asian
type: Population
allele count: 3
allele frequency: 1.996007984031936e-4
allele num: 15030
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6552
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MQRankSum
type: SiteQuality
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ClippingRankSum
type: SiteQuality
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QD
type: SiteQuality
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VQSLOD
type: SiteQuality
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InbreedingCoeff
type: SiteQuality
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FS
type: SiteQuality
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ReadPosRankSum
type: SiteQuality
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BaseQRankSum
type: SiteQuality
SIO_000300: -3.11e-1

DP
type: SiteQuality
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MQ
type: SiteQuality
SIO_000300: 6.0e1

GenotypeQuality
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variant carriers: 3

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

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

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

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

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10264
num of homozygotes: 0

European (Non-Finnish)
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allele count: 3
allele frequency: 4.57331016189518e-5
allele num: 65598
num of homozygotes: 0

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

European (Finnish)
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allele frequency: 0.0e0
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European (Non-Finnish)
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allele frequency: 0.0e0
allele num: 65598
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African
type: Population
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Other
type: Population
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Latino
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allele frequency: 9.635599159074983e-4
allele num: 11416
num of homozygotes: 0

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

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

South Asian
type: Population
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African
type: Population
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allele frequency: 9.854158454867954e-5
allele num: 10148
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Other
type: Population
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allele frequency: 0.0e0
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European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 65158
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Latino
type: Population
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East Asian
type: Population
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allele frequency: 0.0e0
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ClippingRankSum
type: SiteQuality
SIO_000300: 1.56e0

MQ
type: SiteQuality
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FS
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DP
type: SiteQuality
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VQSLOD
type: SiteQuality
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BaseQRankSum
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InbreedingCoeff
type: SiteQuality
SIO_000300: -5.0e-4

QD
type: SiteQuality
SIO_000300: 1.664e1

MQRankSum
type: SiteQuality
SIO_000300: 7.24e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: -4.86e-1

GenotypeQuality
all individuals: 202
bin: 9.25e1
variant carriers: 0

GenotypeQuality
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bin: 3.75e1
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GenotypeQuality
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bin: 4.75e1
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GenotypeQuality
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bin: 7.25e1
variant carriers: 0

GenotypeQuality
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bin: 7.5e0
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GenotypeQuality
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bin: 1.75e1
variant carriers: 0

GenotypeQuality
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bin: 9.75e1
variant carriers: 1

GenotypeQuality
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bin: 5.75e1
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GenotypeQuality
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bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 649
bin: 3.25e1
variant carriers: 0

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

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8598
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 840
num of homozygotes: 0

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

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

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 14066
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11336
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.536617597344725e-5
allele num: 65078
num of homozygotes: 0

ReadPosRankSum
type: SiteQuality
SIO_000300: 9.9e-1

MQ
type: SiteQuality
SIO_000300: 5.79e1

DP
type: SiteQuality
SIO_000300: 1.517266e6

ClippingRankSum
type: SiteQuality
SIO_000300: -1.12e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -5.0e-4

QD
type: SiteQuality
SIO_000300: 1.39e1

MQRankSum
type: SiteQuality
SIO_000300: 2.26e0

VQSLOD
type: SiteQuality
SIO_000300: -1.822e0

FS
type: SiteQuality
SIO_000300: 0.0e0

BaseQRankSum
type: SiteQuality
SIO_000300: -2.061e0

GenotypeQuality
all individuals: 82
bin: 1.75e1
variant carriers: 0

GenotypeQuality
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bin: 5.75e1
variant carriers: 0

GenotypeQuality
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bin: 2.25e1
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GenotypeQuality
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bin: 1.25e1
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
all individuals: 1555
bin: 7.75e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10078
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 13554
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11274
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.54526068547764e-5
allele num: 64714
num of homozygotes: 0

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

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

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

MQRankSum
type: SiteQuality
SIO_000300: -3.4e-1

FS
type: SiteQuality
SIO_000300: 5.216e0

VQSLOD
type: SiteQuality
SIO_000300: 1.6e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 8.75e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.4e-3

DP
type: SiteQuality
SIO_000300: 1.502681e6

ClippingRankSum
type: SiteQuality
SIO_000300: -7.6e-2

QD
type: SiteQuality
SIO_000300: 1.239e1

BaseQRankSum
type: SiteQuality
SIO_000300: 5.01e-1

GenotypeQuality
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bin: 2.75e1
variant carriers: 0

GenotypeQuality
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bin: 2.5e0
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GenotypeQuality
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bin: 1.25e1
variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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bin: 9.75e1
variant carriers: 3

GenotypeQuality
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GenotypeQuality
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bin: 5.25e1
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GenotypeQuality
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bin: 3.25e1
variant carriers: 0

GenotypeQuality
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bin: 5.75e1
variant carriers: 0

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

GenotypeQuality
all individuals: 1459
bin: 7.25e1
variant carriers: 0

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

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11272
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 7.395355716609969e-5
allele num: 13522
num of homozygotes: 0

East Asian
type: Population
allele count: 2
allele frequency: 2.330459100442787e-4
allele num: 8582
num of homozygotes: 0

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

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10084
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 64694
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 6.0e1

ClippingRankSum
type: SiteQuality
SIO_000300: -7.94e-1

QD
type: SiteQuality
SIO_000300: 1.205e1

FS
type: SiteQuality
SIO_000300: 0.0e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.94e0

MQRankSum
type: SiteQuality
SIO_000300: 4.11e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.4e-3

BaseQRankSum
type: SiteQuality
SIO_000300: -2.077e0

VQSLOD
type: SiteQuality
SIO_000300: 4.21e-1

DP
type: SiteQuality
SIO_000300: 1.501711e6

GenotypeQuality
all individuals: 4943
bin: 2.25e1
variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
all individuals: 651
bin: 9.75e1
variant carriers: 1

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.550291454793501e-5
allele num: 64504
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 824
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 13322
num of homozygotes: 0

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

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

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

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10032
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: -8.394e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.3e-3

MQRankSum
type: SiteQuality
SIO_000300: 1.9e0

BaseQRankSum
type: SiteQuality
SIO_000300: -1.471e0

ClippingRankSum
type: SiteQuality
SIO_000300: -8.169999999999999e-1

FS
type: SiteQuality
SIO_000300: 0.0e0

DP
type: SiteQuality
SIO_000300: 1.494132e6

ReadPosRankSum
type: SiteQuality
SIO_000300: 2.39e0

MQ
type: SiteQuality
SIO_000300: 5.944e1

QD
type: SiteQuality
SIO_000300: 1.462e1

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

GenotypeQuality
all individuals: 702
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 653
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variant carriers: 9

GenotypeQuality
all individuals: 303
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GenotypeQuality
all individuals: 182
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variant carriers: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 12984
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6464
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8540
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11204
num of homozygotes: 0

African
type: Population
allele count: 8
allele frequency: 8.0e-4
allele num: 10000
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.557098813490704e-5
allele num: 64222
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 820
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: 1.97e0

ClippingRankSum
type: SiteQuality
SIO_000300: -1.0e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 1.55e0

QD
type: SiteQuality
SIO_000300: 1.321e1

MQ
type: SiteQuality
SIO_000300: 5.92e1

MQRankSum
type: SiteQuality
SIO_000300: 1.61e-1

DP
type: SiteQuality
SIO_000300: 1.480905e6

FS
type: SiteQuality
SIO_000300: 5.47e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 3.52e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.3e-3

GenotypeQuality
all individuals: 1217
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 209
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 4

GenotypeQuality
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GenotypeQuality
all individuals: 520
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variant carriers: 0

GenotypeQuality
all individuals: 396
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GenotypeQuality
all individuals: 37803
bin: 6.25e1
variant carriers: 0

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

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

South Asian
type: Population
allele count: 2
allele frequency: 1.728309713100588e-4
allele num: 11572
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10880
num of homozygotes: 0

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

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8320
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 2
allele frequency: 3.213780691605605e-5
allele num: 62232
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: -5.8e-2

DP
type: SiteQuality
SIO_000300: 1.405331e6

VQSLOD
type: SiteQuality
SIO_000300: 8.06e-1

QD
type: SiteQuality
SIO_000300: 1.481e1

MQ
type: SiteQuality
SIO_000300: 5.947e1

BaseQRankSum
type: SiteQuality
SIO_000300: 1.45e0

ClippingRankSum
type: SiteQuality
SIO_000300: -5.72e-1

FS
type: SiteQuality
SIO_000300: 4.906e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 9.0e-4

ReadPosRankSum
type: SiteQuality
SIO_000300: 7.36e-1

GenotypeQuality
all individuals: 70
bin: 2.5e0
variant carriers: 0

GenotypeQuality
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bin: 9.75e1
variant carriers: 2

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 108
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
all individuals: 1183
bin: 7.75e1
variant carriers: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10838
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6272
num of homozygotes: 0

East Asian
type: Population
allele count: 1
allele frequency: 1.202790473899447e-4
allele num: 8314
num of homozygotes: 0

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

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.612175146707938e-5
allele num: 62028
num of homozygotes: 0

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

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

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.03e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.0e-4

VQSLOD
type: SiteQuality
SIO_000300: -4.721e-1

MQRankSum
type: SiteQuality
SIO_000300: -2.64e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -1.197e0

BaseQRankSum
type: SiteQuality
SIO_000300: -1.47e-1

FS
type: SiteQuality
SIO_000300: 9.52e-1

QD
type: SiteQuality
SIO_000300: 7.31e0

DP
type: SiteQuality
SIO_000300: 1.397821e6

MQ
type: SiteQuality
SIO_000300: 6.0e1

GenotypeQuality
all individuals: 1430
bin: 3.25e1
variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 621
bin: 9.75e1
variant carriers: 1

South Asian
type: Population
allele count: 1
allele frequency: 9.015506671474937e-5
allele num: 11092
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6140
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 60924
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9558
num of homozygotes: 0

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

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10658
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 766
num of homozygotes: 0

InbreedingCoeff
type: SiteQuality
SIO_000300: 5.8e-3

QD
type: SiteQuality
SIO_000300: 8.220000000000001e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 4.9e-2

MQ
type: SiteQuality
SIO_000300: 6.0e1

ClippingRankSum
type: SiteQuality
SIO_000300: -1.48e-1

FS
type: SiteQuality
SIO_000300: 2.41e0

BaseQRankSum
type: SiteQuality
SIO_000300: 7.87e-1

MQRankSum
type: SiteQuality
SIO_000300: -9.84e-1

DP
type: SiteQuality
SIO_000300: 1.353007e6

VQSLOD
type: SiteQuality
SIO_000300: -5.992e-1

GenotypeQuality
all individuals: 1024
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 2

GenotypeQuality
all individuals: 335
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GenotypeQuality
all individuals: 501
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variant carriers: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 748
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 2
allele frequency: 3.377237419790612e-5
allele num: 59220
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5986
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10320
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7850
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10490
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9388
num of homozygotes: 0

BaseQRankSum
type: SiteQuality
SIO_000300: -2.766e0

FS
type: SiteQuality
SIO_000300: 9.68e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 2.59e-1

MQRankSum
type: SiteQuality
SIO_000300: 1.29e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 1.99e-1

QD
type: SiteQuality
SIO_000300: 2.79e1

InbreedingCoeff
type: SiteQuality
SIO_000300: -2.2e-3

VQSLOD
type: SiteQuality
SIO_000300: 3.23e-1

MQ
type: SiteQuality
SIO_000300: 5.886e1

DP
type: SiteQuality
SIO_000300: 1.278992e6

GenotypeQuality
all individuals: 1047
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 26753
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GenotypeQuality
all individuals: 216
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 16656
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GenotypeQuality
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GenotypeQuality
all individuals: 3585
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GenotypeQuality
all individuals: 1281
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GenotypeQuality
all individuals: 154
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GenotypeQuality
all individuals: 619
bin: 9.75e1
variant carriers: 3

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9746
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7576
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9222
num of homozygotes: 0

Latino
type: Population
allele count: 3
allele frequency: 3.027245206861756e-4
allele num: 9910
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5802
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 722
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 57294
num of homozygotes: 0

DP
type: SiteQuality
SIO_000300: 1.190462e6

MQRankSum
type: SiteQuality
SIO_000300: 2.39e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -2.2e-3

FS
type: SiteQuality
SIO_000300: 1.365e0

ReadPosRankSum
type: SiteQuality
SIO_000300: -8.500000000000001e-2

BaseQRankSum
type: SiteQuality
SIO_000300: -1.67e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

ClippingRankSum
type: SiteQuality
SIO_000300: 5.45e-1

QD
type: SiteQuality
SIO_000300: 1.197e1

VQSLOD
type: SiteQuality
SIO_000300: 1.92e0

GenotypeQuality
all individuals: 692
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 592
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 596
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 114
bin: 2.5e0
variant carriers: 0

GenotypeQuality
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bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1089
bin: 5.75e1
variant carriers: 0

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

GenotypeQuality
all individuals: 1958
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 901
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 512
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 16742
bin: 6.25e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8864
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8532
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.86511489107729e-5
allele num: 53616
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 680
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9170
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6900
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5454
num of homozygotes: 0

InbreedingCoeff
type: SiteQuality
SIO_000300: 4.7e-3

BaseQRankSum
type: SiteQuality
SIO_000300: -1.485e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

FS
type: SiteQuality
SIO_000300: 9.85e-1

MQRankSum
type: SiteQuality
SIO_000300: -3.8e-2

VQSLOD
type: SiteQuality
SIO_000300: 1.31e0

ClippingRankSum
type: SiteQuality
SIO_000300: -1.58e-1

DP
type: SiteQuality
SIO_000300: 1.008818e6

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.62e-1

QD
type: SiteQuality
SIO_000300: 1.07e1

GenotypeQuality
all individuals: 114
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 299
bin: 8.25e1
variant carriers: 0

GenotypeQuality
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bin: 1.75e1
variant carriers: 0

GenotypeQuality
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bin: 2.75e1
variant carriers: 0

GenotypeQuality
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bin: 1.25e1
variant carriers: 0

GenotypeQuality
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bin: 2.25e1
variant carriers: 0

GenotypeQuality
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bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 901
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1089
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 616
bin: 9.75e1
variant carriers: 3

GenotypeQuality
all individuals: 133
bin: 9.25e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5454
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8532
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6900
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9170
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8864
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 680
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 3
allele frequency: 5.595344673231871e-5
allele num: 53616
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: -3.8e-2

MQ
type: SiteQuality
SIO_000300: 6.0e1

VQSLOD
type: SiteQuality
SIO_000300: 1.31e0

QD
type: SiteQuality
SIO_000300: 1.07e1

FS
type: SiteQuality
SIO_000300: 9.85e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.62e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -1.485e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 4.7e-3

ClippingRankSum
type: SiteQuality
SIO_000300: -1.58e-1

DP
type: SiteQuality
SIO_000300: 1.008818e6

GenotypeQuality
all individuals: 4167
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2052
bin: 6.75e1
variant carriers: 0

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

GenotypeQuality
all individuals: 702
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 168
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 2129
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 4295
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 127
bin: 9.25e1
variant carriers: 0

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

GenotypeQuality
all individuals: 512
bin: 4.25e1
variant carriers: 0

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

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 668
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 52894
num of homozygotes: 0

East Asian
type: Population
allele count: 1
allele frequency: 1.470588235294118e-4
allele num: 6800
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5396
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 9050
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8776
num of homozygotes: 0

QD
type: SiteQuality
SIO_000300: 1.131e1

DP
type: SiteQuality
SIO_000300: 9.84573e5

ReadPosRankSum
type: SiteQuality
SIO_000300: 2.14e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

ClippingRankSum
type: SiteQuality
SIO_000300: 4.46e-1

FS
type: SiteQuality
SIO_000300: 2.713e0

BaseQRankSum
type: SiteQuality
SIO_000300: -8.47e-1

MQRankSum
type: SiteQuality
SIO_000300: 5.79e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 5.1e-3

VQSLOD
type: SiteQuality
SIO_000300: 3.49e-1

GenotypeQuality
all individuals: 4403
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 559
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 219
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 15784
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 611
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 464
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1933
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 451
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 125
bin: 9.25e1
variant carriers: 0

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

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8724
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5342
num of homozygotes: 0

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

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 662
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8958
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.902804734178179e-5
allele num: 52554
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6776
num of homozygotes: 0

DP
type: SiteQuality
SIO_000300: 9.71146e5

InbreedingCoeff
type: SiteQuality
SIO_000300: -4.8e-3

MQRankSum
type: SiteQuality
SIO_000300: -6.39e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 8.69e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 2.3e0

FS
type: SiteQuality
SIO_000300: 1.4065e1

QD
type: SiteQuality
SIO_000300: 1.203e1

ClippingRankSum
type: SiteQuality
SIO_000300: -4.26e-1

MQ
type: SiteQuality
SIO_000300: 5.925e1

VQSLOD
type: SiteQuality
SIO_000300: -1.842e0

GenotypeQuality
all individuals: 331
bin: 7.25e1
variant carriers: 25

GenotypeQuality
all individuals: 26016
bin: 2.25e1
variant carriers: 16

GenotypeQuality
all individuals: 9384
bin: 6.25e1
variant carriers: 29

GenotypeQuality
all individuals: 5614
bin: 3.25e1
variant carriers: 17

GenotypeQuality
all individuals: 5410
bin: 2.75e1
variant carriers: 14

GenotypeQuality
all individuals: 2515
bin: 9.75e1
variant carriers: 1990

GenotypeQuality
all individuals: 1246
bin: 6.75e1
variant carriers: 22

GenotypeQuality
all individuals: 242
bin: 8.25e1
variant carriers: 36

GenotypeQuality
all individuals: 488
bin: 4.25e1
variant carriers: 15

GenotypeQuality
all individuals: 135
bin: 9.25e1
variant carriers: 34

Other
type: Population
allele count: 14
allele frequency: 2.19435736677116e-2
allele num: 638
num of homozygotes: 0

Latino
type: Population
allele count: 115
allele frequency: 1.355492692126356e-2
allele num: 8484
num of homozygotes: 0

African
type: Population
allele count: 1752
allele frequency: 2.089196279513475e-1
allele num: 8386
num of homozygotes: 152

South Asian
type: Population
allele count: 80
allele frequency: 1.07903965470731e-2
allele num: 7414
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6430
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 13
allele frequency: 2.51353441608662e-3
allele num: 5172
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 336
allele frequency: 6.69482744879254e-3
allele num: 50188
num of homozygotes: 3

VQSLOD
type: SiteQuality
SIO_000300: 4.32e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.5e-1

MQRankSum
type: SiteQuality
SIO_000300: 1.18e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -2.083e0

ClippingRankSum
type: SiteQuality
SIO_000300: -5.4e-2

FS
type: SiteQuality
SIO_000300: 7.7e-1

QD
type: SiteQuality
SIO_000300: 1.464e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 8.18e-2

DP
type: SiteQuality
SIO_000300: 8.65368e5

MQ
type: SiteQuality
SIO_000300: 6.0e1

GenotypeQuality
all individuals: 5181
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 353
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 294
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 562
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variant carriers: 0

GenotypeQuality
all individuals: 6268
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 7123
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variant carriers: 0

GenotypeQuality
all individuals: 806
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 133
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variant carriers: 0

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

GenotypeQuality
all individuals: 220
bin: 8.25e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 2
allele frequency: 4.206098843322818e-5
allele num: 47550
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7494
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7958
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6024
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4960
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6646
num of homozygotes: 0

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

DP
type: SiteQuality
SIO_000300: 7.75281e5

BaseQRankSum
type: SiteQuality
SIO_000300: 2.06e0

VQSLOD
type: SiteQuality
SIO_000300: 6.24e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.01e-2

ReadPosRankSum
type: SiteQuality
SIO_000300: 5.55e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

QD
type: SiteQuality
SIO_000300: 1.164e1

MQRankSum
type: SiteQuality
SIO_000300: 1.23e0

FS
type: SiteQuality
SIO_000300: 3.548e0

ClippingRankSum
type: SiteQuality
SIO_000300: -1.01e-1

GenotypeQuality
all individuals: 118
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 4040
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 971
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 614
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 220
bin: 8.25e1
variant carriers: 0

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

GenotypeQuality
all individuals: 345
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variant carriers: 0

GenotypeQuality
all individuals: 6245
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variant carriers: 0

GenotypeQuality
all individuals: 937
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 703
bin: 4.75e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4866
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 582
num of homozygotes: 0

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

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 2.163003979927323e-5
allele num: 46232
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7746
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7318
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5822
num of homozygotes: 0

ClippingRankSum
type: SiteQuality
SIO_000300: 7.35e-1

VQSLOD
type: SiteQuality
SIO_000300: 1.81e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.02e-2

DP
type: SiteQuality
SIO_000300: 7.5824e5

FS
type: SiteQuality
SIO_000300: 0.0e0

BaseQRankSum
type: SiteQuality
SIO_000300: -6.0e-1

MQRankSum
type: SiteQuality
SIO_000300: 2.63e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: -4.51e-1

QD
type: SiteQuality
SIO_000300: 1.358e1

MQ
type: SiteQuality
SIO_000300: 5.969e1

GenotypeQuality
all individuals: 2176
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 5696
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 614
bin: 9.75e1
variant carriers: 2

GenotypeQuality
all individuals: 703
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 220
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 118
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 7257
bin: 3.25e1
variant carriers: 0

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

GenotypeQuality
all individuals: 165
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 132
bin: 8.75e1
variant carriers: 0

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

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 5822
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7746
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 7318
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 4866
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 2
allele frequency: 4.326007959854646e-5
allele num: 46232
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 582
num of homozygotes: 0

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.02e-2

MQRankSum
type: SiteQuality
SIO_000300: 2.63e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -6.0e-1

VQSLOD
type: SiteQuality
SIO_000300: 1.81e0

ClippingRankSum
type: SiteQuality
SIO_000300: 7.35e-1

MQ
type: SiteQuality
SIO_000300: 5.969e1

FS
type: SiteQuality
SIO_000300: 0.0e0

DP
type: SiteQuality
SIO_000300: 7.5824e5

QD
type: SiteQuality
SIO_000300: 1.358e1

ReadPosRankSum
type: SiteQuality
SIO_000300: -4.51e-1

GenotypeQuality
all individuals: 2945
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 25482
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1650
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 86
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variant carriers: 0

GenotypeQuality
all individuals: 2787
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 2635
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 963
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2830
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1980
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1326
bin: 4.25e1
variant carriers: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8502
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11458
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10236
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16062
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6322
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.52012647452268e-5
allele num: 65784
num of homozygotes: 0

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

VQSLOD
type: SiteQuality
SIO_000300: 9.08e-1

MQRankSum
type: SiteQuality
SIO_000300: -2.65e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 5.999999999999999e-4

BaseQRankSum
type: SiteQuality
SIO_000300: -3.515e0

FS
type: SiteQuality
SIO_000300: 0.0e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 8.69e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -6.43e-1

QD
type: SiteQuality
SIO_000300: 1.207e1

DP
type: SiteQuality
SIO_000300: 1.561073e6

GenotypeQuality
all individuals: 1342
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 8297
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2759
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1326
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2627
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1881
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2772
bin: 9.75e1
variant carriers: 2

GenotypeQuality
all individuals: 1984
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 823
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1060
bin: 2.75e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10248
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6314
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8504
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16054
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 65748
num of homozygotes: 0

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

Latino
type: Population
allele count: 2
allele frequency: 1.744591765526867e-4
allele num: 11464
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: 8.110000000000001e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 7.07e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 7.31e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 4.0e-4

VQSLOD
type: SiteQuality
SIO_000300: 6.43e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

QD
type: SiteQuality
SIO_000300: 1.159e1

FS
type: SiteQuality
SIO_000300: 6.522e0

BaseQRankSum
type: SiteQuality
SIO_000300: -4.007e0

DP
type: SiteQuality
SIO_000300: 1.560886e6

GenotypeQuality
all individuals: 568
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1127
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 513
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2753
bin: 9.75e1
variant carriers: 2

GenotypeQuality
all individuals: 34963
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 301
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 891
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1702
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 8449
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2909
bin: 7.75e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.516116316443798e-5
allele num: 65958
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6342
num of homozygotes: 0

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

East Asian
type: Population
allele count: 1
allele frequency: 1.168770453482936e-4
allele num: 8556
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10262
num of homozygotes: 0

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

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16134
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: 2.8e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 3.94e0

MQRankSum
type: SiteQuality
SIO_000300: -4.17e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 5.0e-4

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.12e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

FS
type: SiteQuality
SIO_000300: 1.837e0

QD
type: SiteQuality
SIO_000300: 1.587e1

ClippingRankSum
type: SiteQuality
SIO_000300: 1.6e-1

DP
type: SiteQuality
SIO_000300: 1.612784e6

GenotypeQuality
all individuals: 1709
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2927
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 706
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 8534
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 38
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 17
bin: 2.5e0
variant carriers: 0

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

GenotypeQuality
all individuals: 930
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 255
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1067
bin: 2.25e1
variant carriers: 0

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

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6362
num of homozygotes: 0

East Asian
type: Population
allele count: 1
allele frequency: 1.16767865483419e-4
allele num: 8564
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 6.19041723412158e-5
allele num: 16154
num of homozygotes: 0

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

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66024
num of homozygotes: 0

African
type: Population
allele count: 1
allele frequency: 9.737098344693281e-5
allele num: 10270
num of homozygotes: 0

QD
type: SiteQuality
SIO_000300: 1.186e1

ClippingRankSum
type: SiteQuality
SIO_000300: 4.06e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 7.0e-4

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.38e-1

VQSLOD
type: SiteQuality
SIO_000300: 6.42e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 5.3e-1

DP
type: SiteQuality
SIO_000300: 1.61765e6

MQRankSum
type: SiteQuality
SIO_000300: 1.09e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

FS
type: SiteQuality
SIO_000300: 2.347e0

GenotypeQuality
all individuals: 526
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 210
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2582
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 10
bin: 2.5e0
variant carriers: 0

GenotypeQuality
all individuals: 175
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 430
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 10
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 893
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 37410
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 710
bin: 8.75e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6414
num of homozygotes: 0

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

European (Non-Finnish)
type: Population
allele count: 4
allele frequency: 6.038465022191359e-5
allele num: 66242
num of homozygotes: 0

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

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10310
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11516
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16276
num of homozygotes: 0

QD
type: SiteQuality
SIO_000300: 1.409e1

ClippingRankSum
type: SiteQuality
SIO_000300: 9.4e-2

FS
type: SiteQuality
SIO_000300: 0.0e0

DP
type: SiteQuality
SIO_000300: 1.635256e6

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.6e-3

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.48e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -1.576e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

MQRankSum
type: SiteQuality
SIO_000300: 2.53e-1

VQSLOD
type: SiteQuality
SIO_000300: 5.39e0

GenotypeQuality
all individuals: 37410
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 175
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 526
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2582
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1712
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 210
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 893
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 710
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2924
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 793
bin: 2.25e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10310
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 6.144015728680265e-5
allele num: 16276
num of homozygotes: 0

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

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

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6414
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11516
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.50961625554784e-5
allele num: 66242
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 6.0e1

VQSLOD
type: SiteQuality
SIO_000300: 5.39e0

QD
type: SiteQuality
SIO_000300: 1.409e1

DP
type: SiteQuality
SIO_000300: 1.635256e6

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.48e-1

FS
type: SiteQuality
SIO_000300: 0.0e0

MQRankSum
type: SiteQuality
SIO_000300: 2.53e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 9.4e-2

BaseQRankSum
type: SiteQuality
SIO_000300: -1.576e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.6e-3

GenotypeQuality
all individuals: 765
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 26
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 499
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 16
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 2754
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 2934
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1714
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 893
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 162
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 177
bin: 4.75e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10320
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6416
num of homozygotes: 0

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

South Asian
type: Population
allele count: 1
allele frequency: 6.140243153628883e-5
allele num: 16286
num of homozygotes: 0

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

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

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11516
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: 1.08e0

FS
type: SiteQuality
SIO_000300: 2.684e0

BaseQRankSum
type: SiteQuality
SIO_000300: -1.751e0

DP
type: SiteQuality
SIO_000300: 1.636543e6

InbreedingCoeff
type: SiteQuality
SIO_000300: 8.0e-4

MQRankSum
type: SiteQuality
SIO_000300: 4.54e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 9.6e-2

ReadPosRankSum
type: SiteQuality
SIO_000300: 7.8e-1

QD
type: SiteQuality
SIO_000300: 1.161e1

MQ
type: SiteQuality
SIO_000300: 6.0e1

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

GenotypeQuality
all individuals: 2922
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 171
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 174
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 330
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2605
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 38057
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 706
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2751
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 1717
bin: 8.25e1
variant carriers: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11526
num of homozygotes: 0

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

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6448
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10328
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.507340749449821e-5
allele num: 66342
num of homozygotes: 0

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

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

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.0e-4

FS
type: SiteQuality
SIO_000300: 0.0e0

BaseQRankSum
type: SiteQuality
SIO_000300: -1.284e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 5.73e-1

VQSLOD
type: SiteQuality
SIO_000300: 3.25e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

MQRankSum
type: SiteQuality
SIO_000300: -1.63e-1

QD
type: SiteQuality
SIO_000300: 1.581e1

ClippingRankSum
type: SiteQuality
SIO_000300: -4.15e-1

DP
type: SiteQuality
SIO_000300: 1.643258e6

GenotypeQuality
all individuals: 2936
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 226
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 3
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 145
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 8811
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 80
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2619
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 430
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 707
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2754
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 38945
bin: 6.25e1
variant carriers: 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: 16412
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10352
num of homozygotes: 0

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

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.504030802550836e-5
allele num: 66488
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 904
num of homozygotes: 0

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

MQRankSum
type: SiteQuality
SIO_000300: 8.52e-1

VQSLOD
type: SiteQuality
SIO_000300: 6.95e-1

FS
type: SiteQuality
SIO_000300: 5.17e-1

DP
type: SiteQuality
SIO_000300: 1.652447e6

ClippingRankSum
type: SiteQuality
SIO_000300: -2.28e-1

QD
type: SiteQuality
SIO_000300: 1.383e1

BaseQRankSum
type: SiteQuality
SIO_000300: 3.09e0

MQ
type: SiteQuality
SIO_000300: 5.932e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.0e-4

ReadPosRankSum
type: SiteQuality
SIO_000300: 2.35e-1

GenotypeQuality
all individuals: 2623
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 337
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 74
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 153
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2753
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 39142
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 68
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 705
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 105
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 177
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 8827
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 116
bin: 5.25e1
variant carriers: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16454
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 904
num of homozygotes: 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: 10366
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66518
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6526
num of homozygotes: 0

East Asian
type: Population
allele count: 1
allele frequency: 1.157943492357573e-4
allele num: 8636
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 5.913e1

MQRankSum
type: SiteQuality
SIO_000300: 5.600000000000001e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 5.999999999999999e-4

ReadPosRankSum
type: SiteQuality
SIO_000300: -4.77e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 2.92e0

QD
type: SiteQuality
SIO_000300: 1.385e1

VQSLOD
type: SiteQuality
SIO_000300: 1.11e-1

FS
type: SiteQuality
SIO_000300: 4.191e0

DP
type: SiteQuality
SIO_000300: 1.656371e6

ClippingRankSum
type: SiteQuality
SIO_000300: 1.24e-1

GenotypeQuality
all individuals: 1710
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 70
bin: 5.75e1
variant carriers: 0

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

GenotypeQuality
all individuals: 885
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2626
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 7
bin: 1.75e1
variant carriers: 0

GenotypeQuality
all individuals: 702
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 62
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 97
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2763
bin: 9.75e1
variant carriers: 14

GenotypeQuality
all individuals: 96
bin: 3.75e1
variant carriers: 0

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

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6548
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 2
allele frequency: 3.006162633398467e-5
allele num: 66530
num of homozygotes: 0

Latino
type: Population
allele count: 1
allele frequency: 8.656509695290859e-5
allele num: 11552
num of homozygotes: 0

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

African
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allele count: 11
allele frequency: 1.06054762822985e-3
allele num: 10372
num of homozygotes: 0

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

MQRankSum
type: SiteQuality
SIO_000300: -3.55e-1

BaseQRankSum
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SIO_000300: -2.539e0

QD
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SIO_000300: 1.303e1

VQSLOD
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SIO_000300: 1.99e0

ClippingRankSum
type: SiteQuality
SIO_000300: 1.97e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 3.0e-4

MQ
type: SiteQuality
SIO_000300: 5.978e1

FS
type: SiteQuality
SIO_000300: 2.46e0

DP
type: SiteQuality
SIO_000300: 1.659408e6

ReadPosRankSum
type: SiteQuality
SIO_000300: 4.23e-1

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 14

GenotypeQuality
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GenotypeQuality
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bin: 7.25e1
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GenotypeQuality
all individuals: 112
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variant carriers: 0

GenotypeQuality
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bin: 7.75e1
variant carriers: 0

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

European (Non-Finnish)
type: Population
allele count: 14
allele frequency: 2.103807892285036e-4
allele num: 66546
num of homozygotes: 0

European (Finnish)
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allele count: 0
allele frequency: 0.0e0
allele num: 6554
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8638
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: 10370
num of homozygotes: 0

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

BaseQRankSum
type: SiteQuality
SIO_000300: 2.21e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 7.0e-4

MQRankSum
type: SiteQuality
SIO_000300: 8.36e-1

VQSLOD
type: SiteQuality
SIO_000300: 2.03e0

QD
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SIO_000300: 1.252e1

DP
type: SiteQuality
SIO_000300: 1.660125e6

ReadPosRankSum
type: SiteQuality
SIO_000300: 4.47e-1

FS
type: SiteQuality
SIO_000300: 0.0e0

MQ
type: SiteQuality
SIO_000300: 5.985e1

ClippingRankSum
type: SiteQuality
SIO_000300: -7.96e-1

GenotypeQuality
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bin: 1.75e1
variant carriers: 0

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

GenotypeQuality
all individuals: 2939
bin: 7.75e1
variant carriers: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.502178158329578e-5
allele num: 66570
num of homozygotes: 0

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

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 908
num of homozygotes: 0

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

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

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6570
num of homozygotes: 0

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

FS
type: SiteQuality
SIO_000300: 9.472e0

DP
type: SiteQuality
SIO_000300: 1.661125e6

QD
type: SiteQuality
SIO_000300: 1.124e1

BaseQRankSum
type: SiteQuality
SIO_000300: -1.233e0

MQRankSum
type: SiteQuality
SIO_000300: 6.25e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 9.57e-1

MQ
type: SiteQuality
SIO_000300: 5.943e1

VQSLOD
type: SiteQuality
SIO_000300: -4.911e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: 2.0e-4

ClippingRankSum
type: SiteQuality
SIO_000300: -5.27e-1

GenotypeQuality
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variant carriers: 0

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

GenotypeQuality
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GenotypeQuality
all individuals: 81
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variant carriers: 0

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

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11552
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6576
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.502313562886846e-5
allele num: 66564
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16498
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: 1
allele frequency: 9.63948332369385e-5
allele num: 10374
num of homozygotes: 0

DP
type: SiteQuality
SIO_000300: 1.66174e6

BaseQRankSum
type: SiteQuality
SIO_000300: 2.9e-2

VQSLOD
type: SiteQuality
SIO_000300: 1.43e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

QD
type: SiteQuality
SIO_000300: 1.322e1

FS
type: SiteQuality
SIO_000300: 6.454e0

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.0e-4

MQRankSum
type: SiteQuality
SIO_000300: 7.78e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 5.610000000000001e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 6.0e-3

GenotypeQuality
all individuals: 47
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 97
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variant carriers: 0

GenotypeQuality
all individuals: 35
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 3

GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
all individuals: 702
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variant carriers: 0

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

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

African
type: Population
allele count: 1
allele frequency: 9.63948332369385e-5
allele num: 10374
num of homozygotes: 0

Latino
type: Population
allele count: 1
allele frequency: 8.655011251514626e-5
allele num: 11554
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.502223290469895e-5
allele num: 66568
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6578
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 908
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 5.917e1

MQRankSum
type: SiteQuality
SIO_000300: 5.03e-1

VQSLOD
type: SiteQuality
SIO_000300: 1.73e0

QD
type: SiteQuality
SIO_000300: 1.276e1

DP
type: SiteQuality
SIO_000300: 1.662224e6

ReadPosRankSum
type: SiteQuality
SIO_000300: 7.01e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -3.0e-4

FS
type: SiteQuality
SIO_000300: 1.175e0

ClippingRankSum
type: SiteQuality
SIO_000300: 4.6e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 2.29e0

GenotypeQuality
all individuals: 1
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variant carriers: 0

GenotypeQuality
all individuals: 882
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 1704
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GenotypeQuality
all individuals: 2938
bin: 7.75e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6584
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: 1
allele frequency: 1.501997656883655e-5
allele num: 66578
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: 16502
num of homozygotes: 0

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

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10376
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: 7.46e-1

FS
type: SiteQuality
SIO_000300: 2.132e0

BaseQRankSum
type: SiteQuality
SIO_000300: 3.51e0

ClippingRankSum
type: SiteQuality
SIO_000300: -4.11e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -3.0e-4

ReadPosRankSum
type: SiteQuality
SIO_000300: 6.919999999999999e-1

VQSLOD
type: SiteQuality
SIO_000300: 1.08e0

DP
type: SiteQuality
SIO_000300: 1.662398e6

QD
type: SiteQuality
SIO_000300: 1.17e1

MQ
type: SiteQuality
SIO_000300: 5.985e1

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
all individuals: 39707
bin: 6.25e1
variant carriers: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11562
num of homozygotes: 0

European (Finnish)
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allele count: 0
allele frequency: 0.0e0
allele num: 6588
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16504
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.501726986033939e-5
allele num: 66590
num of homozygotes: 0

African
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allele count: 0
allele frequency: 0.0e0
allele num: 10376
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East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8638
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 908
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BaseQRankSum
type: SiteQuality
SIO_000300: 2.21e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 2.3e-2

VQSLOD
type: SiteQuality
SIO_000300: 9.06e-1

FS
type: SiteQuality
SIO_000300: 2.101e0

MQRankSum
type: SiteQuality
SIO_000300: 6.63e-1

ClippingRankSum
type: SiteQuality
SIO_000300: 1.81e-1

DP
type: SiteQuality
SIO_000300: 1.662614e6

QD
type: SiteQuality
SIO_000300: 1.332e1

InbreedingCoeff
type: SiteQuality
SIO_000300: -2.0e-4

MQ
type: SiteQuality
SIO_000300: 5.956e1

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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African
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allele count: 0
allele frequency: 0.0e0
allele num: 10390
num of homozygotes: 0

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

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6598
num of homozygotes: 0

Latino
type: Population
allele count: 5
allele frequency: 4.32152117545376e-4
allele num: 11570
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: 1
allele frequency: 1.501005673801447e-5
allele num: 66622
num of homozygotes: 0

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

MQ
type: SiteQuality
SIO_000300: 5.982e1

DP
type: SiteQuality
SIO_000300: 1.665404e6

FS
type: SiteQuality
SIO_000300: 5.49e-1

VQSLOD
type: SiteQuality
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InbreedingCoeff
type: SiteQuality
SIO_000300: 2.0e-4

ReadPosRankSum
type: SiteQuality
SIO_000300: 5.32e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -3.8e-1

QD
type: SiteQuality
SIO_000300: 1.014e1

MQRankSum
type: SiteQuality
SIO_000300: 4.33e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 4.37e-1

GenotypeQuality
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variant carriers: 0

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

African
type: Population
allele count: 0
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allele num: 10390
num of homozygotes: 0

East Asian
type: Population
allele count: 3
allele frequency: 3.472222222222222e-4
allele num: 8640
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11572
num of homozygotes: 0

European (Finnish)
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allele count: 0
allele frequency: 0.0e0
allele num: 6600
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Other
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South Asian
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allele count: 1
allele frequency: 6.056935190793458e-5
allele num: 16510
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European (Non-Finnish)
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allele count: 2
allele frequency: 3.001741009785676e-5
allele num: 66628
num of homozygotes: 0

QD
type: SiteQuality
SIO_000300: 1.136e1

ReadPosRankSum
type: SiteQuality
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FS
type: SiteQuality
SIO_000300: 0.0e0

VQSLOD
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BaseQRankSum
type: SiteQuality
SIO_000300: 8.3e-1

MQ
type: SiteQuality
SIO_000300: 5.957e1

InbreedingCoeff
type: SiteQuality
SIO_000300: -2.0e-4

MQRankSum
type: SiteQuality
SIO_000300: 4.58e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -9.419999999999999e-1

DP
type: SiteQuality
SIO_000300: 1.665516e6

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

South Asian
type: Population
allele count: 4
allele frequency: 2.422774076317383e-4
allele num: 16510
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6600
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11572
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66638
num of homozygotes: 0

African
type: Population
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East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8640
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Other
type: Population
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ClippingRankSum
type: SiteQuality
SIO_000300: 1.4e-1

DP
type: SiteQuality
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BaseQRankSum
type: SiteQuality
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FS
type: SiteQuality
SIO_000300: 4.96e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 3.48e-1

VQSLOD
type: SiteQuality
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MQRankSum
type: SiteQuality
SIO_000300: 6.16e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

QD
type: SiteQuality
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InbreedingCoeff
type: SiteQuality
SIO_000300: -2.0e-4

GenotypeQuality
all individuals: 15
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2749
bin: 9.75e1
variant carriers: 2

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

GenotypeQuality
all individuals: 1
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 8887
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 39905
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 39
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2933
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1704
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 700
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 22
bin: 4.75e1
variant carriers: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11572
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: 1
allele frequency: 6.056935190793458e-5
allele num: 16510
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6600
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10394
num of homozygotes: 0

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

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.500690317546071e-5
allele num: 66636
num of homozygotes: 0

QD
type: SiteQuality
SIO_000300: 1.1e1

DP
type: SiteQuality
SIO_000300: 1.665553e6

FS
type: SiteQuality
SIO_000300: 1.562e0

ClippingRankSum
type: SiteQuality
SIO_000300: -6.42e-1

BaseQRankSum
type: SiteQuality
SIO_000300: -2.18e-1

VQSLOD
type: SiteQuality
SIO_000300: 9.13e-1

MQRankSum
type: SiteQuality
SIO_000300: -3.16e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -2.0e-4

MQ
type: SiteQuality
SIO_000300: 6.0e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 5.91e-1

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

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

GenotypeQuality
all individuals: 16
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 16
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1704
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 700
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 37
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2931
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 22
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 8896
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 875
bin: 9.25e1
variant carriers: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 908
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11572
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6602
num of homozygotes: 0

East Asian
type: Population
allele count: 4
allele frequency: 4.62962962962963e-4
allele num: 8640
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 2
allele frequency: 3.001290554938624e-5
allele num: 66638
num of homozygotes: 0

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

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10394
num of homozygotes: 0

ReadPosRankSum
type: SiteQuality
SIO_000300: 5.78e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -5.05e-1

VQSLOD
type: SiteQuality
SIO_000300: 8.4e-1

FS
type: SiteQuality
SIO_000300: 5.48e-1

DP
type: SiteQuality
SIO_000300: 1.665975e6

MQRankSum
type: SiteQuality
SIO_000300: 5.96e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -2.0e-4

BaseQRankSum
type: SiteQuality
SIO_000300: 1.33e-1

QD
type: SiteQuality
SIO_000300: 1.028e1

MQ
type: SiteQuality
SIO_000300: 5.948e1

GenotypeQuality
all individuals: 11
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 22
bin: 2.75e1
variant carriers: 0

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

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

GenotypeQuality
all individuals: 31
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1704
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 877
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2932
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2750
bin: 9.75e1
variant carriers: 3

GenotypeQuality
all individuals: 1
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 40014
bin: 6.25e1
variant carriers: 0

African
type: Population
allele count: 3
allele frequency: 2.884060757546626e-4
allele num: 10402
num of homozygotes: 0

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

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66670
num of homozygotes: 0

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

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

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

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 908
num of homozygotes: 0

MQRankSum
type: SiteQuality
SIO_000300: -1.95e-1

FS
type: SiteQuality
SIO_000300: 1.467e0

DP
type: SiteQuality
SIO_000300: 1.666502e6

BaseQRankSum
type: SiteQuality
SIO_000300: 4.46e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.0e-4

ReadPosRankSum
type: SiteQuality
SIO_000300: -1.43e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

ClippingRankSum
type: SiteQuality
SIO_000300: 1.6e-1

VQSLOD
type: SiteQuality
SIO_000300: 4.83e-1

QD
type: SiteQuality
SIO_000300: 1.832e1

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

GenotypeQuality
all individuals: 20
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 1702
bin: 8.25e1
variant carriers: 0

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

GenotypeQuality
all individuals: 2933
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 30
bin: 3.25e1
variant carriers: 0

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

GenotypeQuality
all individuals: 2747
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 12
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 8890
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 12
bin: 5.75e1
variant carriers: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6602
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: 8642
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10400
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.499925003749813e-5
allele num: 66670
num of homozygotes: 0

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

MQ
type: SiteQuality
SIO_000300: 5.961e1

FS
type: SiteQuality
SIO_000300: 1.0831e1

BaseQRankSum
type: SiteQuality
SIO_000300: 1.56e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 2.47e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.0e-4

MQRankSum
type: SiteQuality
SIO_000300: -1.28e-1

VQSLOD
type: SiteQuality
SIO_000300: -1.82e0

DP
type: SiteQuality
SIO_000300: 1.666518e6

ClippingRankSum
type: SiteQuality
SIO_000300: -2.279e0

QD
type: SiteQuality
SIO_000300: 1.549e1

GenotypeQuality
all individuals: 8891
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2647
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2933
bin: 7.75e1
variant carriers: 0

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

GenotypeQuality
all individuals: 28
bin: 3.25e1
variant carriers: 0

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

GenotypeQuality
all individuals: 71
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 878
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 40034
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1702
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 15
bin: 5.25e1
variant carriers: 0

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

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.499880009599232e-5
allele num: 66672
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10402
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

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

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

BaseQRankSum
type: SiteQuality
SIO_000300: -3.333e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 2.95e-1

MQRankSum
type: SiteQuality
SIO_000300: 4.49e-1

FS
type: SiteQuality
SIO_000300: 2.527e0

VQSLOD
type: SiteQuality
SIO_000300: 5.24e-1

DP
type: SiteQuality
SIO_000300: 1.666481e6

ClippingRankSum
type: SiteQuality
SIO_000300: -5.86e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.0e-4

QD
type: SiteQuality
SIO_000300: 9.16e0