4-109084768-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109084768
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109084768
    reference: chr 4
allele count: 1
allele frequency: 8.239132584121543e-6
allele num: 121372
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.251C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.370C>T
  hgvsp: ENSP00000369284.2:p.Pro124Ser
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.166C>T
  hgvsp: ENSP00000427459.1:p.Pro56Ser
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.370C>T
  hgvsp: ENSP00000265165.1:p.Pro124Ser
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.249C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.189C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.197C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.166C>T
  hgvsp: ENSP00000427365.1:p.Pro56Ser
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.166C>T
  hgvsp: ENSP00000422801.1:p.Pro56Ser
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.370C>T
  hgvsp: ENSP00000422334.1:p.Pro124Ser
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.296C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.166C>T
  hgvsp: ENSP00000422840.1:p.Pro56Ser
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.370C>T
  hgvsp: ENSP00000406176.2:p.Pro124Ser
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 1217
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4037
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 413
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 908
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 277
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26010
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8483
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14930
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1857
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 164
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Pro124Ser
num of homozygotes: 0
population: African
population: South Asian
population: Other
population: Latino
population: European (Non-Finnish)
population: European (Finnish)
population: East Asian
reference allele: G
site quality: VQSLOD
site quality: DP
site quality: QD
site quality: BaseQRankSum
site quality: FS
site quality: InbreedingCoeff
site quality: MQ
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: ClippingRankSum

4-109084771-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109084771
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109084771
    reference: chr 4
allele count: 1
allele frequency: 8.239404126293587e-6
allele num: 121368
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.163G>A
  hgvsp: ENSP00000427365.1:p.Asp55Asn
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.367G>A
  hgvsp: ENSP00000406176.2:p.Asp123Asn
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.367G>A
  hgvsp: ENSP00000265165.1:p.Asp123Asn
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.186G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.293G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.163G>A
  hgvsp: ENSP00000422801.1:p.Asp55Asn
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.246G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.163G>A
  hgvsp: ENSP00000427459.1:p.Asp55Asn
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.367G>A
  hgvsp: ENSP00000369284.2:p.Asp123Asn
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.367G>A
  hgvsp: ENSP00000422334.1:p.Asp123Asn
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.194G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.163G>A
  hgvsp: ENSP00000422840.1:p.Asp55Asn
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.248G>A
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 413
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 574
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 496
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 908
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 22
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 132
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 676
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 277
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14930
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1857
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26008
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8485
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Asp123Asn
num of homozygotes: 0
population: African
population: European (Finnish)
population: Latino
population: European (Non-Finnish)
population: South Asian
population: East Asian
population: Other
reference allele: C
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: QD
site quality: MQRankSum
site quality: MQ
site quality: DP
site quality: FS
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: VQSLOD

4-109084772-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109084772
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109084772
    reference: chr 4
allele count: 1
allele frequency: 8.239268352970255e-6
allele num: 121370
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.162C>T
  hgvsp: ENST00000510624.1:c.162C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.247C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.366C>T
  hgvsp: ENST00000438313.2:c.366C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.366C>T
  hgvsp: ENST00000379951.2:c.366C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.292C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.162C>T
  hgvsp: ENST00000512172.1:c.162C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.162C>T
  hgvsp: ENST00000504950.1:c.162C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.366C>T
  hgvsp: ENST00000265165.1:c.366C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.366C>T
  hgvsp: ENST00000506680.1:c.366C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.185C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.162C>T
  hgvsp: ENST00000515500.1:c.162C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.245C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.193C>T
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 133
  bin: 9.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 197
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 413
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8486
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26009
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 277
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 164
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 573
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1219
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4036
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14929
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 21
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Asn122Asn
num of homozygotes: 0
population: East Asian
population: African
population: European (Non-Finnish)
population: European (Finnish)
population: Latino
population: Other
population: South Asian
reference allele: G
site quality: ClippingRankSum
site quality: FS
site quality: MQ
site quality: ReadPosRankSum
site quality: DP
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: QD
site quality: MQRankSum

4-109084787-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109084787
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109084787
    reference: chr 4
allele count: 12
allele frequency: 9.886796183696674e-5
allele num: 121374
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.147G>A
  hgvsp: ENSP00000427365.1:p.Met49Ile
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.170G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.147G>A
  hgvsp: ENSP00000422801.1:p.Met49Ile
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.351G>A
  hgvsp: ENSP00000406176.2:p.Met117Ile
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.351G>A
  hgvsp: ENSP00000422334.1:p.Met117Ile
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.351G>A
  hgvsp: ENSP00000265165.1:p.Met117Ile
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.351G>A
  hgvsp: ENSP00000369284.2:p.Met117Ile
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.147G>A
  hgvsp: ENSP00000422840.1:p.Met49Ile
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.277G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.232G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.178G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.147G>A
  hgvsp: ENSP00000427459.1:p.Met49Ile
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.230G>A
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 413
  bin: 6.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 494
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 575
  bin: 9.75e1
  variant carriers: 10
genotype depth: GenotypeDepth
  all individuals: 165
  bin: 8.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 276
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4034
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8485
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 676
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 17
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1858
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26008
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 907
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Met117Ile
num of homozygotes: 0
population: African
population: Latino
population: European (Finnish)
population: East Asian
population: South Asian
population: European (Non-Finnish)
population: Other
reference allele: C
site quality: InbreedingCoeff
site quality: QD
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: ClippingRankSum
site quality: VQSLOD
site quality: DP
site quality: FS
site quality: MQ
site quality: BaseQRankSum

4-109084795-T-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109084795
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109084795
    reference: chr 4
allele count: 5
allele frequency: 4.119905736556747e-5
allele num: 121362
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.139A>C
  hgvsp: ENSP00000422801.1:p.Ile47Leu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.269A>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.139A>C
  hgvsp: ENSP00000427365.1:p.Ile47Leu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.343A>C
  hgvsp: ENSP00000406176.2:p.Ile115Leu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.139A>C
  hgvsp: ENSP00000427459.1:p.Ile47Leu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.162A>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.343A>C
  hgvsp: ENSP00000265165.1:p.Ile115Leu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.343A>C
  hgvsp: ENSP00000369284.2:p.Ile115Leu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.139A>C
  hgvsp: ENSP00000422840.1:p.Ile47Leu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.170A>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.222A>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.343A>C
  hgvsp: ENSP00000422334.1:p.Ile115Leu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.224A>C
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 132
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 905
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1218
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8484
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14940
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26010
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 494
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 303
  bin: 7.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 412
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4035
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1856
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Ile115Leu
num of homozygotes: 0
population: Latino
population: European (Non-Finnish)
population: African
population: East Asian
population: South Asian
population: European (Finnish)
population: Other
reference allele: T
site quality: MQRankSum
site quality: QD
site quality: BaseQRankSum
site quality: MQ
site quality: ReadPosRankSum
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: ClippingRankSum
site quality: FS
site quality: DP

4-109084801-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109084801
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109084801
    reference: chr 4
allele count: 3
allele frequency: 2.47255464345762e-5
allele num: 121332
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.164G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.216G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.337G>A
  hgvsp: ENSP00000422334.1:p.Gly113Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.337G>A
  hgvsp: ENSP00000369284.2:p.Gly113Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.133G>A
  hgvsp: ENSP00000422801.1:p.Gly45Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.337G>A
  hgvsp: ENSP00000406176.2:p.Gly113Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.133G>A
  hgvsp: ENSP00000427365.1:p.Gly45Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.337G>A
  hgvsp: ENSP00000265165.1:p.Gly113Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.133G>A
  hgvsp: ENSP00000422840.1:p.Gly45Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.133G>A
  hgvsp: ENSP00000427459.1:p.Gly45Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.218G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.156G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.263G>A
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 412
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8476
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1216
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 193
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 164
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 276
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 675
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4034
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 493
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1860
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Gly113Arg
num of homozygotes: 0
population: East Asian
population: Other
population: African
population: South Asian
population: Latino
population: European (Finnish)
population: European (Non-Finnish)
reference allele: C
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: FS
site quality: BaseQRankSum
site quality: QD
site quality: VQSLOD
site quality: DP
site quality: InbreedingCoeff
site quality: MQ
site quality: ClippingRankSum

4-109084802-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109084802
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109084802
    reference: chr 4
allele count: 1
allele frequency: 8.241984669908513e-6
allele num: 121330
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.132C>T
  hgvsp: ENST00000510624.1:c.132C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.336C>T
  hgvsp: ENST00000265165.1:c.336C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.163C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.217C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.132C>T
  hgvsp: ENST00000515500.1:c.132C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.132C>T
  hgvsp: ENST00000504950.1:c.132C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.336C>T
  hgvsp: ENST00000438313.2:c.336C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.336C>T
  hgvsp: ENST00000379951.2:c.336C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.336C>T
  hgvsp: ENST00000506680.1:c.336C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.155C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.215C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.262C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.132C>T
  hgvsp: ENST00000512172.1:c.132C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 14930
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4032
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26013
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 163
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 276
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 192
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 564
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 31
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 412
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 675
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1218
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 906
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Ser112Ser
num of homozygotes: 0
population: European (Finnish)
population: East Asian
population: Latino
population: South Asian
population: European (Non-Finnish)
population: African
population: Other
reference allele: G
site quality: ReadPosRankSum
site quality: VQSLOD
site quality: DP
site quality: ClippingRankSum
site quality: MQRankSum
site quality: MQ
site quality: FS
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: QD

4-109084811-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109084811
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109084811
    reference: chr 4
allele count: 256
allele frequency: 2.110295936031654e-3
allele num: 121310
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.253G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.123G>A
  hgvsp: ENST00000504950.1:c.123G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.123G>A
  hgvsp: ENST00000510624.1:c.123G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.206G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.327G>A
  hgvsp: ENST00000379951.2:c.327G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.154G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.327G>A
  hgvsp: ENST00000265165.1:c.327G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.327G>A
  hgvsp: ENST00000506680.1:c.327G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.123G>A
  hgvsp: ENST00000515500.1:c.123G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.123G>A
  hgvsp: ENST00000512172.1:c.123G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.327G>A
  hgvsp: ENST00000438313.2:c.327G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.208G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.146G>A
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 4024
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 673
  bin: 5.75e1
  variant carriers: 17
genotype depth: GenotypeDepth
  all individuals: 26019
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 491
  bin: 6.25e1
  variant carriers: 16
genotype depth: GenotypeDepth
  all individuals: 303
  bin: 7.25e1
  variant carriers: 17
genotype depth: GenotypeDepth
  all individuals: 193
  bin: 8.25e1
  variant carriers: 23
genotype depth: GenotypeDepth
  all individuals: 163
  bin: 8.75e1
  variant carriers: 17
genotype depth: GenotypeDepth
  all individuals: 36
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 133
  bin: 9.25e1
  variant carriers: 16
genotype depth: GenotypeDepth
  all individuals: 14920
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 8482
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1848
  bin: 4.25e1
  variant carriers: 6
genotype quality: GenotypeQuality
hgvs: p.Ser109Ser
num of homozygotes: 3
population: African
population: Latino
population: European (Finnish)
population: European (Non-Finnish)
population: East Asian
population: Other
population: South Asian
reference allele: C
site quality: VQSLOD
site quality: BaseQRankSum
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: DP
site quality: InbreedingCoeff
site quality: MQ
site quality: FS
site quality: ClippingRankSum
site quality: QD

4-109084812-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109084812
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109084812
    reference: chr 4
allele count: 1
allele frequency: 8.243207596940122e-6
allele num: 121312
alternate allele: A
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.326C>T
  hgvsp: ENSP00000265165.1:p.Ser109Leu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.122C>T
  hgvsp: ENSP00000427459.1:p.Ser41Leu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.326C>T
  hgvsp: ENSP00000406176.2:p.Ser109Leu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.326C>T
  hgvsp: ENSP00000369284.2:p.Ser109Leu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.252C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.122C>T
  hgvsp: ENSP00000422801.1:p.Ser41Leu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.207C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.153C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.145C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.122C>T
  hgvsp: ENSP00000422840.1:p.Ser41Leu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.326C>T
  hgvsp: ENSP00000422334.1:p.Ser109Leu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.122C>T
  hgvsp: ENSP00000427365.1:p.Ser41Leu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.205C>T
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 8509
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1200
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14983
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 496
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 263
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 289
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26112
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 119
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 146
  bin: 8.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 36
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 27
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 171
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Ser109Leu
num of homozygotes: 0
population: European (Non-Finnish)
population: Other
population: South Asian
population: East Asian
population: European (Finnish)
population: African
population: Latino
reference allele: G
site quality: FS
site quality: ClippingRankSum
site quality: MQRankSum
site quality: MQ
site quality: QD
site quality: VQSLOD
site quality: BaseQRankSum
site quality: DP
site quality: ReadPosRankSum
site quality: InbreedingCoeff

4-109084815-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109084815
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109084815
    reference: chr 4
allele count: 1
allele frequency: 8.243071698237632e-6
allele num: 121314
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.202A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.119A>G
  hgvsp: ENSP00000422801.1:p.Tyr40Cys
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.119A>G
  hgvsp: ENSP00000422840.1:p.Tyr40Cys
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.323A>G
  hgvsp: ENSP00000369284.2:p.Tyr108Cys
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.150A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.323A>G
  hgvsp: ENSP00000406176.2:p.Tyr108Cys
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.119A>G
  hgvsp: ENSP00000427459.1:p.Tyr40Cys
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.323A>G
  hgvsp: ENSP00000422334.1:p.Tyr108Cys
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.142A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.323A>G
  hgvsp: ENSP00000265165.1:p.Tyr108Cys
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.119A>G
  hgvsp: ENSP00000427365.1:p.Tyr40Cys
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.204A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.249A>G
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 8520
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14980
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 171
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 398
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 39
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 262
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 145
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 480
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26111
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4040
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 29
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 496
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Tyr108Cys
num of homozygotes: 0
population: East Asian
population: Other
population: European (Non-Finnish)
population: European (Finnish)
population: Latino
population: African
population: South Asian
reference allele: T
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: ClippingRankSum
site quality: MQ
site quality: FS
site quality: QD
site quality: DP
site quality: MQRankSum
site quality: BaseQRankSum

4-109084817-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109084817
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109084817
    reference: chr 4
allele count: 1
allele frequency: 8.243615319934711e-6
allele num: 121306
alternate allele: A
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.321C>T
  hgvsp: ENST00000265165.1:c.321C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.117C>T
  hgvsp: ENST00000510624.1:c.117C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.321C>T
  hgvsp: ENST00000379951.2:c.321C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.321C>T
  hgvsp: ENST00000438313.2:c.321C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.117C>T
  hgvsp: ENST00000504950.1:c.117C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.117C>T
  hgvsp: ENST00000512172.1:c.117C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.202C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.117C>T
  hgvsp: ENST00000515500.1:c.117C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.140C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.247C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.321C>T
  hgvsp: ENST00000506680.1:c.321C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.148C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.200C>T
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 661
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 171
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 478
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 289
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8525
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 32
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 43
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1198
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 119
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14978
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26111
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 398
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Ser107Ser
num of homozygotes: 0
population: African
population: Latino
population: European (Non-Finnish)
population: Other
population: East Asian
population: European (Finnish)
population: South Asian
reference allele: G
site quality: BaseQRankSum
site quality: QD
site quality: ClippingRankSum
site quality: FS
site quality: MQ
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: DP

4-109084818-G-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109084818
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109084818
    reference: chr 4
allele count: 1
allele frequency: 8.243751236562685e-6
allele num: 121304
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.139C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.320C>G
  hgvsp: ENSP00000406176.2:p.Ser107Cys
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.199C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.116C>G
  hgvsp: ENSP00000422801.1:p.Ser39Cys
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.116C>G
  hgvsp: ENSP00000422840.1:p.Ser39Cys
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.320C>G
  hgvsp: ENSP00000369284.2:p.Ser107Cys
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.116C>G
  hgvsp: ENSP00000427459.1:p.Ser39Cys
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.201C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.147C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.320C>G
  hgvsp: ENSP00000422334.1:p.Ser107Cys
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.320C>G
  hgvsp: ENSP00000265165.1:p.Ser107Cys
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.116C>G
  hgvsp: ENSP00000427365.1:p.Ser39Cys
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.246C>G
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 4040
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 35
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 496
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26112
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 171
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 661
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1839
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 288
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 16
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8527
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1197
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 902
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 119
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Ser107Cys
num of homozygotes: 0
population: African
population: European (Finnish)
population: Latino
population: East Asian
population: European (Non-Finnish)
population: South Asian
population: Other
reference allele: G
site quality: FS
site quality: BaseQRankSum
site quality: MQRankSum
site quality: QD
site quality: MQ
site quality: ClippingRankSum
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: DP

4-109084820-G-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109084820
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109084820
    reference: chr 4
allele count: 1
allele frequency: 8.24334350012365e-6
allele num: 121310
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.114C>G
  hgvsp: ENST00000515500.1:c.114C>G(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.244C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.199C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.114C>G
  hgvsp: ENST00000512172.1:c.114C>G(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.318C>G
  hgvsp: ENST00000438313.2:c.318C>G(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.114C>G
  hgvsp: ENST00000510624.1:c.114C>G(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.114C>G
  hgvsp: ENST00000504950.1:c.114C>G(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.197C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.145C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.318C>G
  hgvsp: ENST00000379951.2:c.318C>G(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.318C>G
  hgvsp: ENST00000265165.1:c.318C>G(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.318C>G
  hgvsp: ENST00000506680.1:c.318C>G(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.137C>G
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 37
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 262
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4035
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8532
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 171
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 118
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 901
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 478
  bin: 6.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 47
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14970
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 496
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1199
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 398
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Pro106Pro
num of homozygotes: 0
population: European (Finnish)
population: European (Non-Finnish)
population: East Asian
population: South Asian
population: African
population: Latino
population: Other
reference allele: G
site quality: MQ
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: FS
site quality: QD
site quality: DP
site quality: MQRankSum
site quality: ClippingRankSum
site quality: VQSLOD

4-109084821-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109084821
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109084821
    reference: chr 4
allele count: 140
allele frequency: 1.154315490913888e-3
allele num: 121284
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.136C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.113C>T
  hgvsp: ENSP00000427365.1:p.Pro38Leu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.243C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.113C>T
  hgvsp: ENSP00000422801.1:p.Pro38Leu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.144C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.113C>T
  hgvsp: ENSP00000427459.1:p.Pro38Leu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.317C>T
  hgvsp: ENSP00000422334.1:p.Pro106Leu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.317C>T
  hgvsp: ENSP00000369284.2:p.Pro106Leu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.317C>T
  hgvsp: ENSP00000265165.1:p.Pro106Leu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.317C>T
  hgvsp: ENSP00000406176.2:p.Pro106Leu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.113C>T
  hgvsp: ENSP00000422840.1:p.Pro38Leu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.196C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.198C>T
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 8530
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 482
  bin: 6.25e1
  variant carriers: 13
genotype depth: GenotypeDepth
  all individuals: 4037
  bin: 3.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 21
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1194
  bin: 4.75e1
  variant carriers: 8
genotype depth: GenotypeDepth
  all individuals: 37
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 400
  bin: 6.75e1
  variant carriers: 16
genotype depth: GenotypeDepth
  all individuals: 285
  bin: 7.25e1
  variant carriers: 9
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1836
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 657
  bin: 5.75e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 118
  bin: 9.25e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 49
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 499
  bin: 9.75e1
  variant carriers: 22
genotype quality: GenotypeQuality
hgvs: p.Pro106Leu
num of homozygotes: 2
population: East Asian
population: South Asian
population: Latino
population: European (Non-Finnish)
population: Other
population: African
population: European (Finnish)
reference allele: G
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: DP
site quality: ReadPosRankSum
site quality: FS
site quality: VQSLOD
site quality: ClippingRankSum
site quality: MQ
site quality: MQRankSum
site quality: QD

4-109084826-CTTG-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109084826
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109084823
    reference: chr 4
allele count: 15
allele frequency: 1.236909375773068e-4
allele num: 121270
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.235_237delCAA
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: inframe_deletion
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.105_107delCAA
  hgvsp: ENSP00000422801.1:p.Asn35del
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.128_130delCAA
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: inframe_deletion
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.105_107delCAA
  hgvsp: ENSP00000422840.1:p.Asn35del
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: inframe_deletion
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.309_311delCAA
  hgvsp: ENSP00000369284.2:p.Asn103del
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: inframe_deletion
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.309_311delCAA
  hgvsp: ENSP00000406176.2:p.Asn103del
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: inframe_deletion
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.309_311delCAA
  hgvsp: ENSP00000265165.1:p.Asn103del
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: inframe_deletion
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.105_107delCAA
  hgvsp: ENSP00000427365.1:p.Asn35del
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.136_138delCAA
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: inframe_deletion
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.309_311delCAA
  hgvsp: ENSP00000422334.1:p.Asn103del
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: inframe_deletion
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.105_107delCAA
  hgvsp: ENSP00000427459.1:p.Asn35del
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.190_192delCAA
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.188_190delCAA
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: inframe deletion
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 277
  bin: 7.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 248
  bin: 7.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 892
  bin: 5.25e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 1829
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 15001
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1182
  bin: 4.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 477
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 26159
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 4044
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 155
  bin: 8.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 24
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 56
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 58
  bin: 7.5e0
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Asn103del
num of homozygotes: 0
population: South Asian
population: European (Finnish)
population: Other
population: European (Non-Finnish)
population: African
population: Latino
population: East Asian
reference allele: CTTG
site quality: QD
site quality: MQRankSum
site quality: BaseQRankSum
site quality: DP
site quality: InbreedingCoeff
site quality: FS
site quality: ClippingRankSum
site quality: MQ
site quality: VQSLOD
site quality: ReadPosRankSum

4-109084836-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109084836
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109084836
    reference: chr 4
allele count: 2
allele frequency: 1.649865535958819e-5
allele num: 121222
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.302T>C
  hgvsp: ENSP00000369284.2:p.Leu101Pro
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.302T>C
  hgvsp: ENSP00000265165.1:p.Leu101Pro
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.129T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.181T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.98T>C
  hgvsp: ENSP00000427459.1:p.Leu33Pro
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.302T>C
  hgvsp: ENSP00000422334.1:p.Leu101Pro
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.302T>C
  hgvsp: ENSP00000406176.2:p.Leu101Pro
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.121T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.98T>C
  hgvsp: ENSP00000422801.1:p.Leu33Pro
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.98T>C
  hgvsp: ENSP00000427365.1:p.Leu33Pro
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.98T>C
  hgvsp: ENSP00000422840.1:p.Leu33Pro
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.183T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.228T>C
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 14967
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 276
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 471
  bin: 6.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 8566
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 100
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1176
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 133
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1821
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 88
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4029
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 31
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 884
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 26139
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Leu101Pro
num of homozygotes: 0
population: European (Non-Finnish)
population: European (Finnish)
population: East Asian
population: Other
population: African
population: South Asian
population: Latino
reference allele: A
site quality: ReadPosRankSum
site quality: QD
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: MQRankSum
site quality: VQSLOD
site quality: FS
site quality: ClippingRankSum
site quality: DP
site quality: MQ

4-109084838-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109084838
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109084838
    reference: chr 4
allele count: 1
allele frequency: 8.252050634582693e-6
allele num: 121182
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.119C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.226C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.96C>T
  hgvsp: ENST00000510624.1:c.96C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.300C>T
  hgvsp: ENST00000265165.1:c.300C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.300C>T
  hgvsp: ENST00000379951.2:c.300C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.96C>T
  hgvsp: ENST00000512172.1:c.96C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.127C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.179C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.96C>T
  hgvsp: ENST00000515500.1:c.96C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.300C>T
  hgvsp: ENST00000438313.2:c.300C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.96C>T
  hgvsp: ENST00000504950.1:c.96C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.181C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.300C>T
  hgvsp: ENST00000506680.1:c.300C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 125
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14953
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 35
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 276
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8550
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1820
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 470
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 107
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 884
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 133
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 476
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 650
  bin: 5.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1176
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Gly100Gly
num of homozygotes: 0
population: East Asian
population: African
population: Latino
population: Other
population: South Asian
population: European (Non-Finnish)
population: European (Finnish)
reference allele: G
site quality: DP
site quality: ReadPosRankSum
site quality: FS
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: QD
site quality: MQRankSum
site quality: MQ

4-109084853-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109084853
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109084853
    reference: chr 4
allele count: 1
allele frequency: 8.269383434771103e-6
allele num: 120928
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.81G>A
  hgvsp: ENST00000504950.1:c.81G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.81G>A
  hgvsp: ENST00000510624.1:c.81G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.285G>A
  hgvsp: ENST00000379951.2:c.285G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.112G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.211G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.285G>A
  hgvsp: ENST00000265165.1:c.285G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.285G>A
  hgvsp: ENST00000438313.2:c.285G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.285G>A
  hgvsp: ENST00000506680.1:c.285G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.81G>A
  hgvsp: ENST00000512172.1:c.81G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.81G>A
  hgvsp: ENST00000515500.1:c.81G>A(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.166G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.164G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.104G>A
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 381
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 227
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 133
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 104
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14787
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8521
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 277
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 884
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3974
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1168
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 399
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 476
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1796
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Lys95Lys
num of homozygotes: 0
population: European (Non-Finnish)
population: European (Finnish)
population: Latino
population: East Asian
population: African
population: South Asian
population: Other
reference allele: C
site quality: FS
site quality: QD
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: MQ
site quality: BaseQRankSum
site quality: MQRankSum
site quality: DP
site quality: ReadPosRankSum

4-109084854-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109084854
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109084854
    reference: chr 4
allele count: 2
allele frequency: 1.654232353476369e-5
allele num: 120902
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.284A>G
  hgvsp: ENSP00000422334.1:p.Lys95Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.80A>G
  hgvsp: ENSP00000427459.1:p.Lys27Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.284A>G
  hgvsp: ENSP00000265165.1:p.Lys95Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.80A>G
  hgvsp: ENSP00000422840.1:p.Lys27Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.210A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.103A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.163A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.80A>G
  hgvsp: ENSP00000422801.1:p.Lys27Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.284A>G
  hgvsp: ENSP00000406176.2:p.Lys95Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.80A>G
  hgvsp: ENSP00000427365.1:p.Lys27Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.284A>G
  hgvsp: ENSP00000369284.2:p.Lys95Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.111A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.165A>G
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 423
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25941
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 111
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 476
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3963
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14767
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 133
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 646
  bin: 5.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 246
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 238
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 470
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 113
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 881
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Lys95Arg
num of homozygotes: 0
population: African
population: European (Non-Finnish)
population: East Asian
population: Other
population: Latino
population: European (Finnish)
population: South Asian
reference allele: T
site quality: DP
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: FS
site quality: MQ
site quality: QD

4-109084857-C-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109084857
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109084857
    reference: chr 4
allele count: 1
allele frequency: 8.275405494869249e-6
allele num: 120840
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.281G>C
  hgvsp: ENSP00000369284.2:p.Gly94Ala
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: missense_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.281G>C
  hgvsp: ENSP00000265165.1:p.Gly94Ala
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: splice_region_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.77G>C
  hgvsp: ENSP00000427459.1:p.Gly26Ala
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.207G>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.77G>C
  hgvsp: ENSP00000422840.1:p.Gly26Ala
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.100G>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: splice_region_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.281G>C
  hgvsp: ENSP00000422334.1:p.Gly94Ala
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.108G>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.281G>C
  hgvsp: ENSP00000406176.2:p.Gly94Ala
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.77G>C
  hgvsp: ENSP00000422801.1:p.Gly26Ala
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.77G>C
  hgvsp: ENSP00000427365.1:p.Gly26Ala
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.160G>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.162G>C
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 14
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 881
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 475
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1164
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 381
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 145
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8487
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14722
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 532
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1789
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 133
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Gly94Ala
num of homozygotes: 0
population: South Asian
population: Latino
population: Other
population: East Asian
population: European (Non-Finnish)
population: African
population: European (Finnish)
reference allele: C
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: FS
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: QD
site quality: MQ
site quality: DP

4-109084865-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109084865
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109084865
    reference: chr 4
allele count: 1
allele frequency: 8.29393713195654e-6
allele num: 120570
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.207-8C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.281-8C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.281-8C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.77-8C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.281-8C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.77-8C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.162-8C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.100-8C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.160-8C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.77-8C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.77-8C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.281-8C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.108-8C>T
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: splice region
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 3890
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 943
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 879
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1760
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 275
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 30
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 380
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 255
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25563
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 375
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 246
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 646
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 470
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: c.281-8C>T
num of homozygotes: 0
population: European (Non-Finnish)
population: European (Finnish)
population: African
population: East Asian
population: Latino
population: South Asian
population: Other
reference allele: G
site quality: FS
site quality: QD
site quality: DP
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: VQSLOD
site quality: BaseQRankSum
site quality: MQ

4-109084872-A-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109084872
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109084872
    reference: chr 4
allele count: 1
allele frequency: 8.314487162431821e-6
allele num: 120272
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.207-15T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.77-15T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.77-15T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.108-15T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.281-15T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.160-15T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.281-15T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.281-15T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.77-15T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.281-15T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.162-15T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.77-15T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.100-15T>A
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 470
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1704
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 646
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 474
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 133
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 154
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3855
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 35
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 25070
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 475
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14270
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 517
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 246
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8116
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1151
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 113
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
num of homozygotes: 0
population: Other
population: European (Finnish)
population: African
population: European (Non-Finnish)
population: East Asian
population: Latino
population: South Asian
reference allele: A
site quality: DP
site quality: MQ
site quality: QD
site quality: FS
site quality: BaseQRankSum
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: ClippingRankSum

4-109084877-A-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109084877
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109084877
    reference: chr 4
allele count: 1
allele frequency: 8.327504080476999e-6
allele num: 120084
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.160-20T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.100-20T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.77-20T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.281-20T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.281-20T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.77-20T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.207-20T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.77-20T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.108-20T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.281-20T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.281-20T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.77-20T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.162-20T>A
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 14033
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 154
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 24601
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 380
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 757
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 39
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1147
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 594
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7772
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1726
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 469
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 246
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2440
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 877
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 275
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 133
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
num of homozygotes: 0
population: European (Finnish)
population: East Asian
population: Other
population: Latino
population: South Asian
population: African
population: European (Non-Finnish)
reference allele: A
site quality: BaseQRankSum
site quality: MQRankSum
site quality: VQSLOD
site quality: QD
site quality: ClippingRankSum
site quality: FS
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: DP
site quality: MQ

4-109084897-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109084897
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109084897
    reference: chr 4
allele count: 7
allele frequency: 5.889578810978175e-5
allele num: 118854
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.77-40G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.77-40G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.281-40G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.281-40G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.108-40G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.162-40G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.100-40G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.281-40G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.207-40G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.77-40G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.281-40G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.160-40G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.77-40G>A
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 12078
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 246
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 15241
  bin: 2.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 275
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 113
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 380
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5514
  bin: 2.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 133
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6895
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 133
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 988
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 154
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3363
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9933
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 872
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 468
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
num of homozygotes: 0
population: South Asian
population: European (Finnish)
population: African
population: East Asian
population: Other
population: European (Non-Finnish)
population: Latino
reference allele: C
site quality: MQ
site quality: BaseQRankSum
site quality: MQRankSum
site quality: FS
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: QD
site quality: DP
site quality: VQSLOD
site quality: ClippingRankSum

4-109084899-CT-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109084899
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109084898
    reference: chr 4
allele count: 1
allele frequency: 8.437109783672505e-6
allele num: 118524
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.207-43delA
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.77-43delA
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.108-43delA
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.281-43delA
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.281-43delA
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.281-43delA
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.77-43delA
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.100-43delA
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.162-43delA
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.160-43delA
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.77-43delA
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.281-43delA
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.77-43delA
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: intron
filter: VQSRTrancheINDEL99.00to99.50
genotype depth: GenotypeDepth
  all individuals: 474
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 870
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 246
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13484
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13731
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9214
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1126
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 380
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1095
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3262
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6368
  bin: 2.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 275
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6882
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 136
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1648
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 468
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
num of homozygotes: 0
population: East Asian
population: Other
population: European (Finnish)
population: Latino
population: African
population: South Asian
population: European (Non-Finnish)
reference allele: CT
site quality: MQRankSum
site quality: VQSLOD
site quality: BaseQRankSum
site quality: QD
site quality: FS
site quality: MQ
site quality: InbreedingCoeff
site quality: ClippingRankSum
site quality: ReadPosRankSum
site quality: DP

4-109084901-T-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109084901
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109084901
    reference: chr 4
allele count: 1
allele frequency: 8.461382251404589e-6
allele num: 118184
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.77-44A>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.77-44A>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.281-44A>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.162-44A>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.100-44A>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.207-44A>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.281-44A>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.108-44A>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.281-44A>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.160-44A>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.281-44A>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.77-44A>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.77-44A>C
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 6840
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3096
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 468
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1125
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 133
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 153
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 864
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1274
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 640
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11678
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 8079
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 380
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 474
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9680
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 142
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 13422
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
num of homozygotes: 0
population: Latino
population: South Asian
population: East Asian
population: European (Non-Finnish)
population: African
population: Other
population: European (Finnish)
reference allele: T
site quality: MQRankSum
site quality: DP
site quality: InbreedingCoeff
site quality: FS
site quality: VQSLOD
site quality: QD
site quality: ClippingRankSum
site quality: BaseQRankSum
site quality: MQ
site quality: ReadPosRankSum

4-109086206-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086206
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086206
    reference: chr 4
allele count: 1
allele frequency: 8.245246615326264e-6
allele num: 121282
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.76+47C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.280+47C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.280+47C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.107+47C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.161+47C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.99+47C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.76+47C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.280+47C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.280+47C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.159+47C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.206+47C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.76+47C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.76+47C>T
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 2484
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 701
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4403
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 622
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1392
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7625
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 216
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 565
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8895
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2015
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5261
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 45
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7218
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5148
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8558
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
num of homozygotes: 0
population: South Asian
population: Other
population: Latino
population: European (Non-Finnish)
population: African
population: East Asian
population: European (Finnish)
reference allele: G
site quality: QD
site quality: MQ
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: BaseQRankSum
site quality: DP
site quality: FS
site quality: ReadPosRankSum
site quality: ClippingRankSum
site quality: VQSLOD

4-109086215-A-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086215
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086215
    reference: chr 4
allele count: 1
allele frequency: 8.243887157672586e-6
allele num: 121302
alternate allele: T
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.280+38T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.206+38T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.99+38T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.280+38T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.76+38T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.280+38T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.159+38T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.76+38T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.161+38T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.280+38T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.76+38T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.107+38T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.76+38T>A
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 1392
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8584
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8917
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2682
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 85
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5263
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 772
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4403
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 5230
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3284
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 48
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 128
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7854
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7228
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 701
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
num of homozygotes: 0
population: South Asian
population: European (Non-Finnish)
population: Latino
population: Other
population: African
population: East Asian
population: European (Finnish)
reference allele: A
site quality: QD
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: MQ
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: DP
site quality: ClippingRankSum
site quality: FS
site quality: BaseQRankSum

4-109086222-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086222
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086222
    reference: chr 4
allele count: 1
allele frequency: 8.242256400112095e-6
allele num: 121326
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.76+31T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.280+31T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.99+31T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.76+31T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.76+31T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.161+31T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.280+31T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.76+31T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.280+31T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.159+31T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.280+31T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.107+31T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.206+31T>C
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 5263
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2730
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5265
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4403
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 40
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7228
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 701
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 51
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 20
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7915
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8586
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1393
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 573
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8921
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 922
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
num of homozygotes: 0
population: Other
population: European (Finnish)
population: African
population: East Asian
population: Latino
population: European (Non-Finnish)
population: South Asian
reference allele: A
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: FS
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: DP
site quality: MQ
site quality: ClippingRankSum
site quality: QD
site quality: MQRankSum

4-109086224-A-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086224
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086224
    reference: chr 4
allele count: 37
allele frequency: 3.049634868041475e-4
allele num: 121326
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.280+29T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.159+29T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.76+29T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.76+29T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.206+29T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.280+29T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.280+29T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.280+29T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.107+29T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.76+29T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.99+29T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.161+29T>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.76+29T>A
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 2723
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 622
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5265
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 8920
  bin: 3.75e1
  variant carriers: 5
genotype depth: GenotypeDepth
  all individuals: 2019
  bin: 6.25e1
  variant carriers: 5
genotype depth: GenotypeDepth
  all individuals: 37
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8588
  bin: 4.25e1
  variant carriers: 5
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7232
  bin: 4.75e1
  variant carriers: 5
genotype depth: GenotypeDepth
  all individuals: 701
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7913
  bin: 3.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 573
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 19
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 923
  bin: 7.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 773
  bin: 7.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
num of homozygotes: 0
population: Other
population: European (Finnish)
population: South Asian
population: East Asian
population: African
population: Latino
population: European (Non-Finnish)
reference allele: A
site quality: ReadPosRankSum
site quality: FS
site quality: BaseQRankSum
site quality: DP
site quality: VQSLOD
site quality: QD
site quality: MQ
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: ClippingRankSum

4-109086236-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086236
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086236
    reference: chr 4
allele count: 1
allele frequency: 8.239675686364985e-6
allele num: 121364
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.76+17A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.76+17A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.280+17A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.280+17A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.99+17A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.280+17A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.159+17A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.206+17A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.76+17A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.280+17A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.107+17A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.76+17A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.161+17A>G
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 2721
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 922
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5267
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2015
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7233
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 622
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1394
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5298
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8595
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 10
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 573
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8929
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 772
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4402
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
num of homozygotes: 0
population: European (Finnish)
population: African
population: Latino
population: East Asian
population: Other
population: European (Non-Finnish)
population: South Asian
reference allele: T
site quality: FS
site quality: ClippingRankSum
site quality: DP
site quality: QD
site quality: MQRankSum
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: MQ
site quality: VQSLOD

4-109086243-G-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086243
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086243
    reference: chr 4
allele count: 1
allele frequency: 8.238182327451271e-6
allele num: 121386
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.159+10C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.76+10C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.280+10C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.99+10C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.280+10C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.206+10C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.280+10C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.107+10C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.280+10C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.76+10C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.76+10C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.76+10C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.161+10C>G
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 5310
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8592
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8932
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 622
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 573
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 702
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3287
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1394
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2015
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7935
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7233
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4403
  bin: 9.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
num of homozygotes: 0
population: African
population: East Asian
population: European (Non-Finnish)
population: European (Finnish)
population: Other
population: Latino
population: South Asian
reference allele: G
site quality: DP
site quality: FS
site quality: QD
site quality: VQSLOD
site quality: ClippingRankSum
site quality: MQ
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: BaseQRankSum

4-109086253-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086253
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086253
    reference: chr 4
allele count: 1
allele frequency: 8.237503706876667e-6
allele num: 121396
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.76G>A
  hgvsp: ENSP00000422840.1:p.Gly26Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.99G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.161G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.107G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.280G>A
  hgvsp: ENSP00000406176.2:p.Gly94Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: splice_region_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.280G>A
  hgvsp: ENSP00000422334.1:p.Gly94Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.76G>A
  hgvsp: ENSP00000422801.1:p.Gly26Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.159G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.280G>A
  hgvsp: ENSP00000369284.2:p.Gly94Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: splice_region_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.76G>A
  hgvsp: ENSP00000427459.1:p.Gly26Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: missense_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.280G>A
  hgvsp: ENSP00000265165.1:p.Gly94Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.206G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.76G>A
  hgvsp: ENSP00000427365.1:p.Gly26Arg
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 922
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7937
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 622
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5319
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 573
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2721
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8932
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8595
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7232
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Gly94Arg
num of homozygotes: 0
population: African
population: European (Finnish)
population: Latino
population: Other
population: European (Non-Finnish)
population: South Asian
population: East Asian
reference allele: C
site quality: FS
site quality: BaseQRankSum
site quality: DP
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: QD
site quality: MQ
site quality: ClippingRankSum
site quality: MQRankSum
site quality: InbreedingCoeff

4-109086254-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086254
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086254
    reference: chr 4
allele count: 176
allele frequency: 1.449752883031301e-3
allele num: 121400
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.279C>T
  hgvsp: ENST00000379951.2:c.279C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.160C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.75C>T
  hgvsp: ENST00000512172.1:c.75C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.75C>T
  hgvsp: ENST00000515500.1:c.75C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.279C>T
  hgvsp: ENST00000438313.2:c.279C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  consequence: splice_region_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.75C>T
  hgvsp: ENST00000504950.1:c.75C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.98C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.75C>T
  hgvsp: ENST00000510624.1:c.75C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  consequence: splice_region_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.279C>T
  hgvsp: ENST00000506680.1:c.279C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.279C>T
  hgvsp: ENST00000265165.1:c.279C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.205C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.158C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  consequence: splice_region_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.106C>T
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: splice region
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 8911
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 580
  bin: 9.25e1
  variant carriers: 10
genotype depth: GenotypeDepth
  all individuals: 3283
  bin: 5.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 4488
  bin: 9.75e1
  variant carriers: 118
genotype depth: GenotypeDepth
  all individuals: 8581
  bin: 4.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 774
  bin: 7.75e1
  variant carriers: 9
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5312
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: c.279C>T
num of homozygotes: 2
population: Latino
population: European (Non-Finnish)
population: African
population: South Asian
population: East Asian
population: European (Finnish)
population: Other
reference allele: G
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: MQ
site quality: ClippingRankSum
site quality: QD
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: DP
site quality: FS
site quality: BaseQRankSum

4-109086260-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086260
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086260
    reference: chr 4
allele count: 10
allele frequency: 8.236825198095645e-5
allele num: 121406
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.273C>T
  hgvsp: ENST00000379951.2:c.273C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.154C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.69C>T
  hgvsp: ENST00000512172.1:c.69C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.69C>T
  hgvsp: ENST00000510624.1:c.69C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.92C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.152C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.199C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.69C>T
  hgvsp: ENST00000515500.1:c.69C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.273C>T
  hgvsp: ENST00000506680.1:c.273C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.100C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.69C>T
  hgvsp: ENST00000504950.1:c.69C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.273C>T
  hgvsp: ENST00000438313.2:c.273C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.273C>T
  hgvsp: ENST00000265165.1:c.273C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 927
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2718
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8921
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7925
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 778
  bin: 7.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 7224
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5255
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 576
  bin: 9.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3290
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5323
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Pro91Pro
num of homozygotes: 0
population: African
population: European (Finnish)
population: Latino
population: East Asian
population: South Asian
population: European (Non-Finnish)
population: Other
reference allele: G
site quality: ReadPosRankSum
site quality: QD
site quality: BaseQRankSum
site quality: MQRankSum
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: FS
site quality: VQSLOD
site quality: MQ
site quality: DP

4-109086261-G-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086261
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086261
    reference: chr 4
allele count: 2
allele frequency: 1.647337901950448e-5
allele num: 121408
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.68C>A
  hgvsp: ENSP00000427365.1:p.Pro23His
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.272C>A
  hgvsp: ENSP00000422334.1:p.Pro91His
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.68C>A
  hgvsp: ENSP00000427459.1:p.Pro23His
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.68C>A
  hgvsp: ENSP00000422801.1:p.Pro23His
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.99C>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.68C>A
  hgvsp: ENSP00000422840.1:p.Pro23His
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.272C>A
  hgvsp: ENSP00000369284.2:p.Pro91His
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.272C>A
  hgvsp: ENSP00000406176.2:p.Pro91His
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.272C>A
  hgvsp: ENSP00000265165.1:p.Pro91His
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.91C>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.151C>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.153C>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.198C>A
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 575
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7228
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3291
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8598
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 927
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 626
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 704
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5255
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5324
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2715
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Pro91His
num of homozygotes: 0
population: Other
population: African
population: European (Finnish)
population: East Asian
population: Latino
population: European (Non-Finnish)
population: South Asian
reference allele: G
site quality: VQSLOD
site quality: ReadPosRankSum
site quality: ClippingRankSum
site quality: MQRankSum
site quality: FS
site quality: QD
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: DP
site quality: MQ

4-109086262-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086262
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086262
    reference: chr 4
allele count: 1
allele frequency: 8.236553825879253e-6
allele num: 121410
alternate allele: A
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.271C>T
  hgvsp: ENSP00000265165.1:p.Pro91Ser
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.90C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.67C>T
  hgvsp: ENSP00000427459.1:p.Pro23Ser
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.271C>T
  hgvsp: ENSP00000369284.2:p.Pro91Ser
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.197C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.98C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.271C>T
  hgvsp: ENSP00000406176.2:p.Pro91Ser
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.271C>T
  hgvsp: ENSP00000422334.1:p.Pro91Ser
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.67C>T
  hgvsp: ENSP00000427365.1:p.Pro23Ser
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.150C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.67C>T
  hgvsp: ENSP00000422801.1:p.Pro23Ser
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.67C>T
  hgvsp: ENSP00000422840.1:p.Pro23Ser
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.152C>T
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 3291
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 704
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 777
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8600
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8920
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2024
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 575
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2717
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5324
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7227
  bin: 4.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Pro91Ser
num of homozygotes: 0
population: Other
population: Latino
population: East Asian
population: African
population: South Asian
population: European (Finnish)
population: European (Non-Finnish)
reference allele: G
site quality: DP
site quality: ClippingRankSum
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: BaseQRankSum
site quality: MQRankSum
site quality: FS
site quality: MQ
site quality: QD

4-109086263-G-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086263
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086263
    reference: chr 4
allele count: 5
allele frequency: 4.118276912939626e-5
allele num: 121410
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.270C>A
  hgvsp: ENSP00000406176.2:p.His90Gln
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.149C>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.97C>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.66C>A
  hgvsp: ENSP00000422840.1:p.His22Gln
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.270C>A
  hgvsp: ENSP00000369284.2:p.His90Gln
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.151C>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.66C>A
  hgvsp: ENSP00000427365.1:p.His22Gln
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.270C>A
  hgvsp: ENSP00000422334.1:p.His90Gln
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.66C>A
  hgvsp: ENSP00000427459.1:p.His22Gln
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.270C>A
  hgvsp: ENSP00000265165.1:p.His90Gln
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.66C>A
  hgvsp: ENSP00000422801.1:p.His22Gln
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.196C>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.89C>A
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 5255
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 705
  bin: 8.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3291
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 777
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5324
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4407
  bin: 9.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 2024
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2715
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7227
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 928
  bin: 7.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
hgvs: p.His90Gln
num of homozygotes: 0
population: Latino
population: European (Non-Finnish)
population: South Asian
population: European (Finnish)
population: African
population: East Asian
population: Other
reference allele: G
site quality: ClippingRankSum
site quality: BaseQRankSum
site quality: FS
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: DP
site quality: MQ
site quality: VQSLOD
site quality: QD

4-109086268-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086268
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086268
    reference: chr 4
allele count: 1
allele frequency: 8.236553825879253e-6
allele num: 121410
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.84G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.265G>A
  hgvsp: ENSP00000369284.2:p.Glu89Lys
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.92G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.265G>A
  hgvsp: ENSP00000422334.1:p.Glu89Lys
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.61G>A
  hgvsp: ENSP00000422840.1:p.Glu21Lys
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.191G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.61G>A
  hgvsp: ENSP00000422801.1:p.Glu21Lys
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.61G>A
  hgvsp: ENSP00000427459.1:p.Glu21Lys
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.265G>A
  hgvsp: ENSP00000265165.1:p.Glu89Lys
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.265G>A
  hgvsp: ENSP00000406176.2:p.Glu89Lys
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.144G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.146G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.61G>A
  hgvsp: ENSP00000427365.1:p.Glu21Lys
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 704
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8600
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8922
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 777
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2024
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7929
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7228
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5255
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5324
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2716
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Glu89Lys
num of homozygotes: 0
population: European (Finnish)
population: Latino
population: African
population: Other
population: European (Non-Finnish)
population: South Asian
population: East Asian
reference allele: C
site quality: DP
site quality: QD
site quality: MQ
site quality: BaseQRankSum
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: ClippingRankSum
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: FS

4-109086269-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086269
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086269
    reference: chr 4
allele count: 27
allele frequency: 2.223869532987398e-4
allele num: 121410
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.190A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.264A>G
  hgvsp: ENST00000265165.1:c.264A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.145A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.60A>G
  hgvsp: ENST00000510624.1:c.60A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.60A>G
  hgvsp: ENST00000504950.1:c.60A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.264A>G
  hgvsp: ENST00000506680.1:c.264A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.264A>G
  hgvsp: ENST00000438313.2:c.264A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.143A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.264A>G
  hgvsp: ENST00000379951.2:c.264A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.60A>G
  hgvsp: ENST00000515500.1:c.60A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.60A>G
  hgvsp: ENST00000512172.1:c.60A>G(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.83A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.91A>G
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: synonymous
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 7925
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2715
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 704
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8918
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 577
  bin: 9.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 5321
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2024
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7221
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5254
  bin: 5.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8598
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Arg88Arg
num of homozygotes: 0
population: European (Finnish)
population: East Asian
population: South Asian
population: African
population: Latino
population: Other
population: European (Non-Finnish)
reference allele: T
site quality: MQRankSum
site quality: VQSLOD
site quality: QD
site quality: DP
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: FS
site quality: MQ
site quality: ReadPosRankSum
site quality: InbreedingCoeff

4-109086273-G-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086273
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086273
    reference: chr 4
allele count: 1
allele frequency: 8.236418146476461e-6
allele num: 121412
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.139C>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.141C>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.79C>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.56C>A
  hgvsp: ENSP00000427459.1:p.Ala19Asp
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.56C>A
  hgvsp: ENSP00000422801.1:p.Ala19Asp
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.260C>A
  hgvsp: ENSP00000406176.2:p.Ala87Asp
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.260C>A
  hgvsp: ENSP00000369284.2:p.Ala87Asp
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.260C>A
  hgvsp: ENSP00000422334.1:p.Ala87Asp
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.56C>A
  hgvsp: ENSP00000422840.1:p.Ala19Asp
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.87C>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.186C>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.260C>A
  hgvsp: ENSP00000265165.1:p.Ala87Asp
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.56C>A
  hgvsp: ENSP00000427365.1:p.Ala19Asp
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 777
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2713
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2024
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5257
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 576
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8920
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1398
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 928
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7931
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5324
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Ala87Asp
num of homozygotes: 0
population: European (Finnish)
population: East Asian
population: South Asian
population: Latino
population: European (Non-Finnish)
population: African
population: Other
reference allele: G
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: DP
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: FS
site quality: QD
site quality: MQRankSum
site quality: VQSLOD
site quality: MQ

4-109086274-C-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086274
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086274
    reference: chr 4
allele count: 1
allele frequency: 8.236418146476461e-6
allele num: 121412
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.138G>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.55G>C
  hgvsp: ENSP00000422840.1:p.Ala19Pro
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.259G>C
  hgvsp: ENSP00000422334.1:p.Ala87Pro
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.140G>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.55G>C
  hgvsp: ENSP00000427459.1:p.Ala19Pro
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.78G>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.55G>C
  hgvsp: ENSP00000427365.1:p.Ala19Pro
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.259G>C
  hgvsp: ENSP00000406176.2:p.Ala87Pro
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.185G>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.259G>C
  hgvsp: ENSP00000369284.2:p.Ala87Pro
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.86G>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.259G>C
  hgvsp: ENSP00000265165.1:p.Ala87Pro
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.55G>C
  hgvsp: ENSP00000422801.1:p.Ala19Pro
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 3293
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5257
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5325
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2025
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8920
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4406
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 7930
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2713
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1398
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 626
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Ala87Pro
num of homozygotes: 0
population: Other
population: South Asian
population: Latino
population: African
population: European (Finnish)
population: European (Non-Finnish)
population: East Asian
reference allele: C
site quality: QD
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: MQRankSum
site quality: BaseQRankSum
site quality: FS
site quality: ClippingRankSum
site quality: DP
site quality: MQ

4-109086280-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086280
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086280
    reference: chr 4
allele count: 1018
allele frequency: 8.384673673113036e-3
allele num: 121412
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.80G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.134G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.253G>A
  hgvsp: ENSP00000369284.2:p.Asp85Asn
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.49G>A
  hgvsp: ENSP00000427365.1:p.Asp17Asn
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.253G>A
  hgvsp: ENSP00000406176.2:p.Asp85Asn
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.72G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.49G>A
  hgvsp: ENSP00000422801.1:p.Asp17Asn
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.253G>A
  hgvsp: ENSP00000265165.1:p.Asp85Asn
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.179G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.49G>A
  hgvsp: ENSP00000427459.1:p.Asp17Asn
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.253G>A
  hgvsp: ENSP00000422334.1:p.Asp85Asn
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.132G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.49G>A
  hgvsp: ENSP00000422840.1:p.Asp17Asn
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 738
  bin: 8.25e1
  variant carriers: 40
genotype depth: GenotypeDepth
  all individuals: 947
  bin: 7.25e1
  variant carriers: 32
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5236
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5066
  bin: 9.75e1
  variant carriers: 727
genotype depth: GenotypeDepth
  all individuals: 7127
  bin: 4.75e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 3265
  bin: 5.75e1
  variant carriers: 13
genotype depth: GenotypeDepth
  all individuals: 7791
  bin: 3.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2620
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5184
  bin: 5.25e1
  variant carriers: 7
genotype depth: GenotypeDepth
  all individuals: 8765
  bin: 3.75e1
  variant carriers: 4
genotype quality: GenotypeQuality
hgvs: p.Asp85Asn
num of homozygotes: 6
population: East Asian
population: Latino
population: African
population: Other
population: European (Non-Finnish)
population: European (Finnish)
population: South Asian
reference allele: C
site quality: ClippingRankSum
site quality: FS
site quality: MQRankSum
site quality: MQ
site quality: BaseQRankSum
site quality: QD
site quality: DP
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: ReadPosRankSum

4-109086284-G-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086284
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086284
    reference: chr 4
allele count: 1
allele frequency: 8.236418146476461e-6
allele num: 121412
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.45C>T
  hgvsp: ENST00000504950.1:c.45C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.249C>T
  hgvsp: ENST00000265165.1:c.249C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.249C>T
  hgvsp: ENST00000506680.1:c.249C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.45C>T
  hgvsp: ENST00000515500.1:c.45C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.68C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.175C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.249C>T
  hgvsp: ENST00000438313.2:c.249C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.76C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.128C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.45C>T
  hgvsp: ENST00000512172.1:c.45C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.130C>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.249C>T
  hgvsp: ENST00000379951.2:c.249C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: synonymous_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.45C>T
  hgvsp: ENST00000510624.1:c.45C>T(p.%3D)
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: synonymous
filter: VQSRTrancheSNP99.60to99.80
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7897
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8611
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1411
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 783
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5286
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5307
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2044
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8908
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 928
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 708
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Tyr83Tyr
num of homozygotes: 0
population: East Asian
population: African
population: European (Finnish)
population: European (Non-Finnish)
population: Latino
population: South Asian
population: Other
reference allele: G
site quality: BaseQRankSum
site quality: VQSLOD
site quality: FS
site quality: InbreedingCoeff
site quality: QD
site quality: DP
site quality: ReadPosRankSum
site quality: MQ
site quality: MQRankSum
site quality: ClippingRankSum

4-109086294-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086294
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086294
    reference: chr 4
allele count: 1
allele frequency: 8.236553825879253e-6
allele num: 121410
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.239A>G
  hgvsp: ENSP00000369284.2:p.Gln80Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.35A>G
  hgvsp: ENSP00000427459.1:p.Gln12Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.165A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.118A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.35A>G
  hgvsp: ENSP00000422840.1:p.Gln12Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.239A>G
  hgvsp: ENSP00000422334.1:p.Gln80Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.239A>G
  hgvsp: ENSP00000406176.2:p.Gln80Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.239A>G
  hgvsp: ENSP00000265165.1:p.Gln80Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.58A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.120A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.35A>G
  hgvsp: ENSP00000422801.1:p.Gln12Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.35A>G
  hgvsp: ENSP00000427365.1:p.Gln12Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.66A>G
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 783
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2044
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5306
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 577
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8908
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7897
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8611
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2628
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 928
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 708
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3331
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Gln80Arg
num of homozygotes: 0
population: South Asian
population: Latino
population: East Asian
population: European (Finnish)
population: European (Non-Finnish)
population: African
population: Other
reference allele: T
site quality: ClippingRankSum
site quality: MQ
site quality: DP
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: VQSLOD
site quality: BaseQRankSum
site quality: FS
site quality: QD
site quality: InbreedingCoeff

4-109086295-G-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086295
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086295
    reference: chr 4
allele count: 1
allele frequency: 8.236553825879253e-6
allele num: 121410
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.238C>G
  hgvsp: ENSP00000406176.2:p.Gln80Glu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.34C>G
  hgvsp: ENSP00000427459.1:p.Gln12Glu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.34C>G
  hgvsp: ENSP00000422840.1:p.Gln12Glu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.34C>G
  hgvsp: ENSP00000422801.1:p.Gln12Glu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.57C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.238C>G
  hgvsp: ENSP00000265165.1:p.Gln80Glu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.238C>G
  hgvsp: ENSP00000422334.1:p.Gln80Glu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.164C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.238C>G
  hgvsp: ENSP00000369284.2:p.Gln80Glu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.119C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.117C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.34C>G
  hgvsp: ENSP00000427365.1:p.Gln12Glu
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.65C>G
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 7896
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 632
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 928
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 577
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2044
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4403
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1411
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8908
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5307
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2628
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Gln80Glu
num of homozygotes: 0
population: South Asian
population: East Asian
population: African
population: Other
population: Latino
population: European (Non-Finnish)
population: European (Finnish)
reference allele: G
site quality: ClippingRankSum
site quality: FS
site quality: MQ
site quality: MQRankSum
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: QD
site quality: ReadPosRankSum
site quality: VQSLOD
site quality: DP

4-109086309-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086309
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086309
    reference: chr 4
allele count: 1
allele frequency: 8.236689509752241e-6
allele num: 121408
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.43A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.224A>G
  hgvsp: ENSP00000422334.1:p.Gln75Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.224A>G
  hgvsp: ENSP00000369284.2:p.Gln75Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.224A>G
  hgvsp: ENSP00000406176.2:p.Gln75Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.150A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.105A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.20A>G
  hgvsp: ENSP00000422840.1:p.Gln7Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.20A>G
  hgvsp: ENSP00000422801.1:p.Gln7Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.20A>G
  hgvsp: ENSP00000427459.1:p.Gln7Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.20A>G
  hgvsp: ENSP00000427365.1:p.Gln7Arg
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.51A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.103A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: missense_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.224A>G
  hgvsp: ENSP00000265165.1:p.Gln75Arg
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: missense
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 7895
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5309
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 632
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7249
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 783
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8612
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 577
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8909
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2624
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1411
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2044
  bin: 6.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: p.Gln75Arg
num of homozygotes: 0
population: East Asian
population: European (Non-Finnish)
population: African
population: Latino
population: South Asian
population: European (Finnish)
population: Other
reference allele: T
site quality: MQ
site quality: MQRankSum
site quality: FS
site quality: QD
site quality: VQSLOD
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: DP
site quality: ReadPosRankSum
site quality: ClippingRankSum

4-109086322-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086322
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086322
    reference: chr 4
allele count: 1
allele frequency: 8.236825198095647e-6
allele num: 121406
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.41-3T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.214-3T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.90T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.10-3T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.214-3T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.214-3T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.10-3T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.140-3T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.10-3T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.30T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.92T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.10-3T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.214-3T>C
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: splice region
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 929
  bin: 7.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2044
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7249
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7895
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2617
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5285
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 632
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8909
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5307
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1411
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: c.214-3T>C
num of homozygotes: 0
population: East Asian
population: African
population: Other
population: European (Non-Finnish)
population: South Asian
population: Latino
population: European (Finnish)
reference allele: A
site quality: MQ
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: ClippingRankSum
site quality: BaseQRankSum
site quality: QD
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: DP
site quality: FS

4-109086324-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086324
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086324
    reference: chr 4
allele count: 2
allele frequency: 1.647365039619129e-5
allele num: 121406
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.10-5G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.214-5G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.41-5G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.28G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.140-5G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.214-5G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.10-5G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.10-5G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.214-5G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.10-5G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.88G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.214-5G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.90G>A
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: splice region
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 3332
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 783
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 577
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7895
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8909
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5307
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1412
  bin: 6.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 928
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8612
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2044
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 1.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: c.214-5G>A
num of homozygotes: 0
population: Latino
population: South Asian
population: African
population: East Asian
population: Other
population: European (Non-Finnish)
population: European (Finnish)
reference allele: C
site quality: VQSLOD
site quality: FS
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: QD
site quality: DP
site quality: ClippingRankSum
site quality: MQ

4-109086325-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086325
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086325
    reference: chr 4
allele count: 3
allele frequency: 2.471047559428694e-5
allele num: 121406
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.10-6T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.214-6T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.10-6T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.10-6T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.41-6T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.89T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.214-6T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.10-6T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.214-6T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.214-6T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.87T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.140-6T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.27T>C
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: splice region
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 708
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7249
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1410
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5307
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3331
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 928
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4404
  bin: 9.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 784
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2044
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8909
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8612
  bin: 4.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: c.214-6T>C
num of homozygotes: 0
population: European (Finnish)
population: European (Non-Finnish)
population: East Asian
population: Latino
population: African
population: South Asian
population: Other
reference allele: A
site quality: ClippingRankSum
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: VQSLOD
site quality: MQ
site quality: FS
site quality: QD
site quality: DP

4-109086326-T-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086326
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086326
    reference: chr 4
allele count: 3
allele frequency: 2.471047559428694e-5
allele num: 121406
alternate allele: A
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.10-7A>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.214-7A>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.26A>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.214-7A>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.10-7A>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  consequence: NMD_transcript_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.10-7A>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.140-7A>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.214-7A>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.88A>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.214-7A>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.10-7A>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.86A>T
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: splice_region_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.41-7A>T
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: splice region
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 4404
  bin: 9.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 708
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 928
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7897
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8909
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5306
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8612
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2614
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7250
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 784
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
hgvs: c.214-7A>T
num of homozygotes: 0
population: Other
population: European (Finnish)
population: East Asian
population: South Asian
population: African
population: Latino
population: European (Non-Finnish)
reference allele: T
site quality: ReadPosRankSum
site quality: InbreedingCoeff
site quality: FS
site quality: VQSLOD
site quality: QD
site quality: ClippingRankSum
site quality: MQRankSum
site quality: DP
site quality: MQ
site quality: BaseQRankSum

4-109086329-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086329
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086329
    reference: chr 4
allele count: 1
allele frequency: 8.236825198095647e-6
allele num: 121406
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.10-10A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.85A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.23A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.10-10A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.83A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.214-10A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.214-10A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.10-10A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.140-10A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.214-10A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.10-10A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.214-10A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.41-10A>G
  variant of: http://identifiers.org/hgnc/6551
canonical: false
consequence: non coding transcript exon
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4402
  bin: 9.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8613
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 784
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7897
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 577
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8909
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2045
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5307
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5283
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 708
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1410
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2611
  bin: 2.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
num of homozygotes: 0
population: European (Finnish)
population: African
population: Latino
population: South Asian
population: Other
population: European (Non-Finnish)
population: East Asian
reference allele: T
site quality: MQ
site quality: DP
site quality: QD
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: FS
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: BaseQRankSum
site quality: ClippingRankSum

4-109086330-G-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086330
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086330
    reference: chr 4
allele count: 3
allele frequency: 2.471088267272907e-5
allele num: 121404
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.10-11C>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.10-11C>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.82C>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.214-11C>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.214-11C>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.84C>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.41-11C>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.10-11C>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.22C>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.214-11C>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.10-11C>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.140-11C>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.214-11C>A
  variant of: http://identifiers.org/hgnc/6551
canonical: false
consequence: non coding transcript exon
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1411
  bin: 6.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2608
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5283
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7897
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 928
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3333
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8909
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 577
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 709
  bin: 8.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 8612
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7248
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5308
  bin: 2.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
num of homozygotes: 0
population: European (Finnish)
population: East Asian
population: South Asian
population: European (Non-Finnish)
population: Other
population: African
population: Latino
reference allele: G
site quality: BaseQRankSum
site quality: VQSLOD
site quality: DP
site quality: ReadPosRankSum
site quality: FS
site quality: MQ
site quality: MQRankSum
site quality: QD
site quality: InbreedingCoeff
site quality: ClippingRankSum

4-109086333-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086333
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086333
    reference: chr 4
allele count: 1
allele frequency: 8.236960890909689e-6
allele num: 121404
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.214-14A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.214-14A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.19A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.10-14A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.214-14A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.79A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.10-14A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.81A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.140-14A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.10-14A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.41-14A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.10-14A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.214-14A>G
  variant of: http://identifiers.org/hgnc/6551
canonical: false
consequence: non coding transcript exon
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 5306
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2604
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 18
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7248
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 929
  bin: 7.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 784
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5284
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8613
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7895
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2045
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 708
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 577
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8910
  bin: 3.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
num of homozygotes: 0
population: Latino
population: Other
population: European (Non-Finnish)
population: European (Finnish)
population: East Asian
population: African
population: South Asian
reference allele: T
site quality: ClippingRankSum
site quality: QD
site quality: MQRankSum
site quality: FS
site quality: DP
site quality: MQ
site quality: InbreedingCoeff
site quality: ReadPosRankSum
site quality: VQSLOD
site quality: BaseQRankSum

4-109086334-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086334
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086334
    reference: chr 4
allele count: 4
allele frequency: 3.294838635277837e-5
allele num: 121402
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.18G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.214-15G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.214-15G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.78G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.214-15G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.41-15G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.10-15G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.10-15G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.10-15G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.80G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.140-15G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.10-15G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.214-15G>A
  variant of: http://identifiers.org/hgnc/6551
canonical: false
consequence: non coding transcript exon
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 8909
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 631
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 577
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1410
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3334
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 784
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 708
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4403
  bin: 9.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5305
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2602
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2045
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7894
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 930
  bin: 7.25e1
  variant carriers: 2
genotype quality: GenotypeQuality
num of homozygotes: 0
population: Latino
population: East Asian
population: European (Finnish)
population: African
population: Other
population: South Asian
population: European (Non-Finnish)
reference allele: C
site quality: MQ
site quality: FS
site quality: VQSLOD
site quality: QD
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: MQRankSum
site quality: ClippingRankSum
site quality: ReadPosRankSum
site quality: DP

4-109086339-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086339
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086339
    reference: chr 4
allele count: 1
allele frequency: 8.237096588194593e-6
allele num: 121402
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.10-20G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.10-20G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.214-20G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.140-20G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.75G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.73G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.10-20G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.214-20G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.13G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.214-20G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.41-20G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.10-20G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.214-20G>A
  variant of: http://identifiers.org/hgnc/6551
canonical: false
consequence: non coding transcript exon
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 8616
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2584
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3332
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7249
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 631
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8906
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 33
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 784
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5286
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 708
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 11
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7894
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4401
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1411
  bin: 6.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
num of homozygotes: 0
population: South Asian
population: East Asian
population: European (Finnish)
population: African
population: Other
population: European (Non-Finnish)
population: Latino
reference allele: C
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: FS
site quality: MQ
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: QD
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: DP

4-109086341-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086341
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086341
    reference: chr 4
allele count: 1
allele frequency: 8.237096588194593e-6
allele num: 121402
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.214-22G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.71G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.73G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.10-22G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.10-22G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.41-22G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.214-22G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.10-22G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.11G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.214-22G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.214-22G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.140-22G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.10-22G>A
  variant of: http://identifiers.org/hgnc/6551
canonical: false
consequence: non coding transcript exon
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 709
  bin: 8.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 631
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4401
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7250
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 928
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8908
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3332
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5297
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 39
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 14
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1411
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2581
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7896
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 577
  bin: 9.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
num of homozygotes: 0
population: European (Finnish)
population: African
population: Other
population: South Asian
population: East Asian
population: Latino
population: European (Non-Finnish)
reference allele: C
site quality: FS
site quality: ClippingRankSum
site quality: VQSLOD
site quality: QD
site quality: BaseQRankSum
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: DP
site quality: InbreedingCoeff
site quality: MQ

4-109086346-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086346
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086346
    reference: chr 4
allele count: 1
allele frequency: 8.237096588194593e-6
allele num: 121402
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.66T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.68T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.214-27T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.10-27T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.10-27T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.214-27T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.140-27T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.6T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.214-27T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.214-27T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.41-27T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.10-27T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.10-27T>C
  variant of: http://identifiers.org/hgnc/6551
canonical: false
consequence: non coding transcript exon
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 54
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 928
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 631
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5282
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2045
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2541
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8616
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 784
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7893
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5291
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8912
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3332
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4401
  bin: 9.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
num of homozygotes: 0
population: Other
population: European (Non-Finnish)
population: South Asian
population: Latino
population: European (Finnish)
population: African
population: East Asian
reference allele: A
site quality: DP
site quality: InbreedingCoeff
site quality: VQSLOD
site quality: FS
site quality: QD
site quality: BaseQRankSum
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: ClippingRankSum
site quality: MQ

4-109086347-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086347
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086347
    reference: chr 4
allele count: 1997
allele frequency: 1.64494818866246e-2
allele num: 121402
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.67T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.5T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.65T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.214-28T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.41-28T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.10-28T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.140-28T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.214-28T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.214-28T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.10-28T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.10-28T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.214-28T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.10-28T>C
  variant of: http://identifiers.org/hgnc/6551
canonical: false
consequence: non coding transcript exon
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 2073
  bin: 6.25e1
  variant carriers: 110
genotype depth: GenotypeDepth
  all individuals: 7758
  bin: 3.25e1
  variant carriers: 5
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 54
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7105
  bin: 4.75e1
  variant carriers: 41
genotype depth: GenotypeDepth
  all individuals: 815
  bin: 8.25e1
  variant carriers: 136
genotype depth: GenotypeDepth
  all individuals: 8453
  bin: 4.25e1
  variant carriers: 33
genotype depth: GenotypeDepth
  all individuals: 700
  bin: 8.75e1
  variant carriers: 107
genotype depth: GenotypeDepth
  all individuals: 44
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 889
  bin: 7.75e1
  variant carriers: 128
genotype depth: GenotypeDepth
  all individuals: 8741
  bin: 3.75e1
  variant carriers: 11
genotype depth: GenotypeDepth
  all individuals: 5178
  bin: 5.25e1
  variant carriers: 66
genotype depth: GenotypeDepth
  all individuals: 5200
  bin: 2.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 2515
  bin: 2.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 636
  bin: 9.25e1
  variant carriers: 94
genotype quality: GenotypeQuality
num of homozygotes: 125
population: South Asian
population: Latino
population: Other
population: African
population: European (Finnish)
population: East Asian
population: European (Non-Finnish)
reference allele: A
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: MQ
site quality: QD
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: ClippingRankSum
site quality: DP
site quality: FS
site quality: VQSLOD

4-109086349-A-G
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086349
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086349
    reference: chr 4
allele count: 2
allele frequency: 1.647392178181938e-5
allele num: 121404
alternate allele: G
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000509428
  gene symbol: LEF1
  hgvsc: ENST00000509428.1:n.3T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.10-30T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.214-30T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.214-30T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.214-30T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.63T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.65T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.10-30T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.10-30T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.214-30T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.10-30T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.41-30T>C
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.140-30T>C
  variant of: http://identifiers.org/hgnc/6551
canonical: false
consequence: non coding transcript exon
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 58
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7285
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 576
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 945
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2502
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5251
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8910
  bin: 3.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 723
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2066
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 64
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8617
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7834
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1418
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5302
  bin: 5.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
num of homozygotes: 0
population: Other
population: African
population: Latino
population: South Asian
population: European (Finnish)
population: European (Non-Finnish)
population: East Asian
reference allele: A
site quality: DP
site quality: ClippingRankSum
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: BaseQRankSum
site quality: FS
site quality: ReadPosRankSum
site quality: MQRankSum
site quality: MQ
site quality: QD

4-109086356-ATC-A
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086356
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086354
    reference: chr 4
allele count: 1
allele frequency: 8.237367996177861e-6
allele num: 121398
alternate allele: A
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.214-39_214-38delGA
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.10-39_10-38delGA
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.10-39_10-38delGA
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.41-39_41-38delGA
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.214-39_214-38delGA
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.56_57delGA
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.214-39_214-38delGA
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.54_55delGA
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.10-39_10-38delGA
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.140-39_140-38delGA
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.10-39_10-38delGA
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.214-39_214-38delGA
  variant of: http://identifiers.org/hgnc/6551
canonical: false
consequence: non coding transcript exon
filter: VQSRTrancheINDEL97.00to99.00
genotype depth: GenotypeDepth
  all individuals: 8619
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3329
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2450
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 69
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 811
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1418
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7284
  bin: 4.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 5189
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 186
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4370
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7816
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 945
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5302
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2066
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8908
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 576
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 640
  bin: 8.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
num of homozygotes: 0
population: African
population: East Asian
population: Other
population: Latino
population: European (Non-Finnish)
population: European (Finnish)
population: South Asian
reference allele: ATC
site quality: ClippingRankSum
site quality: VQSLOD
site quality: FS
site quality: ReadPosRankSum
site quality: MQ
site quality: BaseQRankSum
site quality: InbreedingCoeff
site quality: DP
site quality: MQRankSum
site quality: QD

4-109086358-C-T
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086358
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086358
    reference: chr 4
allele count: 2
allele frequency: 1.647527884409444e-5
allele num: 121394
alternate allele: T
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.140-39G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.10-39G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.214-39G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.214-39G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.214-39G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.54G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.10-39G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.10-39G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.214-39G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.56G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.41-39G>A
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.10-39G>A
  variant of: http://identifiers.org/hgnc/6551
canonical: false
consequence: non coding transcript exon
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 5168
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1418
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 6
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7284
  bin: 4.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 811
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 576
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 225
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 68
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8908
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4370
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2067
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 640
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2435
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3329
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7811
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8620
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5302
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 945
  bin: 7.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
num of homozygotes: 1
population: African
population: East Asian
population: South Asian
population: European (Non-Finnish)
population: Other
population: Latino
population: European (Finnish)
reference allele: C
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: DP
site quality: QD
site quality: FS
site quality: MQ

4-109086363-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086363
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086363
    reference: chr 4
allele count: 1
allele frequency: 8.238589553468446e-6
allele num: 121380
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.51A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.214-44A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.10-44A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.49A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.140-44A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.214-44A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.10-44A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.214-44A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.41-44A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.10-44A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.10-44A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.214-44A>G
  variant of: http://identifiers.org/hgnc/6551
canonical: false
consequence: non coding transcript exon
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 944
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2498
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8902
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7283
  bin: 4.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 5300
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 576
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5095
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 9
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7766
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8617
  bin: 4.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 289
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3331
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 640
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 811
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1418
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2066
  bin: 6.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4370
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 68
  bin: 1.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
num of homozygotes: 0
population: Other
population: European (Non-Finnish)
population: African
population: East Asian
population: European (Finnish)
population: Latino
population: South Asian
reference allele: T
site quality: MQ
site quality: InbreedingCoeff
site quality: QD
site quality: BaseQRankSum
site quality: ClippingRankSum
site quality: MQRankSum
site quality: FS
site quality: DP
site quality: VQSLOD
site quality: ReadPosRankSum

4-109086365-G-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086365
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086365
    reference: chr 4
allele count: 1
allele frequency: 8.238318064983852e-6
allele num: 121384
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.214-46C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.140-46C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.214-46C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.41-46C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.214-46C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.214-46C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.47C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.49C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.10-46C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.10-46C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.10-46C>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.10-46C>G
  variant of: http://identifiers.org/hgnc/6551
canonical: false
consequence: non coding transcript exon
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 7719
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7282
  bin: 4.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8617
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 4370
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5076
  bin: 2.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 640
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 65
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 288
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 8896
  bin: 3.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 944
  bin: 7.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 2572
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5300
  bin: 5.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 1418
  bin: 6.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3331
  bin: 5.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 576
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 811
  bin: 7.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 723
  bin: 8.25e1
  variant carriers: 0
genotype quality: GenotypeQuality
num of homozygotes: 0
population: Other
population: European (Finnish)
population: East Asian
population: Latino
population: European (Non-Finnish)
population: African
population: South Asian
reference allele: G
site quality: BaseQRankSum
site quality: DP
site quality: FS
site quality: ClippingRankSum
site quality: MQ
site quality: QD
site quality: InbreedingCoeff
site quality: MQRankSum
site quality: ReadPosRankSum
site quality: VQSLOD

4-109086368-T-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109086368
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109086368
    reference: chr 4
allele count: 18
allele frequency: 1.483068303534646e-4
allele num: 121370
alternate allele: C
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510135
  gene symbol: LEF1
  hgvsc: ENST00000510135.1:n.44A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.10-49A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.140-49A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.214-49A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.10-49A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.214-49A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.10-49A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.41-49A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.10-49A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: non_coding_transcript_exon_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000510717
  gene symbol: LEF1
  hgvsc: ENST00000510717.1:n.46A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.214-49A>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.214-49A>G
  variant of: http://identifiers.org/hgnc/6551
canonical: false
consequence: non coding transcript exon
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 723
  bin: 8.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 65
  bin: 1.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 4370
  bin: 9.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 12
  bin: 7.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 0
  bin: 2.5e0
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 945
  bin: 7.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 5303
  bin: 5.25e1
  variant carriers: 6
genotype depth: GenotypeDepth
  all individuals: 8610
  bin: 4.25e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2069
  bin: 6.25e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 285
  bin: 1.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 576
  bin: 9.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7631
  bin: 3.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 7278
  bin: 4.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 8881
  bin: 3.75e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 640
  bin: 8.75e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 5102
  bin: 2.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 2656
  bin: 2.25e1
  variant carriers: 0
genotype depth: GenotypeDepth
  all individuals: 3331
  bin: 5.75e1
  variant carriers: 1
genotype depth: GenotypeDepth
  all individuals: 1418
  bin: 6.75e1
  variant carriers: 1
genotype quality: GenotypeQuality
num of homozygotes: 0
population: European (Finnish)
population: East Asian
population: Latino
population: South Asian
population: African
population: Other
population: European (Non-Finnish)
reference allele: T
site quality: ClippingRankSum
site quality: QD
site quality: BaseQRankSum
site quality: MQRankSum
site quality: DP
site quality: VQSLOD
site quality: InbreedingCoeff
site quality: MQ
site quality: FS
site quality: ReadPosRankSum

http://identifiers.org/exac.variant/4-109087379-A-C
type: Variant
location: Region
  begin: Position
    type: ExactPosition
    position: 109087379
    reference: chr 4
  end: Position
    type: ExactPosition
    position: 109087379
    reference: chr 4
allele count: 250
allele frequency: 1.454672407773769e-2
allele num: 17186
alternate allele: C
annotation: Annotation
  canonical: true
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000265165
  ensembl transcript: ENST00000265165
  gene symbol: LEF1
  hgvsc: ENST00000265165.1:c.214-1060T>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427459
  ensembl transcript: ENST00000504950
  gene symbol: LEF1
  hgvsc: ENST00000504950.1:c.9+49T>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: NMD_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422334
  ensembl transcript: ENST00000506680
  gene symbol: LEF1
  hgvsc: ENST00000506680.1:c.214-1060T>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422840
  ensembl transcript: ENST00000510624
  gene symbol: LEF1
  hgvsc: ENST00000510624.1:c.9+49T>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000505293
  gene symbol: LEF1
  hgvsc: ENST00000505293.1:n.139+435T>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000369284
  ensembl transcript: ENST00000379951
  gene symbol: LEF1
  hgvsc: ENST00000379951.2:c.214-1060T>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000406176
  ensembl transcript: ENST00000438313
  gene symbol: LEF1
  hgvsc: ENST00000438313.2:c.214-1060T>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: non_coding_transcript_variant
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl transcript: ENST00000504775
  gene symbol: LEF1
  hgvsc: ENST00000504775.1:n.41-1060T>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000422801
  ensembl transcript: ENST00000515500
  gene symbol: LEF1
  hgvsc: ENST00000515500.1:c.9+49T>G
  variant of: http://identifiers.org/hgnc/6551
annotation: Annotation
  canonical: false
  consequence: intron_variant
  ensembl gene: ENSG00000138795
  ensembl protein: ENSP00000427365
  ensembl transcript: ENST00000512172
  gene symbol: LEF1
  hgvsc: ENST00000512172.1:c.9+49T>G
  variant of: http://identifiers.org/hgnc/6551
canonical: true
consequence: intron
filter: PASS
genotype depth: GenotypeDepth
  all individuals: 1008
  bin: 1.75e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 133
  bin: 5.25e1
  variant carriers: 8
genotype depth: GenotypeDepth
  all individuals: 143
  bin: 6.25e1
  variant carriers: 8
genotype depth: GenotypeDepth
  all individuals: 1744
  bin: 2.75e1
  variant carriers: 19
genotype depth: GenotypeDepth
  all individuals: 1724
  bin: 2.25e1
  variant carriers: 19
genotype depth: GenotypeDepth
  all individuals: 1242
  bin: 9.75e1
  variant carriers: 86
genotype depth: GenotypeDepth
  all individuals: 116
  bin: 7.25e1
  variant carriers: 5
genotype depth: GenotypeDepth
  all individuals: 124
  bin: 4.75e1
  variant carriers: 4
genotype depth: GenotypeDepth
  all individuals: 222
  bin: 7.5e0
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 120
  bin: 8.75e1
  variant carriers: 9
genotype depth: GenotypeDepth
  all individuals: 444
  bin: 1.25e1
  variant carriers: 3
genotype depth: GenotypeDepth
  all individuals: 1938
  bin: 2.5e0
  variant carriers: 9
genotype depth: GenotypeDepth
  all individuals: 265
  bin: 3.75e1
  variant carriers: 13
genotype depth: GenotypeDepth
  all individuals: 129
  bin: 5.75e1
  variant carriers: 9
genotype depth: GenotypeDepth
  all individuals: 113
  bin: 9.25e1
  variant carriers: 2
genotype depth: GenotypeDepth
  all individuals: 143
  bin: 7.75e1
  variant carriers: 7
genotype depth: GenotypeDepth
  all individuals: 137
  bin: 6.75e1
  variant carriers: 7
genotype depth: GenotypeDepth
  all individuals: 167
  bin: 4.25e1
  variant carriers: 15
genotype depth: GenotypeDepth
  all individuals: 124
  bin: 8.25e1
  variant carriers: 6
genotype depth: GenotypeDepth
  all individuals: 728
  bin: 3.25e1
  variant carriers: 15
genotype quality: GenotypeQuality
  all individuals: 2281
  bin: 6.25e1
  variant carriers: 1
genotype quality: GenotypeQuality
  all individuals: 153
  bin: 5.75e1
  variant carriers: 0
genotype quality: GenotypeQuality
  all individuals: 203
  bin: 2.25e1
  variant carriers: 2
num of homozygotes: 13
population: African
population: Latino
population: East Asian
population: European (Finnish)
population: Other
population: European (Non-Finnish)
population: South Asian
reference allele: A
site quality: InbreedingCoeff
site quality: FS
site quality: BaseQRankSum
site quality: MQ
site quality: VQSLOD
site quality: ReadPosRankSum

GenotypeDepth
all individuals: 497
bin: 6.25e1
variant carriers: 0

GenotypeDepth
all individuals: 306
bin: 7.25e1
variant carriers: 1

GenotypeDepth
all individuals: 573
bin: 9.75e1
variant carriers: 0

GenotypeDepth
all individuals: 132
bin: 9.25e1
variant carriers: 0

GenotypeDepth
all individuals: 197
bin: 8.25e1
variant carriers: 0

GenotypeDepth
all individuals: 676
bin: 5.75e1
variant carriers: 0

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

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

GenotypeQuality
all individuals: 989
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1846
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 4
bin: 2.75e1
variant carriers: 0

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

GenotypeQuality
all individuals: 24
bin: 2.25e1
variant carriers: 0

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

GenotypeQuality
all individuals: 2
bin: 4.75e1
variant carriers: 0

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

GenotypeQuality
all individuals: 4
bin: 3.25e1
variant carriers: 0

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

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

GenotypeQuality
all individuals: 2
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 36548
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 740
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 6052
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 2861
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 9108
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2525
bin: 7.25e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10402
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 6.058403004967891e-5
allele num: 16506
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: 11578
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66710
num of homozygotes: 0

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

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8654
num of homozygotes: 0

VQSLOD
type: SiteQuality
SIO_000300: 7.19e-1

DP
type: SiteQuality
SIO_000300: 1.948523e6

QD
type: SiteQuality
SIO_000300: 1.272e1

BaseQRankSum
type: SiteQuality
SIO_000300: 1.9e0

FS
type: SiteQuality
SIO_000300: 7.263e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.0e-4

MQ
type: SiteQuality
SIO_000300: 6.0e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 7.18e-1

MQRankSum
type: SiteQuality
SIO_000300: -1.2e-1

ClippingRankSum
type: SiteQuality
SIO_000300: -5.649999999999999e-1

GenotypeDepth
all individuals: 304
bin: 7.25e1
variant carriers: 0

GenotypeDepth
all individuals: 0
bin: 2.5e0
variant carriers: 0

GenotypeDepth
all individuals: 197
bin: 8.25e1
variant carriers: 0

GenotypeDepth
all individuals: 4036
bin: 3.75e1
variant carriers: 0

GenotypeDepth
all individuals: 1218
bin: 4.75e1
variant carriers: 0

GenotypeDepth
all individuals: 164
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 9108
bin: 6.75e1
variant carriers: 0

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

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

GenotypeQuality
all individuals: 2861
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 25
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 5
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 740
bin: 8.75e1
variant carriers: 0

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

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

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

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

GenotypeQuality
all individuals: 1846
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 6052
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 36545
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 4
bin: 3.25e1
variant carriers: 0

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

GenotypeQuality
all individuals: 2525
bin: 7.25e1
variant carriers: 0

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

GenotypeQuality
all individuals: 989
bin: 9.25e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10402
num of homozygotes: 0

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

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

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.49907057624273e-5
allele num: 66708
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16506
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8654
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 908
num of homozygotes: 0

BaseQRankSum
type: SiteQuality
SIO_000300: 1.9e0

ClippingRankSum
type: SiteQuality
SIO_000300: 5.17e-1

QD
type: SiteQuality
SIO_000300: 1.386e1

MQRankSum
type: SiteQuality
SIO_000300: -7.71e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

DP
type: SiteQuality
SIO_000300: 1.948431e6

FS
type: SiteQuality
SIO_000300: 8.34e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: -3.48e-1

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.0e-4

VQSLOD
type: SiteQuality
SIO_000300: 5.23e-1

GenotypeDepth
all individuals: 2
bin: 1.75e1
variant carriers: 0

GenotypeDepth
all individuals: 1857
bin: 4.25e1
variant carriers: 0

GenotypeDepth
all individuals: 908
bin: 5.25e1
variant carriers: 0

GenotypeDepth
all individuals: 304
bin: 7.25e1
variant carriers: 0

GenotypeDepth
all individuals: 676
bin: 5.75e1
variant carriers: 0

GenotypeDepth
all individuals: 495
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1846
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 24
bin: 2.25e1
variant carriers: 0

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

GenotypeQuality
all individuals: 740
bin: 8.75e1
variant carriers: 0

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

GenotypeQuality
all individuals: 6051
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 2
bin: 3.75e1
variant carriers: 0

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

GenotypeQuality
all individuals: 989
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 4
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 4
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2
bin: 5.25e1
variant carriers: 0

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

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

GenotypeQuality
all individuals: 2860
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 36546
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2525
bin: 7.25e1
variant carriers: 0

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

GenotypeQuality
all individuals: 9109
bin: 6.75e1
variant carriers: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8654
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10402
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.49902563333833e-5
allele num: 66710
num of homozygotes: 0

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

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

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 908
num of homozygotes: 0

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16506
num of homozygotes: 0

ClippingRankSum
type: SiteQuality
SIO_000300: -1.34e-1

FS
type: SiteQuality
SIO_000300: 6.343e0

MQ
type: SiteQuality
SIO_000300: 5.923e1

ReadPosRankSum
type: SiteQuality
SIO_000300: 4.63e-1

DP
type: SiteQuality
SIO_000300: 1.94841e6

BaseQRankSum
type: SiteQuality
SIO_000300: 1.39e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -1.0e-4

VQSLOD
type: SiteQuality
SIO_000300: 8.9e-1

QD
type: SiteQuality
SIO_000300: 1.039e1

MQRankSum
type: SiteQuality
SIO_000300: 3.79e-1

GenotypeDepth
all individuals: 304
bin: 7.25e1
variant carriers: 0

GenotypeDepth
all individuals: 8
bin: 1.75e1
variant carriers: 0

GenotypeDepth
all individuals: 195
bin: 8.25e1
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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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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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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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num of homozygotes: 0

Latino
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allele frequency: 1.036627505183138e-3
allele num: 11576
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European (Finnish)
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allele frequency: 0.0e0
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East Asian
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South Asian
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European (Non-Finnish)
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Other
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InbreedingCoeff
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QD
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ReadPosRankSum
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MQRankSum
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ClippingRankSum
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VQSLOD
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DP
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FS
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MQ
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BaseQRankSum
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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Latino
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allele frequency: 0.0e0
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num of homozygotes: 0

European (Non-Finnish)
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allele count: 4
allele frequency: 5.995743022454058e-5
allele num: 66714
num of homozygotes: 0

African
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allele num: 10400
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East Asian
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South Asian
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European (Finnish)
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allele frequency: 0.0e0
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Other
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MQRankSum
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QD
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BaseQRankSum
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MQ
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ReadPosRankSum
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VQSLOD
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InbreedingCoeff
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ClippingRankSum
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FS
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DP
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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East Asian
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num of homozygotes: 0

Other
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African
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South Asian
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Latino
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European (Finnish)
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European (Non-Finnish)
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allele num: 66698
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MQRankSum
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ReadPosRankSum
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FS
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BaseQRankSum
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QD
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VQSLOD
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DP
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InbreedingCoeff
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MQ
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ClippingRankSum
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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European (Finnish)
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allele frequency: 0.0e0
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num of homozygotes: 0

East Asian
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Latino
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South Asian
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European (Non-Finnish)
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African
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Other
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ReadPosRankSum
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VQSLOD
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DP
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ClippingRankSum
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MQRankSum
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MQ
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FS
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InbreedingCoeff
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BaseQRankSum
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QD
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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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 num: 10392
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Latino
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European (Finnish)
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European (Non-Finnish)
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East Asian
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Other
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South Asian
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VQSLOD
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BaseQRankSum
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MQRankSum
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ReadPosRankSum
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DP
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InbreedingCoeff
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MQ
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FS
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ClippingRankSum
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QD
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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European (Non-Finnish)
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Other
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South Asian
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East Asian
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European (Finnish)
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African
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Latino
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FS
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ClippingRankSum
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MQRankSum
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MQ
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QD
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VQSLOD
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BaseQRankSum
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DP
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ReadPosRankSum
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InbreedingCoeff
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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bin: 2.25e1
variant carriers: 0

East Asian
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num of homozygotes: 0

Other
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allele frequency: 0.0e0
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num of homozygotes: 0

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

European (Finnish)
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allele frequency: 0.0e0
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Latino
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African
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South Asian
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VQSLOD
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InbreedingCoeff
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ReadPosRankSum
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ClippingRankSum
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MQ
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FS
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QD
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DP
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MQRankSum
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BaseQRankSum
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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African
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allele frequency: 0.0e0
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num of homozygotes: 0

Latino
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allele frequency: 0.0e0
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num of homozygotes: 0

European (Non-Finnish)
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allele count: 1
allele frequency: 1.499655079331754e-5
allele num: 66682
num of homozygotes: 0

Other
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East Asian
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European (Finnish)
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allele frequency: 0.0e0
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South Asian
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BaseQRankSum
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QD
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ClippingRankSum
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FS
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MQ
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VQSLOD
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ReadPosRankSum
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MQRankSum
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InbreedingCoeff
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DP
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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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: 10398
num of homozygotes: 0

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

Latino
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num of homozygotes: 0

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

European (Non-Finnish)
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allele frequency: 0.0e0
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South Asian
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Other
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allele num: 904
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FS
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SIO_000300: 8.051e0

BaseQRankSum
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MQRankSum
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QD
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MQ
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ClippingRankSum
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ReadPosRankSum
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InbreedingCoeff
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SIO_000300: 1.6e-3

VQSLOD
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DP
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GenotypeDepth
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variant carriers: 0

GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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bin: 8.75e1
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European (Finnish)
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allele count: 0
allele frequency: 0.0e0
allele num: 6608
num of homozygotes: 0

European (Non-Finnish)
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allele count: 0
allele frequency: 0.0e0
allele num: 66686
num of homozygotes: 0

East Asian
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allele frequency: 0.0e0
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South Asian
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allele count: 1
allele frequency: 6.06060606060606e-5
allele num: 16500
num of homozygotes: 0

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

Other
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allele count: 0
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MQ
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SIO_000300: 5.963e1

InbreedingCoeff
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ReadPosRankSum
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BaseQRankSum
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SIO_000300: -3.301e0

FS
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SIO_000300: 1.0718e1

QD
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SIO_000300: 1.165e1

DP
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MQRankSum
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ClippingRankSum
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SIO_000300: -8.32e-1

VQSLOD
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SIO_000300: -9.163e-1

GenotypeDepth
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variant carriers: 14

GenotypeDepth
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variant carriers: 17

GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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East Asian
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allele count: 118
allele frequency: 1.363846509477577e-2
allele num: 8652
num of homozygotes: 2

South Asian
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allele count: 10
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Latino
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allele num: 11560
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European (Non-Finnish)
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allele count: 10
allele frequency: 1.499880009599232e-4
allele num: 66672
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Other
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African
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European (Finnish)
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BaseQRankSum
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SIO_000300: -5.45e-1

InbreedingCoeff
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DP
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ReadPosRankSum
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FS
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VQSLOD
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ClippingRankSum
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MQ
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MQRankSum
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QD
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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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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European (Finnish)
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Other
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European (Non-Finnish)
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African
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Latino
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East Asian
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QD
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MQRankSum
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BaseQRankSum
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DP
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InbreedingCoeff
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FS
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ClippingRankSum
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MQ
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VQSLOD
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ReadPosRankSum
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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European (Non-Finnish)
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allele count: 2
allele frequency: 3.0016509079994e-5
allele num: 66630
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European (Finnish)
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East Asian
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Other
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African
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South Asian
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Latino
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ReadPosRankSum
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QD
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InbreedingCoeff
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BaseQRankSum
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MQRankSum
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VQSLOD
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FS
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ClippingRankSum
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DP
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MQ
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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African
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Latino
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Other
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South Asian
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European (Non-Finnish)
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European (Finnish)
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DP
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ReadPosRankSum
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FS
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VQSLOD
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InbreedingCoeff
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ClippingRankSum
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QD
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MQRankSum
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MQ
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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European (Finnish)
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Latino
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East Asian
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African
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South Asian
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QD
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ClippingRankSum
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InbreedingCoeff
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VQSLOD
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MQ
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MQRankSum
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DP
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ReadPosRankSum
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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African
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European (Non-Finnish)
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East Asian
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European (Finnish)
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South Asian
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DP
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ReadPosRankSum
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MQRankSum
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BaseQRankSum
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ClippingRankSum
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VQSLOD
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InbreedingCoeff
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FS
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MQ
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QD
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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Latino
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East Asian
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European (Non-Finnish)
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African
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European (Finnish)
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VQSLOD
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ReadPosRankSum
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FS
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BaseQRankSum
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ClippingRankSum
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InbreedingCoeff
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QD
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MQ
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DP
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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European (Finnish)
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African
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East Asian
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South Asian
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FS
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QD
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DP
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MQRankSum
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VQSLOD
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BaseQRankSum
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MQ
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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European (Finnish)
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African
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European (Non-Finnish)
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East Asian
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Latino
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South Asian
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DP
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MQ
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QD
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FS
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VQSLOD
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MQRankSum
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InbreedingCoeff
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GenotypeQuality
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GenotypeQuality
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variant carriers: 0

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

East Asian
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allele frequency: 1.166588894073728e-4
allele num: 8572
num of homozygotes: 0

Other
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allele frequency: 0.0e0
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num of homozygotes: 0

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

European (Non-Finnish)
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allele frequency: 0.0e0
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BaseQRankSum
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MQRankSum
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VQSLOD
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QD
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ClippingRankSum
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FS
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InbreedingCoeff
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ReadPosRankSum
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DP
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MQ
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GenotypeDepth
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variant carriers: 0

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

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

European (Finnish)
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allele frequency: 0.0e0
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African
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allele frequency: 0.0e0
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East Asian
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Other
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allele frequency: 0.0e0
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European (Non-Finnish)
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allele frequency: 3.060724779627816e-5
allele num: 65344
num of homozygotes: 0

Latino
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allele frequency: 4.4193035177656e-4
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MQ
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BaseQRankSum
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MQRankSum
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FS
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InbreedingCoeff
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ReadPosRankSum
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QD
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DP
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VQSLOD
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ClippingRankSum
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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bin: 9.25e1
variant carriers: 0

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

Other
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allele frequency: 0.0e0
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num of homozygotes: 0

European (Finnish)
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allele frequency: 1.525785779676533e-4
allele num: 6554
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Latino
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African
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South Asian
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European (Non-Finnish)
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allele frequency: 0.0e0
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MQRankSum
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VQSLOD
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BaseQRankSum
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QD
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FS
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MQ
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InbreedingCoeff
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ClippingRankSum
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ReadPosRankSum
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DP
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GenotypeDepth
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variant carriers: 0

GenotypeDepth
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variant carriers: 0

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

Latino
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allele count: 0
allele frequency: 0.0e0
allele num: 11258
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

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

European (Non-Finnish)
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allele frequency: 1.539266693347289e-5
allele num: 64966
num of homozygotes: 0

African
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Other
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allele frequency: 0.0e0
allele num: 888
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European (Finnish)
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allele count: 0
allele frequency: 0.0e0
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MQRankSum
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DP
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InbreedingCoeff
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FS
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VQSLOD
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QD
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ClippingRankSum
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BaseQRankSum
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MQ
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ReadPosRankSum
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GenotypeDepth
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variant carriers: 0

GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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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

Other
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Latino
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num of homozygotes: 0

European (Non-Finnish)
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African
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East Asian
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European (Finnish)
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QD
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MQ
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InbreedingCoeff
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MQRankSum
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BaseQRankSum
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DP
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FS
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ReadPosRankSum
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ClippingRankSum
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VQSLOD
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GenotypeDepth
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variant carriers: 0

GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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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 (Non-Finnish)
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num of homozygotes: 0

Latino
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Other
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African
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East Asian
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European (Finnish)
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QD
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MQRankSum
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InbreedingCoeff
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MQ
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VQSLOD
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ReadPosRankSum
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DP
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ClippingRankSum
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FS
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BaseQRankSum
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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European (Finnish)
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African
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East Asian
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Latino
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European (Non-Finnish)
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South Asian
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VQSLOD
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InbreedingCoeff
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FS
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ReadPosRankSum
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BaseQRankSum
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DP
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MQ
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ClippingRankSum
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QD
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MQRankSum
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 0

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

GenotypeQuality
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bin: 2.25e1
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GenotypeQuality
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bin: 3.75e1
variant carriers: 0

Other
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allele count: 0
allele frequency: 0.0e0
allele num: 908
num of homozygotes: 0

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

South Asian
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allele count: 36
allele frequency: 2.182611858857766e-3
allele num: 16494
num of homozygotes: 0

East Asian
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allele count: 1
allele frequency: 1.155535012710885e-4
allele num: 8654
num of homozygotes: 0

African
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allele count: 0
allele frequency: 0.0e0
allele num: 10404
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11572
num of homozygotes: 0

European (Non-Finnish)
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allele count: 0
allele frequency: 0.0e0
allele num: 66680
num of homozygotes: 0

ReadPosRankSum
type: SiteQuality
SIO_000300: 2.77e-1

FS
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BaseQRankSum
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DP
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VQSLOD
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QD
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MQ
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MQRankSum
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SIO_000300: 7.6e-2

InbreedingCoeff
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SIO_000300: 2.3e-3

ClippingRankSum
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SIO_000300: -2.07e-1

GenotypeDepth
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variant carriers: 0

GenotypeDepth
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variant carriers: 0

GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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variant carriers: 0

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

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

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10406
num of homozygotes: 0

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

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8654
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 908
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66704
num of homozygotes: 0

South Asian
type: Population
allele count: 1
allele frequency: 6.05913717886573e-5
allele num: 16504
num of homozygotes: 0

FS
type: SiteQuality
SIO_000300: 2.152e0

ClippingRankSum
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SIO_000300: -1.649e0

DP
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QD
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MQRankSum
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InbreedingCoeff
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SIO_000300: 1.0e-3

BaseQRankSum
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ReadPosRankSum
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SIO_000300: 1.53e0

MQ
type: SiteQuality
SIO_000300: 5.963e1

VQSLOD
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SIO_000300: 1.03e0

GenotypeDepth
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variant carriers: 0

GenotypeDepth
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variant carriers: 0

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

GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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bin: 4.25e1
variant carriers: 0

GenotypeQuality
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GenotypeQuality
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bin: 6.75e1
variant carriers: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10406
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8654
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.498845888665727e-5
allele num: 66718
num of homozygotes: 0

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

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 908
num of homozygotes: 0

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

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

DP
type: SiteQuality
SIO_000300: 3.091284e6

FS
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SIO_000300: 0.0e0

QD
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SIO_000300: 4.88e0

VQSLOD
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ClippingRankSum
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SIO_000300: -7.57e-1

MQ
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SIO_000300: 5.981e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.2e-3

MQRankSum
type: SiteQuality
SIO_000300: 7.32e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.33e0

BaseQRankSum
type: SiteQuality
SIO_000300: 9.27e-1

GenotypeDepth
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bin: 7.75e1
variant carriers: 0

GenotypeDepth
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bin: 1.75e1
variant carriers: 0

GenotypeDepth
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variant carriers: 0

GenotypeDepth
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variant carriers: 1

GenotypeDepth
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variant carriers: 0

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

GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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variant carriers: 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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variant carriers: 0

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

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10406
num of homozygotes: 0

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

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11578
num of homozygotes: 0

Other
type: Population
allele count: 1
allele frequency: 1.101321585903084e-3
allele num: 908
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66724
num of homozygotes: 0

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

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

FS
type: SiteQuality
SIO_000300: 1.971e0

BaseQRankSum
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SIO_000300: 1.34e0

DP
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SIO_000300: 3.091461e6

VQSLOD
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SIO_000300: 2.26e0

ReadPosRankSum
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QD
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MQ
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SIO_000300: 5.977e1

ClippingRankSum
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SIO_000300: 5.15e-1

MQRankSum
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SIO_000300: -1.3e-2

InbreedingCoeff
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SIO_000300: 9.0e-4

GenotypeDepth
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variant carriers: 1

GenotypeDepth
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variant carriers: 7

GenotypeDepth
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variant carriers: 0

GenotypeDepth
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GenotypeDepth
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variant carriers: 4

GenotypeDepth
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GenotypeDepth
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variant carriers: 7

GenotypeDepth
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variant carriers: 8

GenotypeDepth
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variant carriers: 5

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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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: 174

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 0

Latino
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allele count: 7
allele frequency: 6.045949214026602e-4
allele num: 11578
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.498621268433042e-5
allele num: 66728
num of homozygotes: 0

African
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allele count: 166
allele frequency: 1.595233519123582e-2
allele num: 10406
num of homozygotes: 2

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

East Asian
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allele num: 8654
num of homozygotes: 0

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

Other
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allele count: 1
allele frequency: 1.101321585903084e-3
allele num: 908
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MQRankSum
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ReadPosRankSum
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MQ
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ClippingRankSum
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QD
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VQSLOD
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InbreedingCoeff
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DP
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FS
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SIO_000300: 0.0e0

BaseQRankSum
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SIO_000300: 2.91e0

GenotypeDepth
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variant carriers: 7

GenotypeDepth
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variant carriers: 0

GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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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
allele frequency: 0.0e0
allele num: 10406
num of homozygotes: 0

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

Latino
type: Population
allele count: 4
allele frequency: 3.454828122300915e-4
allele num: 11578
num of homozygotes: 0

East Asian
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allele count: 0
allele frequency: 0.0e0
allele num: 8654
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)
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allele count: 6
allele frequency: 8.990919171636647e-5
allele num: 66734
num of homozygotes: 0

Other
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ReadPosRankSum
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QD
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BaseQRankSum
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MQRankSum
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ClippingRankSum
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InbreedingCoeff
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FS
type: SiteQuality
SIO_000300: 5.639999999999999e-1

VQSLOD
type: SiteQuality
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MQ
type: SiteQuality
SIO_000300: 5.96e1

DP
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GenotypeDepth
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variant carriers: 0

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

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: 10406
num of homozygotes: 0

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

East Asian
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European (Non-Finnish)
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ReadPosRankSum
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ClippingRankSum
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MQRankSum
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FS
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QD
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BaseQRankSum
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InbreedingCoeff
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DP
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MQ
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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Latino
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East Asian
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African
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South Asian
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European (Non-Finnish)
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DP
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ClippingRankSum
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ReadPosRankSum
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InbreedingCoeff
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VQSLOD
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MQRankSum
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FS
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MQ
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QD
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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European (Non-Finnish)
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South Asian
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European (Finnish)
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African
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East Asian
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BaseQRankSum
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FS
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ReadPosRankSum
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InbreedingCoeff
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MQRankSum
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DP
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MQ
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VQSLOD
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QD
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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Latino
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African
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European (Non-Finnish)
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South Asian
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East Asian
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DP
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QD
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MQ
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BaseQRankSum
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VQSLOD
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InbreedingCoeff
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ClippingRankSum
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ReadPosRankSum
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MQRankSum
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FS
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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East Asian
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South Asian
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African
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Latino
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MQRankSum
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VQSLOD
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QD
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DP
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FS
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MQ
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ReadPosRankSum
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InbreedingCoeff
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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DP
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InbreedingCoeff
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FS
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VQSLOD
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MQ
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African
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European (Non-Finnish)
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QD
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ReadPosRankSum
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VQSLOD
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MQRankSum
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BaseQRankSum
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FS
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DP
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MQ
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 1012

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

East Asian
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allele count: 18
allele frequency: 2.079963022879593e-3
allele num: 8654
num of homozygotes: 1

Latino
type: Population
allele count: 127
allele frequency: 1.096907928830541e-2
allele num: 11578
num of homozygotes: 0

African
type: Population
allele count: 19
allele frequency: 1.825869690563137e-3
allele num: 10406
num of homozygotes: 0

Other
type: Population
allele count: 6
allele frequency: 6.607929515418502e-3
allele num: 908
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 514
allele frequency: 7.701528318849266e-3
allele num: 66740
num of homozygotes: 3

European (Finnish)
type: Population
allele count: 68
allele frequency: 1.028122165104324e-2
allele num: 6614
num of homozygotes: 0

South Asian
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allele count: 266
allele frequency: 1.610949612403101e-2
allele num: 16512
num of homozygotes: 2

ClippingRankSum
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SIO_000300: -2.26e-1

FS
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MQRankSum
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MQ
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SIO_000300: 5.965e1

BaseQRankSum
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SIO_000300: -6.59e-1

QD
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SIO_000300: 1.245e1

DP
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SIO_000300: 3.172021e6

InbreedingCoeff
type: SiteQuality
SIO_000300: 1.32e-2

VQSLOD
type: SiteQuality
SIO_000300: 6.3e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 5.1e-1

GenotypeDepth
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variant carriers: 0

GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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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
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8654
num of homozygotes: 0

African
type: Population
allele count: 1
allele frequency: 9.609840476648087e-5
allele num: 10406
num of homozygotes: 0

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

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

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11578
num of homozygotes: 0

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

Other
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allele count: 0
allele frequency: 0.0e0
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BaseQRankSum
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SIO_000300: -5.03e0

VQSLOD
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SIO_000300: -4.574e0

FS
type: SiteQuality
SIO_000300: 1.0299e1

InbreedingCoeff
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QD
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SIO_000300: 1.381e1

DP
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SIO_000300: 3.097547e6

ReadPosRankSum
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MQ
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SIO_000300: 5.967e1

MQRankSum
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SIO_000300: -1.827e0

ClippingRankSum
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SIO_000300: -1.477e0

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

GenotypeQuality
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GenotypeQuality
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bin: 1.75e1
variant carriers: 0

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

Latino
type: Population
allele count: 1
allele frequency: 8.637070305752289e-5
allele num: 11578
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8654
num of homozygotes: 0

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

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66738
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10406
num of homozygotes: 0

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

ClippingRankSum
type: SiteQuality
SIO_000300: 2.87e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

DP
type: SiteQuality
SIO_000300: 3.097537e6

ReadPosRankSum
type: SiteQuality
SIO_000300: -6.73e-1

MQRankSum
type: SiteQuality
SIO_000300: 1.62e-1

VQSLOD
type: SiteQuality
SIO_000300: 7.24e-1

BaseQRankSum
type: SiteQuality
SIO_000300: 1.16e0

FS
type: SiteQuality
SIO_000300: 5.032e0

QD
type: SiteQuality
SIO_000300: 1.254e1

InbreedingCoeff
type: SiteQuality
SIO_000300: 0.0e0

GenotypeDepth
all individuals: 3331
bin: 5.75e1
variant carriers: 0

GenotypeDepth
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variant carriers: 0

GenotypeDepth
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variant carriers: 0

GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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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: 1
allele frequency: 6.056201550387597e-5
allele num: 16512
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8654
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10406
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 908
num of homozygotes: 0

Latino
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 11578
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 66738
num of homozygotes: 0

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

ClippingRankSum
type: SiteQuality
SIO_000300: 6.09e-1

FS
type: SiteQuality
SIO_000300: 1.337e0

MQ
type: SiteQuality
SIO_000300: 6.0e1

MQRankSum
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BaseQRankSum
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SIO_000300: -5.15e-1

InbreedingCoeff
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QD
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ReadPosRankSum
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VQSLOD
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SIO_000300: -3.352e-1

DP
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SIO_000300: 3.097529e6

GenotypeDepth
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variant carriers: 0

GenotypeDepth
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variant carriers: 0

GenotypeDepth
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variant carriers: 0

GenotypeDepth
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variant carriers: 1

GenotypeDepth
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variant carriers: 0

GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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variant carriers: 0

GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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East Asian
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allele count: 0
allele frequency: 0.0e0
allele num: 8654
num of homozygotes: 0

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

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

European (Finnish)
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allele count: 0
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num of homozygotes: 0

Other
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allele frequency: 0.0e0
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MQ
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MQRankSum
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FS
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QD
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VQSLOD
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BaseQRankSum
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InbreedingCoeff
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DP
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ReadPosRankSum
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SIO_000300: -7.46e-1

ClippingRankSum
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GenotypeDepth
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variant carriers: 0

GenotypeDepth
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variant carriers: 0

GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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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
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num of homozygotes: 0

African
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allele count: 0
allele frequency: 0.0e0
allele num: 10406
num of homozygotes: 0

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

European (Non-Finnish)
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allele count: 1
allele frequency: 1.498441620714457e-5
allele num: 66736
num of homozygotes: 0

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

European (Finnish)
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allele frequency: 0.0e0
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MQ
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ReadPosRankSum
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MQRankSum
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ClippingRankSum
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BaseQRankSum
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QD
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VQSLOD
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InbreedingCoeff
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DP
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FS
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GenotypeDepth
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variant carriers: 0

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

Latino
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allele frequency: 0.0e0
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num of homozygotes: 0

South Asian
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African
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European (Finnish)
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VQSLOD
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FS
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MQRankSum
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ReadPosRankSum
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BaseQRankSum
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InbreedingCoeff
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QD
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DP
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ClippingRankSum
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MQ
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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European (Non-Finnish)
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East Asian
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Latino
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African
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South Asian
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InbreedingCoeff
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ReadPosRankSum
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MQRankSum
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VQSLOD
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MQ
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FS
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QD
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DP
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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European (Finnish)
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East Asian
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South Asian
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African
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Latino
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European (Non-Finnish)
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ReadPosRankSum
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InbreedingCoeff
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FS
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VQSLOD
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QD
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ClippingRankSum
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MQRankSum
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DP
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MQ
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BaseQRankSum
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GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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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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Latino
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South Asian
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Other
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European (Non-Finnish)
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East Asian
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MQ
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DP
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QD
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InbreedingCoeff
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VQSLOD
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FS
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MQRankSum
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ReadPosRankSum
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BaseQRankSum
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ClippingRankSum
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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East Asian
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South Asian
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European (Non-Finnish)
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African
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Latino
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VQSLOD
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DP
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ReadPosRankSum
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FS
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MQ
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MQRankSum
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QD
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InbreedingCoeff
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ClippingRankSum
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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Other
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East Asian
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African
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South Asian
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QD
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FS
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DP
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MQ
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ReadPosRankSum
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VQSLOD
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BaseQRankSum
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East Asian
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African
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MQ
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FS
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VQSLOD
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MQRankSum
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ClippingRankSum
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ReadPosRankSum
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DP
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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bin: 9.75e1
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South Asian
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allele num: 16510
num of homozygotes: 0

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

African
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allele frequency: 0.0e0
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Other
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European (Non-Finnish)
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allele frequency: 0.0e0
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Latino
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BaseQRankSum
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ClippingRankSum
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FS
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MQ
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InbreedingCoeff
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VQSLOD
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QD
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MQRankSum
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ReadPosRankSum
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DP
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SIO_000300: 3.097114e6

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

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

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

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

European (Non-Finnish)
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allele frequency: 0.0e0
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FS
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ClippingRankSum
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VQSLOD
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QD
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BaseQRankSum
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MQRankSum
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ReadPosRankSum
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DP
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InbreedingCoeff
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SIO_000300: -1.0e-4

MQ
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GenotypeDepth
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variant carriers: 0

GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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Other
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allele frequency: 0.0e0
allele num: 908
num of homozygotes: 0

European (Non-Finnish)
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allele frequency: 0.0e0
allele num: 66734
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South Asian
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allele count: 0
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num of homozygotes: 0

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

African
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allele count: 1
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allele num: 10406
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East Asian
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DP
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InbreedingCoeff
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VQSLOD
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FS
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QD
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BaseQRankSum
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MQRankSum
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ReadPosRankSum
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ClippingRankSum
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SIO_000300: -1.43e-1

MQ
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SIO_000300: 5.854e1

GenotypeDepth
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variant carriers: 156

GenotypeDepth
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variant carriers: 747

GenotypeDepth
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variant carriers: 141

GenotypeDepth
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variant carriers: 92

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

South Asian
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allele count: 11
allele frequency: 6.662628709872804e-4
allele num: 16510
num of homozygotes: 0

Latino
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allele count: 182
allele frequency: 1.572218382861092e-2
allele num: 11576
num of homozygotes: 4

Other
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allele frequency: 1.211453744493392e-2
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num of homozygotes: 0

African
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allele count: 1721
allele frequency: 1.653853546031136e-1
allele num: 10406
num of homozygotes: 121

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

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

European (Non-Finnish)
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allele count: 72
allele frequency: 1.078910300596398e-3
allele num: 66734
num of homozygotes: 0

InbreedingCoeff
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BaseQRankSum
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MQ
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QD
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ReadPosRankSum
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MQRankSum
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ClippingRankSum
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DP
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FS
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VQSLOD
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GenotypeDepth
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variant carriers: 1

GenotypeDepth
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GenotypeDepth
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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Other
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num of homozygotes: 0

African
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Latino
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South Asian
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European (Finnish)
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European (Non-Finnish)
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East Asian
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DP
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ClippingRankSum
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VQSLOD
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InbreedingCoeff
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BaseQRankSum
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FS
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ReadPosRankSum
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MQRankSum
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MQ
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QD
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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African
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East Asian
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Other
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num of homozygotes: 0

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

South Asian
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ClippingRankSum
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VQSLOD
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FS
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ReadPosRankSum
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MQ
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BaseQRankSum
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InbreedingCoeff
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DP
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MQRankSum
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QD
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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African
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East Asian
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South Asian
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European (Non-Finnish)
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Other
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Latino
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European (Finnish)
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VQSLOD
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InbreedingCoeff
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DP
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QD
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FS
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MQ
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GenotypeDepth
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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GenotypeQuality
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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: 121
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 3167
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 46
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 30
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 68
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 3609
bin: 8.25e1
variant carriers: 0

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

GenotypeQuality
all individuals: 2233
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 170
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 3882
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 3668
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1801
bin: 7.25e1
variant carriers: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 906
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 1
allele frequency: 1.498756032493031e-5
allele num: 66722
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10404
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8654
num of homozygotes: 0

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

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

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16506
num of homozygotes: 0

MQ
type: SiteQuality
SIO_000300: 5.96e1

InbreedingCoeff
type: SiteQuality
SIO_000300: -2.0e-4

QD
type: SiteQuality
SIO_000300: 1.406e1

BaseQRankSum
type: SiteQuality
SIO_000300: 4.76e0

ClippingRankSum
type: SiteQuality
SIO_000300: -5.25e-1

MQRankSum
type: SiteQuality
SIO_000300: 3.2e-2

FS
type: SiteQuality
SIO_000300: 0.0e0

DP
type: SiteQuality
SIO_000300: 3.095541e6

VQSLOD
type: SiteQuality
SIO_000300: 2.87e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 1.11e0

GenotypeDepth
all individuals: 2066
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 38
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 4
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 3162
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 38827
bin: 9.75e1
variant carriers: 1

GenotypeQuality
all individuals: 1797
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 3882
bin: 9.25e1
variant carriers: 0

GenotypeQuality
all individuals: 142
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 46
bin: 5.75e1
variant carriers: 0

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

GenotypeQuality
all individuals: 48
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 72
bin: 3.25e1
variant carriers: 0

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

GenotypeQuality
all individuals: 194
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 235
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 105
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2785
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 3527
bin: 6.25e1
variant carriers: 0

GenotypeQuality
all individuals: 3607
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2233
bin: 8.75e1
variant carriers: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 906
num of homozygotes: 0

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

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 8654
num of homozygotes: 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: 1.498756032493031e-5
allele num: 66722
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10404
num of homozygotes: 0

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

BaseQRankSum
type: SiteQuality
SIO_000300: 5.47e-1

DP
type: SiteQuality
SIO_000300: 3.094896e6

FS
type: SiteQuality
SIO_000300: 0.0e0

ClippingRankSum
type: SiteQuality
SIO_000300: 9.84e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

QD
type: SiteQuality
SIO_000300: 1.545e1

InbreedingCoeff
type: SiteQuality
SIO_000300: -2.0e-4

MQRankSum
type: SiteQuality
SIO_000300: 1.09e-1

ReadPosRankSum
type: SiteQuality
SIO_000300: -1.324e0

VQSLOD
type: SiteQuality
SIO_000300: -3.211e-1

GenotypeDepth
all individuals: 811
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 173
bin: 5.75e1
variant carriers: 0

GenotypeQuality
all individuals: 115
bin: 4.25e1
variant carriers: 0

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

GenotypeQuality
all individuals: 151
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 403
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 7
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 1796
bin: 7.25e1
variant carriers: 0

GenotypeQuality
all individuals: 2232
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 44
bin: 2.25e1
variant carriers: 0

GenotypeQuality
all individuals: 38830
bin: 9.75e1
variant carriers: 18

GenotypeQuality
all individuals: 2723
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2
bin: 7.5e0
variant carriers: 0

GenotypeQuality
all individuals: 39
bin: 2.75e1
variant carriers: 0

GenotypeQuality
all individuals: 3158
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 3154
bin: 6.25e1
variant carriers: 0

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

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

GenotypeQuality
all individuals: 72
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 3612
bin: 8.25e1
variant carriers: 0

GenotypeQuality
all individuals: 3880
bin: 9.25e1
variant carriers: 0

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

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

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

South Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 16498
num of homozygotes: 0

African
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 10404
num of homozygotes: 0

Other
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 906
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 18
allele frequency: 2.697841726618705e-4
allele num: 66720
num of homozygotes: 0

ClippingRankSum
type: SiteQuality
SIO_000300: 1.13e-1

QD
type: SiteQuality
SIO_000300: 1.521e1

BaseQRankSum
type: SiteQuality
SIO_000300: 3.44e0

MQRankSum
type: SiteQuality
SIO_000300: 2.0e-2

DP
type: SiteQuality
SIO_000300: 3.094018e6

VQSLOD
type: SiteQuality
SIO_000300: 2.96e0

InbreedingCoeff
type: SiteQuality
SIO_000300: -2.0e-4

MQ
type: SiteQuality
SIO_000300: 5.963e1

FS
type: SiteQuality
SIO_000300: 0.0e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 8.999999999999999e-3

GenotypeQuality
all individuals: 528
bin: 2.5e0
variant carriers: 1

GenotypeQuality
all individuals: 845
bin: 6.75e1
variant carriers: 0

GenotypeQuality
all individuals: 402
bin: 4.75e1
variant carriers: 0

GenotypeQuality
all individuals: 92
bin: 9.25e1
variant carriers: 1

GenotypeQuality
all individuals: 285
bin: 7.25e1
variant carriers: 0

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

GenotypeQuality
all individuals: 98
bin: 2.75e1
variant carriers: 3

GenotypeQuality
all individuals: 418
bin: 5.25e1
variant carriers: 0

GenotypeQuality
all individuals: 162
bin: 4.25e1
variant carriers: 0

GenotypeQuality
all individuals: 31
bin: 1.25e1
variant carriers: 0

GenotypeQuality
all individuals: 205
bin: 8.25e1
variant carriers: 2

GenotypeQuality
all individuals: 1400
bin: 7.5e0
variant carriers: 4

GenotypeQuality
all individuals: 161
bin: 3.25e1
variant carriers: 0

GenotypeQuality
all individuals: 236
bin: 3.75e1
variant carriers: 0

GenotypeQuality
all individuals: 71
bin: 8.75e1
variant carriers: 0

GenotypeQuality
all individuals: 338
bin: 7.75e1
variant carriers: 0

GenotypeQuality
all individuals: 2791
bin: 9.75e1
variant carriers: 235

African
type: Population
allele count: 231
allele frequency: 1.281908990011099e-1
allele num: 1802
num of homozygotes: 13

Latino
type: Population
allele count: 5
allele frequency: 1.633986928104575e-2
allele num: 306
num of homozygotes: 0

East Asian
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 334
num of homozygotes: 0

European (Finnish)
type: Population
allele count: 0
allele frequency: 0.0e0
allele num: 6
num of homozygotes: 0

Other
type: Population
allele count: 2
allele frequency: 1.204819277108434e-2
allele num: 166
num of homozygotes: 0

European (Non-Finnish)
type: Population
allele count: 8
allele frequency: 1.155401502021953e-3
allele num: 6924
num of homozygotes: 0

South Asian
type: Population
allele count: 4
allele frequency: 5.230125523012552e-4
allele num: 7648
num of homozygotes: 0

InbreedingCoeff
type: SiteQuality
SIO_000300: 7.32e-2

FS
type: SiteQuality
SIO_000300: 1.995e0

BaseQRankSum
type: SiteQuality
SIO_000300: 4.31e-1

MQ
type: SiteQuality
SIO_000300: 6.0e1

VQSLOD
type: SiteQuality
SIO_000300: 1.41e0

ReadPosRankSum
type: SiteQuality
SIO_000300: 5.14e-1