HumanGenomeDating
Atlas of Variant Age
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Examples: LCT, MCM6, EDAR, ZEB1
Shared Ancestry Database
TGP
1000 Genomes Project
Populations: 26
Individuals: 2,535
Ancestry analyses:565,507,800
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SGDP
Simons Genome Diversity Project
Populations: 130
Individuals: 278
Ancestry analyses:6,800,992
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Genealogical Estimation of Variant Age (GEVA)

Inference of the ancestral origin of a genetic variant at a single locus

rs545884536
Alleles:
reference
G
ancestral
alternate
A
derived
Age estimated for the alternate allele, assuming that it was derived from the reference allele as the ancestral state.
How was the ancestral/derived state determined?Chromosome 2   position  109,597,042  (GRCh37) Explore rs545884536 on Ensembl!
Allele frequency in   SGDP ⇪
Sample 99.6%
0.4%
AFR 100.0%
0.0%
AMR 100.0%
0.0%
CAS 98.1%
1.9%
EAS 98.9%
1.1%
OCN 100.0%
0.0%
SAS 100.0%
0.0%
WEA 100.0%
0.0%
reference ← allele frequency → alternate
Select clock model
  Mutation clock
  Recombination clock
  Joint clock
Age estimation summary Recombination clock
Data source Estimated age of A allele # pairs = concordant + discordant Quality score
    Genomes in SGDP37.6 generations 87  =  1  +  860.988
Pairwise results table Recombination clock
Haplotype pair Pair type Data source Breakpoint positions Physical length (bp) Genetic Length (cM) α β Mean TMRCA (generations)
S_Altaian-1A + S_Burmese-2A Concordant SGDP 109,541,915 – 109,627,534 85,618.5 0.14311594 3 115.4928 519.5
S_Altaian-1A + S_Khonda_Dora-1B Discordant SGDP 109,586,336 – 109,615,525 29,189.0 0.01452513 3 12.6201 4,754.3
S_Altaian-1A + S_Mozabite-2B Discordant SGDP 109,597,034 – 109,597,053 19.0 0.00000289 3 1.0023 59,861.8
S_Altaian-1A + S_Igorot-2B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Thai-1A Discordant SGDP 109,597,034 – 109,597,053 19.0 0.00000289 3 1.0023 59,861.8
S_Altaian-1A + S_Zapotec-1B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Karitiana-1B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Bergamo-2A Discordant SGDP 109,597,034 – 109,597,053 19.0 0.00000289 3 1.0023 59,861.8
S_Altaian-1A + S_Zapotec-2A Discordant SGDP 108,954,234 – 109,597,053 642,819.0 0.34308372 3 275.4670 217.8
S_Altaian-1A + S_Mixtec-2B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Mixtec-2A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Mixtec-1A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Mixe-3B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Mixe-2A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Burusho-2A Discordant SGDP 109,589,629 – 109,615,525 25,896.0 0.01171270 3 10.3702 5,785.8
S_Altaian-1A + S_Saami-1B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Quechua-3A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + B_Han-3B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Quechua-2A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Pima-2B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Quechua-1A Discordant SGDP 108,954,234 – 109,597,053 642,819.0 0.34308372 3 275.4670 217.8
S_Altaian-1A + S_Burmese-1A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Mongola-1B Discordant SGDP 109,543,810 – 109,615,525 71,715.5 0.07637451 3 62.0996 966.2
S_Altaian-1A + S_Dusun-2B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Yakut-1B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Itelman-1B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Altaian-1B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Relli-1B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Ulchi-2A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Hazara-2A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Ulchi-2B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Czech-2A Discordant SGDP 109,597,034 – 109,597,053 19.0 0.00000289 3 1.0023 59,861.8
S_Altaian-1A + S_Ulchi-1A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Druze-2A Discordant SGDP 109,586,336 – 109,615,525 29,189.0 0.01452513 3 12.6201 4,754.3
S_Altaian-1A + S_Aleut-1A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Kyrgyz-1B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Even-3B Discordant SGDP 108,954,234 – 109,997,580 1,043,345.5 0.73733073 3 590.8646 101.5
S_Altaian-1A + B_Mixe-1A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Even-2A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Pima-1A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Even-2B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Mayan-2A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Eskimo_Chaplin-1B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Korean-1A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Tlingit-2A Discordant SGDP 109,597,034 – 109,597,053 19.0 0.00000289 3 1.0023 59,861.8
S_Altaian-1A + S_Ami-2B Discordant SGDP 108,954,234 – 109,597,053 642,819.0 0.34308372 3 275.4670 217.8
S_Altaian-1A + S_Cambodian-1B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Kinh-1A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Cambodian-2B Discordant SGDP 109,589,629 – 109,615,525 25,896.0 0.01171270 3 10.3702 5,785.8
S_Altaian-1A + S_Dusun-1B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Lahu-1A Discordant SGDP 109,586,336 – 109,615,525 29,189.0 0.01452513 3 12.6201 4,754.3
S_Altaian-1A + S_Hawaiian-1A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Miao-1B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Eskimo_Naukan-1B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Han-1B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Eskimo_Sireniki-2B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Miao-2B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Mala-2A Discordant SGDP 109,589,629 – 109,615,525 25,896.0 0.01171270 3 10.3702 5,785.8
S_Altaian-1A + S_Tu-2A Discordant SGDP 109,597,034 – 109,597,053 19.0 0.00000289 3 1.0023 59,861.8
S_Altaian-1A + S_Kusunda-2B Discordant SGDP 109,597,034 – 109,597,053 19.0 0.00000289 3 1.0023 59,861.8
S_Altaian-1A + S_Daur-2B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Hazara-2B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Oroqen-2A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Armenian-2A Discordant SGDP 109,597,034 – 109,597,053 19.0 0.00000289 3 1.0023 59,861.8
S_Altaian-1A + S_Tujia-2B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Estonian-2A Discordant SGDP 109,597,034 – 109,597,053 19.0 0.00000289 3 1.0023 59,861.8
S_Altaian-1A + S_Hezhen-1A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Georgian-1B Discordant SGDP 109,586,336 – 109,615,525 29,189.0 0.01452513 3 12.6201 4,754.3
S_Altaian-1A + S_Yi-1B Discordant SGDP 109,597,034 – 109,597,053 19.0 0.00000289 3 1.0023 59,861.8
S_Altaian-1A + S_Masai-1B Discordant SGDP 109,597,034 – 109,597,053 19.0 0.00000289 3 1.0023 59,861.8
S_Altaian-1A + S_Dai-2A Discordant SGDP 108,954,234 – 109,597,053 642,819.0 0.34308372 3 275.4670 217.8
S_Altaian-1A + S_Kyrgyz-2A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Uygur-2A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + B_Dai-4A Discordant SGDP 108,954,234 – 109,597,053 642,819.0 0.34308372 3 275.4670 217.8
S_Altaian-1A + S_Xibo-2A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + B_Karitiana-3A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_She-2B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Surui-1A Discordant SGDP 109,597,034 – 109,597,053 19.0 0.00000289 3 1.0023 59,861.8
S_Altaian-1A + S_She-1A Discordant SGDP 108,954,234 – 109,599,057 644,823.0 0.34405212 3 276.2417 217.2
S_Altaian-1A + S_Piapoco-2B Discordant SGDP 109,597,034 – 109,597,053 19.0 0.00000289 3 1.0023 59,861.8
S_Altaian-1A + S_Dai-1A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Pima-2A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Japanese-2B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Mayan-1A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Altaian-1A + S_Korean-2A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Burmese-2A + S_Abkhasian-2A Discordant SGDP 109,597,034 – 109,597,053 19.0 0.00000289 3 1.0023 59,861.8
S_Altaian-1A + S_Korean-2B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
View as figure
Data shown in this table can be downloaded from this page.
α Shape parameter of the Gamma distribution, calculated from the number of pairwise differences along the sequence of the inferred shared haplotype segment (mutation clock), or the breakpoints detected (recombination clock), or both (joint clock); plus the parameter of the coalescent prior distribution (equal to 1 by default).
β Rate parameter of the Gamma distribution, calculated from the physical length of the inferred shared haplotype segment and the mutation rate (mutation clock), or the genetic length given the variable recombination rate (recombination clock), or both (joint clock); plus the parameter of the coalescent prior distribution (equal to 1 by default).
Mean TMRCA Calculated as the mean of the Gamma distribution with parameters α and β, multiplied by 2 x Ne, where Ne = 10,000 by default.
 

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