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

rs959763281
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  109,575,913  (GRCh37) Explore rs959763281 on Ensembl!
Allele frequency in   SGDP ⇪
Sample 99.6%
0.4%
AFR 100.0%
0.0%
AMR 100.0%
0.0%
CAS 100.0%
0.0%
EAS 100.0%
0.0%
OCN 96.0%
4.0%
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 SGDP35.1 generations 86  =  1  +  850.859
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_Maori-1A + S_Hawaiian-1A Concordant SGDP 108,954,234 – 109,627,534 673,299.5 0.38319807 3 307.5585 195.1
S_Hawaiian-1A + S_Dusun-2A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + S_Korean-1B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + S_She-2B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + S_Dai-2B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + S_Oroqen-2B Discordant SGDP 109,575,893 – 109,576,003 110.5 0.00005448 3 1.0436 57,494.2
S_Hawaiian-1A + S_Karitiana-2B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + B_Karitiana-3A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Maori-1A + S_Hezhen-2A Discordant SGDP 108,954,234 – 109,583,351 629,116.5 0.30289591 3 243.3167 246.6
S_Maori-1A + S_Even-1A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Maori-1A + S_Tlingit-1A Discordant SGDP 109,575,893 – 109,576,003 110.5 0.00005448 3 1.0436 57,494.2
S_Maori-1A + S_Eskimo_Chaplin-1A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Maori-1A + S_Even-3B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Maori-1A + S_Eskimo_Sireniki-1B Discordant SGDP 108,954,234 – 109,627,003 672,768.5 0.36524447 3 293.1956 204.6
S_Maori-1A + S_Aleut-1A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + S_Hawaiian-1B Discordant SGDP 108,954,234 – 110,096,282 1,142,047.5 0.83979795 3 672.8384 89.2
S_Hawaiian-1A + S_Saami-1A Discordant SGDP 109,575,893 – 109,576,003 110.5 0.00005448 3 1.0436 57,494.2
S_Maori-1A + S_Uygur-1B Discordant SGDP 109,543,810 – 109,615,525 71,715.5 0.07637451 3 62.0996 966.2
S_Hawaiian-1A + S_Chane-1B Discordant SGDP 108,954,234 – 109,581,776 627,542.0 0.29783063 3 239.2645 250.8
S_Maori-1A + S_Xibo-1B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + S_Mayan-1A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Maori-1A + S_Xibo-2A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + S_Hezhen-1A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Maori-1A + S_She-1A Discordant SGDP 108,954,234 – 109,583,351 629,116.5 0.30289591 3 243.3167 246.6
S_Hawaiian-1A + S_Naxi-1B Discordant SGDP 109,573,916 – 109,583,351 9,435.0 0.01014696 3 9.1176 6,580.7
S_Maori-1A + S_Thai-2A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + S_Japanese-2B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Maori-1A + S_Kinh-1A Discordant SGDP 108,954,234 – 109,627,003 672,768.5 0.36524447 3 293.1956 204.6
S_Hawaiian-1A + S_Ami-1B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Maori-1A + S_Itelman-1B Discordant SGDP 108,954,234 – 110,044,774 1,090,539.5 0.82425140 3 660.4011 90.9
S_Hawaiian-1A + S_Dusun-1A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Maori-1A + S_Eskimo_Naukan-1A Discordant SGDP 108,954,234 – 109,627,003 672,768.5 0.36524447 3 293.1956 204.6
S_Hawaiian-1A + S_Hazara-2B Discordant SGDP 108,954,234 – 110,031,035 1,076,801.0 0.80862409 3 647.8993 92.6
S_Maori-1A + S_Eskimo_Naukan-2B Discordant SGDP 108,954,234 – 109,627,003 672,768.5 0.36524447 3 293.1956 204.6
S_Hawaiian-1A + S_Kyrgyz-1B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Maori-1A + S_Eskimo_Sireniki-2B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + B_Mixe-1A Discordant SGDP 108,954,234 – 110,096,282 1,142,047.5 0.83979795 3 672.8384 89.2
S_Maori-1A + S_Atayal-1A Discordant SGDP 108,954,234 – 109,627,003 672,768.5 0.36524447 3 293.1956 204.6
S_Hawaiian-1A + S_Karitiana-1A Discordant SGDP 108,954,234 – 109,581,776 627,542.0 0.29783063 3 239.2645 250.8
S_Maori-1A + S_Piapoco-2A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + S_Pima-1B Discordant SGDP 108,954,234 – 109,583,351 629,116.5 0.30289591 3 243.3167 246.6
S_Hawaiian-1A + S_Mixe-2A Discordant SGDP 108,954,234 – 110,096,282 1,142,047.5 0.83979795 3 672.8384 89.2
S_Maori-1A + S_Tubalar-1B Discordant SGDP 109,543,810 – 109,615,525 71,715.5 0.07637451 3 62.0996 966.2
S_Hawaiian-1A + S_Mixe-2B Discordant SGDP 108,954,234 – 110,096,282 1,142,047.5 0.83979795 3 672.8384 89.2
S_Hawaiian-1A + S_Tujia-2B Discordant SGDP 108,954,234 – 109,627,003 672,768.5 0.36524447 3 293.1956 204.6
S_Hawaiian-1A + S_Mixe-3A Discordant SGDP 108,954,234 – 109,627,003 672,768.5 0.36524447 3 293.1956 204.6
S_Hawaiian-1A + S_Tujia-1A Discordant SGDP 108,954,234 – 110,096,282 1,142,047.5 0.83979795 3 672.8384 89.2
S_Hawaiian-1A + S_Mixtec-1A Discordant SGDP 108,954,234 – 110,096,282 1,142,047.5 0.83979795 3 672.8384 89.2
S_Hawaiian-1A + S_Xibo-2A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + S_Mixtec-2A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + S_She-2A Discordant SGDP 108,954,234 – 110,031,035 1,076,801.0 0.80862409 3 647.8993 92.6
S_Hawaiian-1A + S_Mixtec-2B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + S_Dai-1A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + S_Zapotec-2A Discordant SGDP 108,954,234 – 109,581,776 627,542.0 0.29783063 3 239.2645 250.8
S_Hawaiian-1A + S_Korean-2B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + S_Quechua-3B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + S_Burmese-1B Discordant SGDP 108,954,234 – 109,627,003 672,768.5 0.36524447 3 293.1956 204.6
S_Hawaiian-1A + S_Quechua-2B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + S_Thai-1B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + S_Quechua-1B Discordant SGDP 108,954,234 – 110,096,282 1,142,047.5 0.83979795 3 672.8384 89.2
S_Hawaiian-1A + S_Dusun-2B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + S_Mongola-1A Discordant SGDP 109,555,610 – 109,615,525 59,915.5 0.07148272 3 58.1862 1,031.2
S_Hawaiian-1A + S_Igorot-2B Discordant SGDP 108,954,234 – 110,096,282 1,142,047.5 0.83979795 3 672.8384 89.2
S_Hawaiian-1A + S_Yakut-1B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + S_Eskimo_Sireniki-2A Discordant SGDP 108,954,234 – 109,627,003 672,768.5 0.36524447 3 293.1956 204.6
S_Hawaiian-1A + S_Ulchi-2A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + S_Armenian-2A Discordant SGDP 109,575,893 – 109,576,003 110.5 0.00005448 3 1.0436 57,494.2
S_Hawaiian-1A + S_Ulchi-2B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + S_Kyrgyz-2A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + S_Ulchi-1B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + B_Han-3B Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + S_Even-2A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + B_Karitiana-3B Discordant SGDP 108,954,234 – 109,627,003 672,768.5 0.36524447 3 293.1956 204.6
S_Hawaiian-1A + S_Eskimo_Chaplin-1B Discordant SGDP 108,954,234 – 109,627,003 672,768.5 0.36524447 3 293.1956 204.6
S_Hawaiian-1A + B_Mixe-1B Discordant SGDP 108,954,234 – 109,627,003 672,768.5 0.36524447 3 293.1956 204.6
S_Hawaiian-1A + S_Mansi-1B Discordant SGDP 108,954,234 – 109,627,003 672,768.5 0.36524447 3 293.1956 204.6
S_Hawaiian-1A + S_Surui-1B Discordant SGDP 108,954,234 – 110,096,282 1,142,047.5 0.83979795 3 672.8384 89.2
S_Hawaiian-1A + S_Cambodian-1A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + S_Karitiana-2A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + S_Cambodian-2A Discordant SGDP 109,575,893 – 109,576,003 110.5 0.00005448 3 1.0436 57,494.2
S_Hawaiian-1A + S_Pima-1A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + S_Han-1B Discordant SGDP 108,954,234 – 109,627,003 672,768.5 0.36524447 3 293.1956 204.6
S_Hawaiian-1A + S_Pima-2B Discordant SGDP 108,954,234 – 110,002,153 1,047,918.5 0.74461388 3 596.6911 100.6
S_Hawaiian-1A + S_Miao-2A Discordant SGDP 108,954,234 – 109,583,351 629,116.5 0.30289591 3 243.3167 246.6
S_Hawaiian-1A + S_Mayan-2A Discordant SGDP 108,954,234 – 109,615,525 661,291.0 0.35170335 3 282.3627 212.5
S_Hawaiian-1A + S_Oroqen-1B 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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