HumanGenomeDating
Atlas of Variant Age
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Examples: LCT, MCM6, EDAR, ZEB1
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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

rs186908704
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  136,597,105  (GRCh37) Explore rs186908704 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 Mutation clock
Data source Estimated age of A allele # pairs = concordant + discordant Quality score
    Genomes in SGDP620.2 generations 95  =  1  +  941.000
Pairwise results table Mutation clock
Haplotype pair Pair type Data source Breakpoint positions Physical length (bp) Genetic Length (cM) α β Mean TMRCA (generations)
S_Yakut-2B + S_Thai-1B Concordant SGDP 135,757,423 – 136,852,854 1,095,430.5 0.30561406 8 526.8066 303.7
S_Yakut-2B + S_Tuscan-1B Discordant SGDP 135,760,098 – 136,762,052 1,001,954.0 0.08851659 45 481.9379 1,867.5
S_Yakut-2B + S_Palestinian-3A Discordant SGDP 135,760,098 – 136,774,712 1,014,614.0 0.09342975 55 488.0147 2,254.0
S_Yakut-2B + S_Masai-1B Discordant SGDP 136,391,342 – 136,762,052 370,710.0 0.05242810 38 178.9408 4,247.2
S_Yakut-2B + S_Mozabite-1B Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Thai-1B + S_Iranian-1A Discordant SGDP 136,389,749 – 136,774,712 384,963.0 0.05887274 22 185.7822 2,368.4
S_Thai-1B + S_Papuan-11A Discordant SGDP 135,760,098 – 136,774,712 1,014,614.0 0.09342975 52 488.0147 2,131.1
S_Thai-1B + S_Tujia-2B Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Yakut-2B + S_Hezhen-1A Discordant SGDP 135,760,098 – 136,776,467 1,016,369.5 0.09473490 45 488.8574 1,841.0
S_Yakut-2B + S_Daur-2B Discordant SGDP 135,782,261 – 136,822,338 1,040,077.0 0.16396375 40 500.2370 1,599.2
S_Yakut-2B + S_Lahu-1B Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Yakut-2B + S_Tlingit-2B Discordant SGDP 135,760,098 – 136,774,712 1,014,614.0 0.09342975 54 488.0147 2,213.0
S_Yakut-2B + S_Altaian-1A Discordant SGDP 135,760,098 – 136,774,712 1,014,614.0 0.09342975 52 488.0147 2,131.1
S_Yakut-2B + S_BantuHerero-1A Discordant SGDP 135,760,098 – 136,762,052 1,001,954.0 0.08851659 73 481.9379 3,029.4
S_Yakut-2B + S_Abkhasian-2B Discordant SGDP 135,760,098 – 136,774,712 1,014,614.0 0.09342975 51 488.0147 2,090.1
S_Yakut-2B + B_Crete-2A Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Yakut-2B + S_Naxi-1A Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Thai-1B + B_Australian-3B Discordant SGDP 135,760,098 – 136,776,467 1,016,369.5 0.09473490 59 488.8574 2,413.8
S_Yakut-2B + S_She-1B Discordant SGDP 136,589,238 – 136,649,985 60,747.5 0.01204739 4 30.1588 2,652.6
S_Thai-1B + S_Albanian-1A Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Yakut-2B + S_Japanese-2A Discordant SGDP 135,760,098 – 136,597,107 837,009.0 0.07106031 53 402.7643 2,631.8
S_Thai-1B + S_Lezgin-1A Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Yakut-2B + S_Korean-2B Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Yakut-2B + S_Samaritan-1B Discordant SGDP 136,389,749 – 136,774,712 384,963.0 0.05887274 21 185.7822 2,260.7
S_Yakut-2B + S_Korean-1A Discordant SGDP 135,760,098 – 136,776,467 1,016,369.5 0.09473490 37 488.8574 1,513.7
S_Yakut-2B + S_Palestinian-2A Discordant SGDP 135,760,098 – 136,774,712 1,014,614.0 0.09342975 57 488.0147 2,336.0
S_Yakut-2B + S_Burmese-1B Discordant SGDP 136,080,619 – 136,776,467 695,848.0 0.07473184 32 335.0070 1,910.4
S_Yakut-2B + S_Sardinian-2B Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Yakut-2B + S_Ami-1B Discordant SGDP 135,760,098 – 136,776,467 1,016,369.5 0.09473490 37 488.8574 1,513.7
S_Yakut-2B + S_Russian-1A Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Yakut-2B + S_Thai-2B Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Yakut-2B + S_Saharawi-1B Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Yakut-2B + S_Kinh-1A Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Thai-1B + S_Tlingit-1A Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Yakut-2B + B_Australian-4A Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Thai-1B + S_Japanese-1B Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Yakut-2B + S_Dusun-1B Discordant SGDP 135,942,298 – 136,776,467 834,169.0 0.07981122 31 401.4011 1,544.6
S_Thai-1B + S_Papuan-1A Discordant SGDP 135,760,098 – 136,774,712 1,014,614.0 0.09342975 49 488.0147 2,008.1
S_Yakut-2B + S_Bougainville-2B Discordant SGDP 135,760,098 – 136,774,712 1,014,614.0 0.09342975 50 488.0147 2,049.1
S_Thai-1B + S_Brahmin-2A Discordant SGDP 135,782,261 – 136,762,052 979,790.5 0.07868380 59 471.2994 2,503.7
S_Yakut-2B + S_Bougainville-1A Discordant SGDP 135,760,098 – 136,762,052 1,001,954.0 0.08851659 47 481.9379 1,950.5
S_Thai-1B + S_Greek-1B Discordant SGDP 135,760,098 – 136,774,712 1,014,614.0 0.09342975 69 488.0147 2,827.8
S_Yakut-2B + S_Papuan-7A Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Thai-1B + S_Jordanian-1B Discordant SGDP 135,760,098 – 136,762,052 1,001,954.0 0.08851659 57 481.9379 2,365.4
S_Yakut-2B + S_Papuan-9B Discordant SGDP 135,760,098 – 136,649,985 889,887.5 0.08225686 40 428.1460 1,868.5
S_Thai-1B + S_Mandenka-1A Discordant SGDP 135,760,098 – 136,774,712 1,014,614.0 0.09342975 69 488.0147 2,827.8
S_Yakut-2B + S_Mansi-2B Discordant SGDP 135,760,098 – 136,774,712 1,014,614.0 0.09342975 53 488.0147 2,172.1
S_Yakut-2B + S_Iraqi_Jew-1B Discordant SGDP 135,760,098 – 136,776,467 1,016,369.5 0.09473490 54 488.8574 2,209.2
S_Yakut-2B + S_Bengali-2B Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Yakut-2B + S_Druze-2A Discordant SGDP 135,760,098 – 136,774,712 1,014,614.0 0.09342975 48 488.0147 1,967.2
S_Yakut-2B + S_Yadava-1A Discordant SGDP 136,389,749 – 136,762,052 372,303.0 0.05395958 25 179.7054 2,782.3
S_Yakut-2B + S_Druze-1A Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Yakut-2B + S_Yadava-2A Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Yakut-2B + S_Palestinian-2B Discordant SGDP 136,389,749 – 136,774,712 384,963.0 0.05887274 30 185.7822 3,229.6
S_Yakut-2B + S_Irula-2A Discordant SGDP 135,760,098 – 136,642,220 882,122.5 0.07987209 46 424.4188 2,167.7
S_Yakut-2B + S_Sardinian-1A Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Yakut-2B + S_Khonda_Dora-1A Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Yakut-2B + S_Tuscan-2B Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Yakut-2B + S_Mala-3B Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Yakut-2B + S_Jordanian-1B Discordant SGDP 135,760,098 – 136,762,052 1,001,954.0 0.08851659 54 481.9379 2,241.0
S_Yakut-2B + S_Brahui-2A Discordant SGDP 135,760,098 – 136,774,712 1,014,614.0 0.09342975 51 488.0147 2,090.1
S_Yakut-2B + S_Abkhasian-2A Discordant SGDP 136,389,749 – 136,642,220 252,471.5 0.04531508 20 122.1863 3,273.7
S_Yakut-2B + S_Makrani-1B Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Yakut-2B + S_Chechen-1B Discordant SGDP 135,760,098 – 136,762,052 1,001,954.0 0.08851659 53 481.9379 2,199.5
S_Yakut-2B + S_Balochi-1B Discordant SGDP 135,760,098 – 136,649,985 889,887.5 0.08225686 52 428.1460 2,429.1
S_Yakut-2B + S_Tajik-1A Discordant SGDP 135,760,098 – 136,774,712 1,014,614.0 0.09342975 54 488.0147 2,213.0
S_Yakut-2B + S_Luhya-2B Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Yakut-2B + S_Mandenka-1B Discordant SGDP 135,760,098 – 136,774,712 1,014,614.0 0.09342975 73 488.0147 2,991.7
S_Yakut-2B + S_Luo-2A Discordant SGDP 135,760,098 – 136,762,052 1,001,954.0 0.08851659 69 481.9379 2,863.4
S_Thai-1B + S_Cambodian-2A Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Yakut-2B + S_Sindhi-1B Discordant SGDP 135,760,098 – 136,774,712 1,014,614.0 0.09342975 53 488.0147 2,172.1
S_Thai-1B + S_Tujia-1A Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Yakut-2B + S_Armenian-2A Discordant SGDP 135,760,098 – 136,774,712 1,014,614.0 0.09342975 52 488.0147 2,131.1
S_Thai-1B + B_Australian-3A Discordant SGDP 135,760,098 – 136,774,712 1,014,614.0 0.09342975 54 488.0147 2,213.0
S_Yakut-2B + S_Finnish-2A Discordant SGDP 135,760,098 – 136,774,712 1,014,614.0 0.09342975 57 488.0147 2,336.0
S_Thai-1B + S_Bougainville-1B Discordant SGDP 135,760,098 – 136,774,712 1,014,614.0 0.09342975 65 488.0147 2,663.9
S_Yakut-2B + S_Finnish-2B Discordant SGDP 135,760,098 – 136,774,712 1,014,614.0 0.09342975 56 488.0147 2,295.0
S_Thai-1B + S_Papuan-10A Discordant SGDP 135,760,098 – 136,774,712 1,014,614.0 0.09342975 43 488.0147 1,762.2
S_Yakut-2B + S_French-1B Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Thai-1B + S_Hawaiian-1B Discordant SGDP 135,760,098 – 136,785,841 1,025,743.0 0.10319507 41 493.3566 1,662.1
S_Yakut-2B + S_Basque-2B Discordant SGDP 136,557,025 – 136,776,467 219,442.0 0.02883100 14 106.3322 2,633.3
S_Thai-1B + S_Madiga-2B Discordant SGDP 135,760,098 – 136,776,467 1,016,369.5 0.09473490 40 488.8574 1,636.5
S_Yakut-2B + S_Georgian-2A Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Thai-1B + S_Georgian-1B Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Yakut-2B + S_Greek-1A Discordant SGDP 135,760,098 – 136,642,220 882,122.5 0.07987209 43 424.4188 2,026.3
S_Thai-1B + S_Hungarian-1B Discordant SGDP 135,760,098 – 136,642,220 882,122.5 0.07987209 50 424.4188 2,356.2
S_Yakut-2B + S_Greek-2A Discordant SGDP 135,760,098 – 136,774,712 1,014,614.0 0.09342975 61 488.0147 2,499.9
S_Thai-1B + S_Masai-1B Discordant SGDP 136,407,322 – 136,762,052 354,730.0 0.05005543 38 171.2704 4,437.4
S_Yakut-2B + S_Masai-2B Discordant SGDP 136,391,342 – 136,762,052 370,710.0 0.05242810 39 178.9408 4,359.0
S_Thai-1B + S_Russian-2A Discordant SGDP 135,760,098 – 136,774,712 1,014,614.0 0.09342975 64 488.0147 2,622.9
S_Yakut-2B + S_Iranian-2A Discordant SGDP 135,760,098 – 136,774,712 1,014,614.0 0.09342975 49 488.0147 2,008.1
S_Thai-1B + S_Turkish-1A Discordant SGDP 136,597,086 – 136,597,107 20.5 0.00000139 2 1.0098 39,610.2
S_Yakut-2B + S_Iraqi_Jew-2B Discordant SGDP 135,340,792 – 136,774,712 1,433,919.5 0.38519553 114 689.2814 3,307.8
S_Thai-1B + S_Karitiana-1B Discordant SGDP 135,760,098 – 136,776,467 1,016,369.5 0.09473490 43 488.8574 1,759.2
S_Yakut-2B + S_Iraqi_Jew-1A Discordant SGDP 135,760,098 – 136,776,467 1,016,369.5 0.09473490 45 488.8574 1,841.0
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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