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

rs533161787
Alleles:
reference
A
ancestral
alternate
G
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  136,655,768  (GRCh37) Explore rs533161787 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 97.9%
2.1%
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 G allele # pairs = concordant + discordant Quality score
    Genomes in SGDP140.9 generations 93  =  1  +  920.989
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_Dai-3B + S_Daur-2B Concordant SGDP 136,555,597 – 136,825,844 270,247.0 0.15563943 3 125.5115 478.0
S_Daur-2B + S_Basque-2B Discordant SGDP 136,557,025 – 136,776,467 219,442.0 0.02883100 3 24.0648 2,493.3
S_Daur-2B + S_Armenian-2A Discordant SGDP 136,389,749 – 136,774,712 384,963.0 0.05887274 3 48.0982 1,247.4
S_Daur-2B + S_Balochi-1A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 3 1.0009 59,943.4
S_Daur-2B + S_Brahmin-2A Discordant SGDP 135,760,098 – 136,762,052 1,001,954.0 0.08851659 3 71.8133 835.5
S_Daur-2B + S_Tajik-1A Discordant SGDP 136,389,749 – 136,774,712 384,963.0 0.05887274 3 48.0982 1,247.4
S_Daur-2B + S_Tuscan-1B Discordant SGDP 135,782,261 – 136,762,052 979,790.5 0.07868380 3 63.9470 938.3
S_Daur-2B + S_Masai-1B Discordant SGDP 135,909,353 – 136,762,052 852,698.5 0.07621271 3 61.9702 968.2
S_Daur-2B + S_Yakut-2B Discordant SGDP 135,782,261 – 136,822,338 1,040,077.0 0.16396375 3 132.1710 454.0
S_Daur-2B + S_Altaian-1A Discordant SGDP 136,389,749 – 136,774,712 384,963.0 0.05887274 3 48.0982 1,247.4
S_Daur-2B + S_Mongola-2B Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 3 1.0009 59,943.4
S_Daur-2B + S_BantuHerero-1A Discordant SGDP 135,778,044 – 136,762,052 984,008.0 0.07978017 3 64.8241 925.6
S_Daur-2B + S_Mozabite-1A Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 3 68.7547 872.7
S_Dai-3B + S_Thai-2B Discordant SGDP 136,655,758 – 137,311,903 656,144.5 0.73542195 3 589.3376 101.8
S_Daur-2B + S_Hungarian-1A Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 3 68.7547 872.7
S_Daur-2B + S_Iraqi_Jew-2B Discordant SGDP 136,389,749 – 136,774,712 384,963.0 0.05887274 3 48.0982 1,247.4
S_Daur-2B + S_Tlingit-2A Discordant SGDP 136,654,786 – 136,655,774 988.0 0.00031418 3 1.2513 47,948.4
S_Daur-2B + S_Palestinian-3B Discordant SGDP 135,778,044 – 136,762,052 984,008.0 0.07978017 3 64.8241 925.6
S_Daur-2B + S_Tlingit-1B Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 3 68.7547 872.7
S_Daur-2B + S_Russian-2B Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 3 68.7547 872.7
S_Daur-2B + S_Lahu-1B Discordant SGDP 136,654,786 – 136,655,774 988.0 0.00031418 3 1.2513 47,948.4
S_Daur-2B + S_Mandenka-1B Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 3 68.7547 872.7
S_Daur-2B + S_Tu-2B Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 3 1.0009 59,943.4
S_Daur-2B + S_Brahui-2A Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 3 68.7547 872.7
S_Daur-2B + S_Tujia-2A Discordant SGDP 135,782,261 – 136,822,338 1,040,077.0 0.16396375 3 132.1710 454.0
S_Daur-2B + S_Sindhi-1B Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 3 68.7547 872.7
S_Daur-2B + S_Hezhen-1B Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 3 1.0009 59,943.4
S_Daur-2B + S_Finnish-2A Discordant SGDP 136,389,749 – 136,774,712 384,963.0 0.05887274 3 48.0982 1,247.4
S_Daur-2B + S_Xibo-1A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 3 1.0009 59,943.4
S_Daur-2B + S_Georgian-1A Discordant SGDP 136,389,749 – 136,774,712 384,963.0 0.05887274 3 48.0982 1,247.4
S_Daur-2B + S_Yi-2B Discordant SGDP 136,654,786 – 136,655,774 988.0 0.00031418 3 1.2513 47,948.4
S_Daur-2B + S_Iranian-2A Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 3 68.7547 872.7
S_Daur-2B + S_Uygur-2A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 3 1.0009 59,943.4
S_Daur-2B + S_Samaritan-1A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 3 1.0009 59,943.4
S_Daur-2B + S_Naxi-1B Discordant SGDP 135,782,261 – 136,776,467 994,206.0 0.08490211 3 68.9217 870.6
S_Daur-2B + S_Palestinian-2A Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 3 68.7547 872.7
S_Daur-2B + S_Japanese-2B Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 3 1.0009 59,943.4
S_Daur-2B + S_Sardinian-2A Discordant SGDP 136,389,749 – 136,774,712 384,963.0 0.05887274 3 48.0982 1,247.4
S_Daur-2B + S_Korean-2B Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 3 1.0009 59,943.4
S_Daur-2B + S_Russian-1B Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 3 68.7547 872.7
S_Daur-2B + S_Korean-1A Discordant SGDP 135,909,353 – 136,776,467 867,114.0 0.08243101 3 66.9448 896.3
S_Daur-2B + S_Chechen-1B Discordant SGDP 136,389,749 – 136,762,052 372,303.0 0.05395958 3 44.1677 1,358.5
S_Daur-2B + S_Burmese-2A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 3 1.0009 59,943.4
S_Daur-2B + B_Crete-2A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 3 1.0009 59,943.4
S_Daur-2B + S_Burmese-1B Discordant SGDP 136,080,619 – 136,776,467 695,848.0 0.07473184 3 60.7855 987.1
S_Dai-3B + S_Quechua-1A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 3 1.0009 59,943.4
S_Daur-2B + S_Ami-1B Discordant SGDP 135,782,261 – 136,776,467 994,206.0 0.08490211 3 68.9217 870.6
S_Daur-2B + S_Madiga-2B Discordant SGDP 135,782,261 – 136,776,467 994,206.0 0.08490211 3 68.9217 870.6
S_Daur-2B + S_Ami-2B Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 3 1.0009 59,943.4
S_Daur-2B + S_Makrani-1A Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 3 68.7547 872.7
S_Daur-2B + S_Thai-1A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 3 1.0009 59,943.4
S_Daur-2B + S_Sindhi-1A Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 3 68.7547 872.7
S_Daur-2B + S_Thai-2A Discordant SGDP 135,993,765 – 136,762,052 768,286.5 0.07200356 3 58.6028 1,023.8
S_Daur-2B + S_Albanian-1A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 3 1.0009 59,943.4
S_Daur-2B + S_Kinh-2A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 3 1.0009 59,943.4
S_Daur-2B + S_Saharawi-1A Discordant SGDP 136,389,749 – 136,774,712 384,963.0 0.05887274 3 48.0982 1,247.4
S_Daur-2B + S_Kinh-1A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 3 1.0009 59,943.4
S_Daur-2B + S_French-1A Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 3 68.7547 872.7
S_Daur-2B + B_Australian-3B Discordant SGDP 135,778,044 – 136,776,467 998,423.5 0.08599847 3 69.7988 859.6
S_Daur-2B + S_Georgian-2B Discordant SGDP 136,389,749 – 136,774,712 384,963.0 0.05887274 3 48.0982 1,247.4
S_Daur-2B + B_Australian-4A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 3 1.0009 59,943.4
S_Daur-2B + S_Greek-1A Discordant SGDP 135,778,044 – 136,655,774 877,730.0 0.07673410 3 62.3873 961.7
S_Daur-2B + S_Dusun-1A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 3 1.0009 59,943.4
S_Daur-2B + S_Iranian-1A Discordant SGDP 135,760,098 – 136,774,712 1,014,614.0 0.09342975 3 75.7438 792.1
S_Daur-2B + S_Bougainville-2A Discordant SGDP 136,654,786 – 136,655,774 988.0 0.00031418 3 1.2513 47,948.4
S_Daur-2B + S_Iraqi_Jew-2A Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 3 68.7547 872.7
S_Daur-2B + S_Bougainville-1A Discordant SGDP 135,778,044 – 136,762,052 984,008.0 0.07978017 3 64.8241 925.6
S_Daur-2B + S_Iraqi_Jew-1A Discordant SGDP 135,782,261 – 136,776,467 994,206.0 0.08490211 3 68.9217 870.6
S_Daur-2B + S_Papuan-1B Discordant SGDP 136,654,786 – 136,655,774 988.0 0.00031418 3 1.2513 47,948.4
S_Daur-2B + S_Druze-2B Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 3 1.0009 59,943.4
S_Daur-2B + S_Papuan-10A Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 3 68.7547 872.7
S_Daur-2B + S_Druze-1B Discordant SGDP 135,770,859 – 136,774,712 1,003,853.0 0.08580250 3 69.6420 861.5
S_Daur-2B + S_Papuan-11B Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 3 1.0009 59,943.4
S_Daur-2B + S_Palestinian-3A Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 3 68.7547 872.7
S_Daur-2B + S_Papuan-7B Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 3 68.7547 872.7
S_Daur-2B + S_Sardinian-1B Discordant SGDP 136,500,227 – 136,774,712 274,484.5 0.03728607 3 30.8289 1,946.2
S_Daur-2B + S_Papuan-9B Discordant SGDP 135,778,044 – 136,655,774 877,730.0 0.07673410 3 62.3873 961.7
S_Daur-2B + S_Tuscan-2B Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 3 1.0009 59,943.4
S_Daur-2B + S_Hawaiian-1A Discordant SGDP 135,782,261 – 136,655,774 873,512.5 0.07563774 3 61.5102 975.4
S_Daur-2B + S_Jordanian-1A Discordant SGDP 135,993,765 – 136,774,712 780,946.5 0.07691672 3 62.5334 959.5
S_Daur-2B + S_Mansi-2B Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 3 68.7547 872.7
S_Daur-2B + S_Russian-2A Discordant SGDP 136,389,749 – 136,774,712 384,963.0 0.05887274 3 48.0982 1,247.4
S_Daur-2B + S_Bengali-2B Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 3 1.0009 59,943.4
S_Daur-2B + S_Abkhasian-2B Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 3 68.7547 872.7
S_Daur-2B + S_Yadava-1A Discordant SGDP 136,389,749 – 136,762,052 372,303.0 0.05395958 3 44.1677 1,358.5
S_Daur-2B + S_Lezgin-1B Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 3 68.7547 872.7
S_Daur-2B + S_Yadava-1B Discordant SGDP 135,993,765 – 136,762,052 768,286.5 0.07200356 3 58.6028 1,023.8
S_Daur-2B + S_Turkish-1A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 3 1.0009 59,943.4
S_Daur-2B + S_Irula-2A Discordant SGDP 135,597,516 – 136,655,774 1,058,258.0 0.24401194 3 196.2096 305.8
S_Daur-2B + S_Mandenka-1A Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 3 68.7547 872.7
S_Daur-2B + S_Khonda_Dora-1A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 3 1.0009 59,943.4
S_Daur-2B + S_Karitiana-1A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 3 1.0009 59,943.4
S_Daur-2B + S_Mala-3A Discordant SGDP 135,778,044 – 136,762,052 984,008.0 0.07978017 3 64.8241 925.6
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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