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

rs61846165
Alleles:
reference
C
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 10   position  31,619,766  (GRCh37) Explore rs61846165 on Ensembl!
Allele frequency in   SGDP ⇪
Sample 99.6%
0.4%
AFR 98.9%
1.1%
AMR 100.0%
0.0%
CAS 100.0%
0.0%
EAS 100.0%
0.0%
OCN 100.0%
0.0%
SAS 100.0%
0.0%
WEA 99.3%
0.7%
reference ← allele frequency → alternate
Select clock model
  Mutation clock
  Recombination clock
  Joint clock
Age estimation summary Mutation clock
Data source Estimated age of G allele # pairs = concordant + discordant Quality score
    Genomes in SGDP818.2 generations 98  =  1  +  970.990
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_Gambian-2A + B_Crete-1B Concordant SGDP 31,619,690 – 31,624,723 5,033.0 0.00014604 2 3.4158 11,710.2
B_Crete-1B + S_Sindhi-2B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Makrani-2A Discordant SGDP 31,134,695 – 31,841,841 707,146.0 0.24835638 21 340.4301 1,233.7
B_Crete-1B + S_Mala-2A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Pima-1B Discordant SGDP 31,134,695 – 31,619,768 485,073.0 0.23974536 79 233.8350 6,756.9
B_Crete-1B + S_Yemenite_Jew-1A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Orcadian-1A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Hungarian-2B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Yakut-1A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Mongola-2A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Mongola-1B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Quechua-3B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Mixtec-1B Discordant SGDP 31,134,695 – 31,619,768 485,073.0 0.23974536 45 233.8350 3,848.9
B_Crete-1B + S_Zapotec-1A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
S_Gambian-2A + B_Yoruba-3B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Armenian-2B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Finnish-1B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Altaian-1A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Sardinian-1B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Aleut-1A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Saharawi-1B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Even-3B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Saharawi-2B Discordant SGDP 31,484,549 – 31,841,841 357,292.0 0.03021478 14 172.5002 1,623.2
B_Crete-1B + S_Even-2A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Somali-1A Discordant SGDP 31,556,184 – 31,979,966 423,781.5 0.26338113 49 204.4151 4,794.2
B_Crete-1B + S_Yakut-2A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Pathan-1B Discordant SGDP 31,134,695 – 31,619,768 485,073.0 0.23974536 68 233.8350 5,816.1
B_Crete-1B + S_Tlingit-2B Discordant SGDP 31,134,695 – 31,619,768 485,073.0 0.23974536 69 233.8350 5,901.6
B_Crete-1B + S_Kalash-2A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Even-1B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Abkhasian-1A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Naxi-3B Discordant SGDP 31,134,695 – 31,619,768 485,073.0 0.23974536 67 233.8350 5,730.5
B_Crete-1B + S_Czech-2B Discordant SGDP 31,041,075 – 31,619,768 578,693.0 0.36138614 81 278.7726 5,811.2
B_Crete-1B + S_Daur-2A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Georgian-1A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Oroqen-2A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Iranian-1A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Hezhen-2A Discordant SGDP 31,134,695 – 31,619,768 485,073.0 0.23974536 68 233.8350 5,816.1
B_Crete-1B + S_Kyrgyz-2B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Uygur-1A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Russian-2B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Yi-1B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Tajik-2A Discordant SGDP 31,134,695 – 31,904,656 769,960.5 0.35760228 23 370.5810 1,241.3
B_Crete-1B + S_Yi-2B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + B_Dai-4B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Tujia-1B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Piapoco-2A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Dai-2A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
S_Gambian-2A + S_BantuTswana-1A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Uygur-2A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Yadava-2B Discordant SGDP 31,399,440 – 32,451,906 1,052,466.0 0.65975678 23 506.1837 908.8
B_Crete-1B + S_Naxi-1B Discordant SGDP 31,134,695 – 31,619,768 485,073.0 0.23974536 59 233.8350 5,046.3
B_Crete-1B + S_Makrani-1A Discordant SGDP 31,484,549 – 32,074,897 590,348.0 0.41988747 21 284.3670 1,477.0
B_Crete-1B + S_She-2A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Brahui-1B Discordant SGDP 31,134,695 – 31,619,768 485,073.0 0.23974536 43 233.8350 3,677.8
B_Crete-1B + S_Tu-1A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Hazara-2B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Japanese-1B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Sindhi-2A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Japanese-2A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Punjabi-2A Discordant SGDP 31,134,695 – 31,619,768 485,073.0 0.23974536 67 233.8350 5,730.5
B_Crete-1B + S_Korean-2A Discordant SGDP 31,134,695 – 31,619,768 485,073.0 0.23974536 69 233.8350 5,901.6
B_Crete-1B + S_Abkhasian-1B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Korean-1B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Czech-2A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Burmese-1A Discordant SGDP 31,134,695 – 31,619,768 485,073.0 0.23974536 77 233.8350 6,585.8
B_Crete-1B + S_Estonian-2A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Ami-2A Discordant SGDP 31,134,695 – 31,619,768 485,073.0 0.23974536 77 233.8350 6,585.8
B_Crete-1B + S_Georgian-2A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Thai-2B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Greek-1A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Kinh-1A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Icelandic-1A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Maori-1B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Iranian-2A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Papuan-3A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Tuscan-2B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Papuan-5B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Kyrgyz-1B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Papuan-9B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Orcadian-2A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Papuan-12B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Chechen-1B Discordant SGDP 31,360,461 – 31,868,351 507,890.0 0.20860581 22 244.7872 1,797.5
B_Crete-1B + S_Papuan-2A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Spanish-2A Discordant SGDP 31,399,440 – 31,983,119 583,679.0 0.43418577 16 281.1659 1,138.1
B_Crete-1B + S_Igorot-1A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Yemenite_Jew-2A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Hawaiian-1A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Yemenite_Jew-1B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Eskimo_Sireniki-2B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + B_Karitiana-3B Discordant SGDP 31,134,695 – 31,619,768 485,073.0 0.23974536 71 233.8350 6,072.7
B_Crete-1B + S_Bengali-1B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Karitiana-2B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Relli-1A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Pima-1A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Relli-2B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Pima-2B Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
B_Crete-1B + S_Irula-1A Discordant SGDP 31,619,690 – 31,619,768 78.0 0.00000226 2 1.0374 38,556.4
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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