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

rs79668744
Alleles:
reference
A
ancestral
alternate
T
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  31,775,011  (GRCh37) Explore rs79668744 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 100.0%
0.0%
SAS 98.7%
1.3%
WEA 99.3%
0.7%
reference ← allele frequency → alternate
Select clock model
  Mutation clock
  Recombination clock
  Joint clock
Age estimation summary Joint clock
Data source Estimated age of T allele # pairs = concordant + discordant Quality score
    Genomes in SGDP371.0 generations 98  =  1  +  971.000
Pairwise results table Joint clock
Haplotype pair Pair type Data source Breakpoint positions Physical length (bp) Genetic Length (cM) α β Mean TMRCA (generations)
S_Relli-1B + S_Tajik-2A Concordant SGDP 30,978,157 – 32,553,804 1,575,647.0 1.15545136 21 1,681.6717 249.8
S_Tajik-2A + S_Madiga-2A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Bengali-1B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Papuan-14B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Chane-1B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Spanish-2B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Jordanian-2B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Georgian-2B Discordant SGDP 31,399,440 – 31,904,656 505,216.0 0.28903973 15 474.7355 631.9
S_Relli-1B + S_Kinh-1B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + S_Thai-1A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + S_Burmese-1A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + S_Uygur-2B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + S_Yi-2B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + S_Han-1B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + S_Naxi-3B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Punjabi-2B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Czech-2B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + S_Papuan-14B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Druze-2A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + S_Papuan-9B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Russian-2B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + S_Itelman-1B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + B_Crete-2B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + S_Mala-3A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Korean-2A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + S_Brahmin-1A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Eskimo_Naukan-1B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + S_Pathan-1B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Yadava-2A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + S_Kalash-2B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Pathan-2A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + S_Punjabi-4B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Abkhasian-1B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + S_Luhya-1A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Saami-2B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + S_Albanian-1A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Iraqi_Jew-2B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + S_Czech-2B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_BedouinB-2A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + S_English-2B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Orcadian-2A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + S_Estonian-2A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_North_Ossetian-1A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + S_Finnish-1B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Yemenite_Jew-1A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + S_Saami-1B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + B_Mixe-1B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + S_Hungarian-2A Discordant SGDP 31,399,440 – 31,775,075 375,635.0 0.17544735 62 321.6627 3,855.0
S_Relli-1B + S_Ulchi-2B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + S_Iraqi_Jew-2A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Maori-1B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + S_Bergamo-2B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Chukchi-1A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + S_Sardinian-1B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Eskimo_Naukan-2A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + S_Jordanian-1A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Kapu-2A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + S_Orcadian-2B Discordant SGDP 31,360,461 – 31,868,351 507,890.0 0.20860581 20 411.6719 971.6
S_Tajik-2A + S_Madiga-1B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + B_Dai-4A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Makrani-1A Discordant SGDP 31,496,660 – 31,904,656 407,995.5 0.13721202 15 306.6075 978.4
S_Relli-1B + S_Saharawi-2B Discordant SGDP 31,496,660 – 31,841,841 345,181.0 0.02796612 11 189.0598 1,163.7
S_Tajik-2A + S_Sindhi-1A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + S_Piapoco-2A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Punjabi-1A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Relli-1B + S_Pima-2B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Bulgarian-1A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Zapotec-1A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Finnish-2B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Mixe-2A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_French-1A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Mixe-3A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Iranian-1A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Mixtec-1B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Iraqi_Jew-1B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Quechua-1A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Palestinian-3B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Tubalar-2A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Jordanian-2A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Yakut-1B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Jordanian-1B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Altaian-1A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Polish-1A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Tubalar-1B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Chechen-1A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Ulchi-1B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Spanish-1B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Even-3B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Turkish-2B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Yakut-2B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Yemenite_Jew-1B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Aleut-2B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + B_French-3B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Miao-1B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Chane-1A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Tu-2B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Karitiana-1A Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
S_Tajik-2A + S_Uygur-1B Discordant SGDP 31,774,990 – 31,775,075 84.5 0.00000009 4 1.0406 76,876.4
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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