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

rs537707375
Alleles:
reference
C
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 2   position  136,616,752  (GRCh37) Explore rs537707375 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 T allele # pairs = concordant + discordant Quality score
    Genomes in SGDP73.2 generations 96  =  1  +  950.989
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_Papuan-3A + S_Papuan-4A Concordant SGDP 135,282,355 – 136,762,052 1,479,697.0 0.49506966 3 397.0557 151.1
S_Papuan-4A + S_English-1A Discordant SGDP 136,489,176 – 136,631,099 141,923.0 0.02443623 3 20.5490 2,919.9
S_Papuan-4A + S_Punjabi-2A Discordant SGDP 136,616,736 – 136,619,279 2,543.0 0.00113296 3 1.9064 31,473.4
S_Papuan-4A + S_Khonda_Dora-1A Discordant SGDP 135,340,792 – 136,762,052 1,421,259.5 0.38028236 3 305.2259 196.6
S_Papuan-3A + S_Zapotec-1B Discordant SGDP 136,616,736 – 136,619,279 2,543.0 0.00113296 3 1.9064 31,473.4
S_Papuan-4A + S_Turkish-1A Discordant SGDP 136,489,176 – 136,762,052 272,875.5 0.03482260 3 28.8581 2,079.1
S_Papuan-4A + S_Kyrgyz-1A Discordant SGDP 136,616,736 – 136,619,279 2,543.0 0.00113296 3 1.9064 31,473.4
S_Papuan-4A + S_French-2A Discordant SGDP 136,489,176 – 136,631,099 141,923.0 0.02443623 3 20.5490 2,919.9
S_Papuan-3A + S_Jordanian-3A Discordant SGDP 136,493,766 – 136,785,841 292,075.0 0.04838542 3 39.7083 1,511.0
S_Papuan-3A + S_Mala-2A Discordant SGDP 135,760,098 – 136,785,841 1,025,743.0 0.10319507 3 83.5561 718.1
S_Papuan-3A + S_Yadava-2A Discordant SGDP 135,343,836 – 136,976,283 1,632,447.0 0.60553821 3 485.4306 123.6
S_Papuan-3A + S_Papuan-2A Discordant SGDP 136,616,736 – 136,619,279 2,543.0 0.00113296 3 1.9064 31,473.4
S_Papuan-3A + S_Papuan-12B Discordant SGDP 135,760,098 – 136,976,283 1,216,185.5 0.31932188 3 256.4575 234.0
S_Papuan-3A + S_Tubalar-2B Discordant SGDP 135,760,098 – 136,976,283 1,216,185.5 0.31932188 3 256.4575 234.0
S_Papuan-3A + S_Zapotec-2A Discordant SGDP 136,489,176 – 136,976,283 487,107.0 0.26562788 3 213.5023 281.0
S_Papuan-4A + S_Estonian-2B Discordant SGDP 136,489,176 – 136,762,052 272,875.5 0.03482260 3 28.8581 2,079.1
S_Papuan-4A + S_Finnish-3A Discordant SGDP 136,489,176 – 136,631,099 141,923.0 0.02443623 3 20.5490 2,919.9
S_Papuan-4A + S_Mozabite-1B Discordant SGDP 136,489,176 – 136,762,052 272,875.5 0.03482260 3 28.8581 2,079.1
S_Papuan-4A + S_Iranian-1B Discordant SGDP 136,489,176 – 136,762,052 272,875.5 0.03482260 3 28.8581 2,079.1
S_Papuan-4A + S_Mixe-2B Discordant SGDP 135,760,098 – 136,762,052 1,001,954.0 0.08851659 3 71.8133 835.5
S_Papuan-4A + S_Lezgin-2A Discordant SGDP 136,489,176 – 136,631,099 141,923.0 0.02443623 3 20.5490 2,919.9
S_Papuan-4A + S_Mixtec-2B Discordant SGDP 136,616,736 – 136,619,279 2,543.0 0.00113296 3 1.9064 31,473.4
S_Papuan-4A + S_Saharawi-2A Discordant SGDP 136,616,736 – 136,619,279 2,543.0 0.00113296 3 1.9064 31,473.4
S_Papuan-4A + S_Mongola-2A Discordant SGDP 136,489,176 – 136,762,052 272,875.5 0.03482260 3 28.8581 2,079.1
S_Papuan-4A + S_Mansi-2A Discordant SGDP 136,489,176 – 136,762,052 272,875.5 0.03482260 3 28.8581 2,079.1
S_Papuan-4A + S_Mongola-2B Discordant SGDP 136,489,176 – 136,631,099 141,923.0 0.02443623 3 20.5490 2,919.9
S_Papuan-4A + S_Burusho-2A Discordant SGDP 136,489,176 – 136,762,052 272,875.5 0.03482260 3 28.8581 2,079.1
S_Papuan-4A + S_Altaian-1B Discordant SGDP 135,760,098 – 136,762,052 1,001,954.0 0.08851659 3 71.8133 835.5
S_Papuan-4A + S_Atayal-1A Discordant SGDP 135,782,261 – 136,631,099 848,838.0 0.06829744 3 55.6380 1,078.4
S_Papuan-4A + S_Tubalar-1B Discordant SGDP 136,616,736 – 136,616,753 17.5 0.00000018 3 1.0001 59,991.4
S_Papuan-4A + S_English-2B Discordant SGDP 136,489,176 – 136,631,099 141,923.0 0.02443623 3 20.5490 2,919.9
S_Papuan-4A + S_Even-3B Discordant SGDP 136,616,736 – 136,619,279 2,543.0 0.00113296 3 1.9064 31,473.4
S_Papuan-4A + S_Estonian-1B Discordant SGDP 136,489,176 – 136,631,099 141,923.0 0.02443623 3 20.5490 2,919.9
S_Papuan-4A + S_Tlingit-1A Discordant SGDP 136,489,176 – 136,762,052 272,875.5 0.03482260 3 28.8581 2,079.1
S_Papuan-4A + S_Saami-1A Discordant SGDP 136,616,736 – 136,619,279 2,543.0 0.00113296 3 1.9064 31,473.4
S_Papuan-4A + S_Aleut-2A Discordant SGDP 136,616,736 – 136,619,279 2,543.0 0.00113296 3 1.9064 31,473.4
S_Papuan-4A + S_Basque-1B Discordant SGDP 136,489,176 – 136,631,099 141,923.0 0.02443623 3 20.5490 2,919.9
S_Papuan-4A + S_Even-1A Discordant SGDP 135,760,098 – 136,762,052 1,001,954.0 0.08851659 3 71.8133 835.5
S_Papuan-4A + S_Tuscan-2A Discordant SGDP 136,616,736 – 136,619,279 2,543.0 0.00113296 3 1.9064 31,473.4
S_Papuan-4A + S_Cambodian-1A Discordant SGDP 136,489,176 – 136,762,052 272,875.5 0.03482260 3 28.8581 2,079.1
S_Papuan-4A + S_Orcadian-1B Discordant SGDP 136,489,176 – 136,631,099 141,923.0 0.02443623 3 20.5490 2,919.9
S_Papuan-4A + S_Cambodian-2B Discordant SGDP 135,340,792 – 136,631,099 1,290,307.0 0.36989600 3 296.9168 202.1
S_Papuan-4A + S_Adygei-2B Discordant SGDP 136,489,176 – 136,762,052 272,875.5 0.03482260 3 28.8581 2,079.1
S_Papuan-4A + S_Naxi-3B Discordant SGDP 135,760,098 – 136,762,052 1,001,954.0 0.08851659 3 71.8133 835.5
S_Papuan-4A + S_Yemenite_Jew-1A Discordant SGDP 136,489,176 – 136,631,099 141,923.0 0.02443623 3 20.5490 2,919.9
S_Papuan-4A + S_Miao-1B Discordant SGDP 136,489,176 – 136,631,099 141,923.0 0.02443623 3 20.5490 2,919.9
S_Papuan-4A + S_Pima-1B Discordant SGDP 136,489,176 – 136,762,052 272,875.5 0.03482260 3 28.8581 2,079.1
S_Papuan-4A + S_Dai-3B Discordant SGDP 136,616,736 – 136,619,279 2,543.0 0.00113296 3 1.9064 31,473.4
S_Papuan-4A + S_Eskimo_Naukan-1A Discordant SGDP 135,340,792 – 136,631,099 1,290,307.0 0.36989600 3 296.9168 202.1
S_Papuan-4A + S_Miao-2A Discordant SGDP 135,978,431 – 136,631,099 652,668.0 0.06199239 3 50.5939 1,185.9
S_Papuan-4A + S_Eskimo_Sireniki-2A Discordant SGDP 136,616,736 – 136,619,279 2,543.0 0.00113296 3 1.9064 31,473.4
S_Papuan-4A + S_Miao-2B Discordant SGDP 136,489,176 – 136,631,099 141,923.0 0.02443623 3 20.5490 2,919.9
S_Papuan-4A + S_Brahmin-2A Discordant SGDP 136,616,736 – 136,619,279 2,543.0 0.00113296 3 1.9064 31,473.4
S_Papuan-4A + S_Oroqen-1B Discordant SGDP 136,616,736 – 136,619,279 2,543.0 0.00113296 3 1.9064 31,473.4
S_Papuan-4A + S_Sindhi-2B Discordant SGDP 136,489,176 – 136,631,099 141,923.0 0.02443623 3 20.5490 2,919.9
S_Papuan-4A + S_Uygur-1A Discordant SGDP 136,489,176 – 136,762,052 272,875.5 0.03482260 3 28.8581 2,079.1
S_Papuan-4A + S_Bulgarian-1A Discordant SGDP 136,489,176 – 136,762,052 272,875.5 0.03482260 3 28.8581 2,079.1
S_Papuan-4A + S_Xibo-1A Discordant SGDP 136,489,176 – 136,762,052 272,875.5 0.03482260 3 28.8581 2,079.1
S_Papuan-4A + S_Atayal-1B Discordant SGDP 136,489,176 – 136,762,052 272,875.5 0.03482260 3 28.8581 2,079.1
S_Papuan-4A + S_Xibo-1B Discordant SGDP 135,978,431 – 136,631,099 652,668.0 0.06199239 3 50.5939 1,185.9
S_Papuan-4A + S_English-2A Discordant SGDP 136,489,176 – 136,631,099 141,923.0 0.02443623 3 20.5490 2,919.9
S_Papuan-4A + S_Yi-1B Discordant SGDP 135,760,098 – 136,762,052 1,001,954.0 0.08851659 3 71.8133 835.5
S_Papuan-4A + S_BantuKenya-1A Discordant SGDP 136,616,736 – 136,616,753 17.5 0.00000018 3 1.0001 59,991.4
S_Papuan-4A + S_Yi-2A Discordant SGDP 136,489,176 – 136,762,052 272,875.5 0.03482260 3 28.8581 2,079.1
S_Papuan-4A + S_Estonian-1A Discordant SGDP 136,489,176 – 136,631,099 141,923.0 0.02443623 3 20.5490 2,919.9
S_Papuan-4A + S_Tujia-1B Discordant SGDP 135,760,098 – 136,762,052 1,001,954.0 0.08851659 3 71.8133 835.5
S_Papuan-4A + S_Finnish-1B Discordant SGDP 136,616,736 – 136,619,279 2,543.0 0.00113296 3 1.9064 31,473.4
S_Papuan-4A + S_Mozabite-2A Discordant SGDP 136,489,176 – 136,762,052 272,875.5 0.03482260 3 28.8581 2,079.1
S_Papuan-4A + S_Finnish-3B Discordant SGDP 136,489,176 – 136,762,052 272,875.5 0.03482260 3 28.8581 2,079.1
S_Papuan-4A + S_Uygur-2A Discordant SGDP 135,760,398 – 136,762,052 1,001,654.0 0.08787732 3 71.3019 841.5
S_Papuan-4A + S_Saami-2A Discordant SGDP 136,489,176 – 136,762,052 272,875.5 0.03482260 3 28.8581 2,079.1
S_Papuan-4A + S_Xibo-2B Discordant SGDP 136,489,176 – 136,762,052 272,875.5 0.03482260 3 28.8581 2,079.1
S_Papuan-4A + S_French-2B Discordant SGDP 136,489,176 – 136,631,099 141,923.0 0.02443623 3 20.5490 2,919.9
S_Papuan-4A + S_Dai-1A Discordant SGDP 136,556,402 – 136,762,052 205,650.0 0.02360275 3 19.8822 3,017.8
S_Papuan-4A + S_Icelandic-1B Discordant SGDP 136,489,176 – 136,631,099 141,923.0 0.02443623 3 20.5490 2,919.9
S_Papuan-4A + S_Japanese-1B Discordant SGDP 135,978,431 – 136,762,052 783,620.5 0.07237876 3 58.9030 1,018.6
S_Papuan-4A + S_Samaritan-1A Discordant SGDP 136,489,176 – 136,762,052 272,875.5 0.03482260 3 28.8581 2,079.1
S_Papuan-4A + S_Burmese-2A Discordant SGDP 135,760,098 – 136,762,052 1,001,954.0 0.08851659 3 71.8133 835.5
S_Papuan-4A + S_Kyrgyz-2B Discordant SGDP 136,616,736 – 136,616,753 17.5 0.00000018 3 1.0001 59,991.4
S_Papuan-4A + S_Ami-1B Discordant SGDP 136,616,736 – 136,619,279 2,543.0 0.00113296 3 1.9064 31,473.4
S_Papuan-4A + S_Norwegian-1A Discordant SGDP 136,489,176 – 136,631,099 141,923.0 0.02443623 3 20.5490 2,919.9
S_Papuan-4A + S_Ami-2A Discordant SGDP 136,616,736 – 136,619,279 2,543.0 0.00113296 3 1.9064 31,473.4
S_Papuan-4A + S_Orcadian-2B Discordant SGDP 136,489,176 – 136,762,052 272,875.5 0.03482260 3 28.8581 2,079.1
S_Papuan-4A + S_Kinh-2A Discordant SGDP 136,489,176 – 136,762,052 272,875.5 0.03482260 3 28.8581 2,079.1
S_Papuan-4A + S_North_Ossetian-1A Discordant SGDP 136,616,736 – 136,619,279 2,543.0 0.00113296 3 1.9064 31,473.4
S_Papuan-4A + S_Dusun-2B Discordant SGDP 136,489,176 – 136,762,052 272,875.5 0.03482260 3 28.8581 2,079.1
S_Papuan-4A + S_Spanish-2B Discordant SGDP 136,493,766 – 136,762,052 268,286.0 0.03370694 3 27.9656 2,145.5
S_Papuan-4A + S_Dusun-1B Discordant SGDP 136,616,736 – 136,619,279 2,543.0 0.00113296 3 1.9064 31,473.4
S_Papuan-4A + S_Yemenite_Jew-2B Discordant SGDP 136,616,736 – 136,619,279 2,543.0 0.00113296 3 1.9064 31,473.4
S_Papuan-4A + S_Papuan-6A Discordant SGDP 135,760,098 – 136,762,052 1,001,954.0 0.08851659 3 71.8133 835.5
S_Papuan-4A + B_Crete-2A Discordant SGDP 136,489,176 – 136,762,052 272,875.5 0.03482260 3 28.8581 2,079.1
S_Papuan-4A + S_Papuan-5A Discordant SGDP 135,760,098 – 136,762,052 1,001,954.0 0.08851659 3 71.8133 835.5
S_Papuan-4A + S_Piapoco-1A Discordant SGDP 136,489,176 – 136,632,444 143,267.5 0.02479693 3 20.8375 2,879.4
S_Papuan-4A + S_Papuan-13A Discordant SGDP 135,343,836 – 137,188,964 1,845,128.0 1.07760872 3 863.0870 69.5
S_Papuan-4A + S_Pima-2B Discordant SGDP 136,616,736 – 136,619,279 2,543.0 0.00113296 3 1.9064 31,473.4
S_Papuan-4A + S_Chukchi-1A Discordant SGDP 136,489,176 – 136,762,052 272,875.5 0.03482260 3 28.8581 2,079.1
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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