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

rs887394772
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  136,595,635  (GRCh37) Explore rs887394772 on Ensembl!
Allele frequency in   SGDP ⇪
Sample 99.5%
0.5%
AFR 100.0%
0.0%
AMR 100.0%
0.0%
CAS 94.4%
5.6%
EAS 100.0%
0.0%
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 Joint clock
Data source Estimated age of G allele # pairs = concordant + discordant Quality score
    Genomes in SGDP447.7 generations 97  =  3  +  941.000
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_Aleut-2A + S_Eskimo_Naukan-2B Concordant SGDP 135,757,046 – 136,788,485 1,031,439.5 0.17616815 10 637.0255 314.0
S_Aleut-1A + S_Eskimo_Naukan-2B Concordant SGDP 135,281,060 – 137,854,344 2,573,284.0 1.63693942 22 2,545.7279 172.8
S_Aleut-1A + S_Aleut-2A Concordant SGDP 135,757,046 – 136,788,485 1,031,439.5 0.17616815 10 637.0255 314.0
S_Eskimo_Naukan-2B + S_Mansi-2A Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Eskimo_Naukan-2B + S_Oroqen-1B Discordant SGDP 136,595,629 – 136,785,841 190,211.5 0.03222743 8 118.0835 1,355.0
S_Eskimo_Naukan-2B + S_Yi-2A Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Eskimo_Naukan-2B + S_Pima-1B Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Eskimo_Naukan-2B + S_Eskimo_Chaplin-1A Discordant SGDP 136,549,528 – 136,762,052 212,524.0 0.02737236 14 124.9094 2,241.6
S_Eskimo_Naukan-2B + S_Palestinian-1A Discordant SGDP 136,544,266 – 136,762,052 217,786.0 0.02797987 11 127.9212 1,719.8
S_Eskimo_Naukan-2B + S_Lezgin-2A Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Aleut-1A + S_Dai-2B Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Aleut-1A + S_Xibo-2B Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Aleut-1A + S_Cambodian-1A Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Aleut-1A + S_Han-1B Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Aleut-1A + S_Even-1A Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Aleut-1A + S_Ulchi-1A Discordant SGDP 136,493,766 – 136,785,841 292,075.0 0.04838542 8 179.9043 889.4
S_Aleut-1A + S_Yakut-1A Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Eskimo_Naukan-2B + S_Burusho-2A Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Aleut-1A + S_Papuan-14B Discordant SGDP 136,544,266 – 136,785,841 241,575.0 0.04265835 11 151.0827 1,456.2
S_Eskimo_Naukan-2B + S_Hungarian-2B Discordant SGDP 136,555,141 – 136,762,052 206,910.5 0.02601890 13 121.1322 2,146.4
S_Aleut-1A + S_Eskimo_Naukan-2A Discordant SGDP 136,590,087 – 137,849,955 1,259,868.0 1.13825955 77 1,516.3443 1,015.6
S_Eskimo_Naukan-2B + S_Tuscan-1A Discordant SGDP 135,760,098 – 136,762,052 1,001,954.0 0.08851659 69 552.7512 2,496.6
S_Aleut-1A + S_Relli-2B Discordant SGDP 135,760,098 – 136,595,663 835,565.0 0.07096959 64 458.8469 2,789.6
S_Eskimo_Naukan-2B + B_Papuan-15B Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Aleut-1A + S_Madiga-2B Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Aleut-1A + S_Mixtec-2B Discordant SGDP 136,389,749 – 136,785,841 396,092.0 0.06863806 17 246.0346 1,381.9
S_Aleut-1A + S_Kalash-1B Discordant SGDP 136,389,749 – 136,762,052 372,303.0 0.05395958 20 222.8731 1,794.7
S_Eskimo_Naukan-2B + S_Naxi-2B Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Aleut-1A + S_Burusho-2A Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Eskimo_Naukan-2B + S_Uygur-1A Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Aleut-1A + S_Punjabi-4B Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Eskimo_Naukan-2B + S_Dusun-2A Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Aleut-1A + S_Armenian-2A Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Eskimo_Naukan-2B + S_Somali-1B Discordant SGDP 136,590,087 – 136,785,841 195,753.5 0.03270679 17 121.1271 2,807.0
S_Aleut-1A + S_Bulgarian-2A Discordant SGDP 136,556,402 – 136,784,130 227,728.0 0.03533949 12 138.5810 1,731.8
S_Eskimo_Naukan-2B + S_Armenian-1A Discordant SGDP 136,389,749 – 136,654,786 265,037.0 0.05059933 16 168.6972 1,896.9
S_Aleut-1A + S_Finnish-1A Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Eskimo_Naukan-2B + S_Samaritan-1B Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Aleut-1A + S_Icelandic-2A Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Eskimo_Naukan-2B + S_BedouinB-2B Discordant SGDP 136,080,619 – 136,785,841 705,221.5 0.08319201 33 406.0599 1,625.4
S_Aleut-1A + S_BedouinB-1B Discordant SGDP 136,080,619 – 136,785,841 705,221.5 0.08319201 31 406.0599 1,526.9
S_Eskimo_Naukan-2B + S_Jordanian-2B Discordant SGDP 136,080,619 – 136,785,841 705,221.5 0.08319201 33 406.0599 1,625.4
S_Aleut-2A + S_Surui-1B Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Eskimo_Naukan-2B + S_Tajik-2B Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Eskimo_Naukan-2B + S_Tubalar-1B Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Eskimo_Naukan-2B + S_Chane-1A Discordant SGDP 136,544,266 – 136,762,052 217,786.0 0.02797987 13 127.9212 2,032.5
S_Eskimo_Naukan-2B + S_Eskimo_Sireniki-1A Discordant SGDP 136,595,629 – 136,785,841 190,211.5 0.03222743 7 118.0835 1,185.6
S_Aleut-1A + S_Jordanian-2B Discordant SGDP 136,080,619 – 136,785,841 705,221.5 0.08319201 34 406.0599 1,674.6
S_Aleut-1A + S_BantuHerero-1A Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Eskimo_Naukan-2B + S_Mixe-2B Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Aleut-1A + S_Russian-1A Discordant SGDP 136,389,749 – 136,785,841 396,092.0 0.06863806 12 246.0346 975.5
S_Eskimo_Naukan-2B + S_Aleut-1B Discordant SGDP 136,389,749 – 137,032,995 643,246.0 0.39753830 26 627.7887 828.3
S_Aleut-1A + S_Saharawi-1B Discordant SGDP 136,080,619 – 136,785,841 705,221.5 0.08319201 31 406.0599 1,526.9
S_Eskimo_Naukan-2B + S_Even-3A Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Aleut-1A + S_North_Ossetian-1A Discordant SGDP 135,760,098 – 136,699,343 939,245.5 0.08691353 66 521.3687 2,531.8
S_Eskimo_Naukan-2B + S_Mansi-1B Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Aleut-1A + S_Spanish-1A Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Eskimo_Naukan-2B + S_Tu-2A Discordant SGDP 136,556,402 – 136,785,841 229,439.0 0.03828123 14 141.7557 1,975.2
S_Aleut-1A + S_Yemenite_Jew-1A Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Eskimo_Naukan-2B + S_Oroqen-2A Discordant SGDP 136,544,266 – 136,762,052 217,786.0 0.02797987 14 127.9212 2,188.8
S_Aleut-1A + S_Saharawi-2A Discordant SGDP 136,080,619 – 136,785,841 705,221.5 0.08319201 29 406.0599 1,428.4
S_Eskimo_Naukan-2B + S_Xibo-1B Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Aleut-1A + S_Pima-1A Discordant SGDP 136,590,087 – 136,785,841 195,753.5 0.03270679 7 121.1271 1,155.8
S_Eskimo_Naukan-2B + S_Thai-1A Discordant SGDP 136,544,266 – 136,785,841 241,575.0 0.04265835 10 151.0827 1,323.8
S_Aleut-2A + S_Mixtec-2B Discordant SGDP 136,389,749 – 136,785,841 396,092.0 0.06863806 15 246.0346 1,219.3
S_Eskimo_Naukan-2B + S_Itelman-1A Discordant SGDP 136,595,629 – 136,785,841 190,211.5 0.03222743 8 118.0835 1,355.0
S_Aleut-2A + S_Ulchi-2A Discordant SGDP 136,544,266 – 136,739,216 194,950.0 0.02679905 9 116.0152 1,551.5
S_Eskimo_Naukan-2B + S_Mala-3B Discordant SGDP 136,544,266 – 136,762,052 217,786.0 0.02797987 11 127.9212 1,719.8
S_Aleut-2A + S_Ulchi-2B Discordant SGDP 136,544,266 – 136,739,216 194,950.0 0.02679905 9 116.0152 1,551.5
S_Eskimo_Naukan-2B + S_Kusunda-1A Discordant SGDP 136,544,266 – 136,785,841 241,575.0 0.04265835 13 151.0827 1,720.9
S_Aleut-2A + S_Even-2B Discordant SGDP 136,590,087 – 136,785,841 195,753.5 0.03270679 7 121.1271 1,155.8
S_Eskimo_Naukan-2B + S_Kalash-2B Discordant SGDP 136,389,749 – 136,785,841 396,092.0 0.06863806 20 246.0346 1,625.8
S_Aleut-2A + S_Miao-1A Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Eskimo_Naukan-2B + S_French-1B Discordant SGDP 136,544,266 – 137,346,449 802,183.5 0.79293626 50 1,020.3971 980.0
S_Aleut-2A + S_Japanese-2B Discordant SGDP 136,544,266 – 136,762,052 217,786.0 0.02797987 16 127.9212 2,501.5
S_Eskimo_Naukan-2B + S_Iranian-2A Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Aleut-2A + S_Chukchi-1A Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Eskimo_Naukan-2B + S_Druze-2A Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Aleut-2A + S_Brahmin-1A Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Eskimo_Naukan-2B + S_BedouinB-1A Discordant SGDP 136,080,619 – 136,785,841 705,221.5 0.08319201 32 406.0599 1,576.1
S_Aleut-2A + S_Madiga-1A Discordant SGDP 136,595,629 – 136,762,052 166,422.5 0.01754895 16 94.9220 3,371.2
S_Eskimo_Naukan-2B + S_Sardinian-1A Discordant SGDP 136,555,141 – 136,784,130 228,988.5 0.03775564 13 141.1190 1,842.4
S_Aleut-2A + S_Burusho-1A Discordant SGDP 136,595,629 – 136,762,052 166,422.5 0.01754895 16 94.9220 3,371.2
S_Eskimo_Naukan-2B + S_Jordanian-3B Discordant SGDP 136,493,766 – 136,785,841 292,075.0 0.04838542 12 179.9043 1,334.0
S_Aleut-2A + S_Punjabi-3B Discordant SGDP 136,544,266 – 136,762,052 217,786.0 0.02797987 12 127.9212 1,876.2
S_Eskimo_Naukan-2B + S_Orcadian-2B Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Aleut-2A + S_Abkhasian-1B Discordant SGDP 136,555,141 – 136,762,052 206,910.5 0.02601890 9 121.1322 1,486.0
S_Eskimo_Naukan-2B + S_North_Ossetian-2A Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Aleut-2A + S_Bulgarian-1A Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Eskimo_Naukan-2B + B_Dai-4A Discordant SGDP 136,080,619 – 136,785,841 705,221.5 0.08319201 50 406.0599 2,462.7
S_Aleut-2A + S_Atayal-1A Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Eskimo_Naukan-2B + B_Karitiana-3B Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Aleut-2A + S_Yemenite_Jew-2B Discordant SGDP 135,760,098 – 136,762,052 1,001,954.0 0.08851659 76 552.7512 2,749.9
S_Eskimo_Naukan-2B + S_Piapoco-1B Discordant SGDP 135,597,516 – 136,785,841 1,188,325.0 0.26173649 25 780.7852 640.4
S_Aleut-2A + B_Crete-2B Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Eskimo_Naukan-2B + S_Pima-2A Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
S_Aleut-2A + B_Sardinian-3B Discordant SGDP 136,595,629 – 136,595,663 33.5 0.00000195 4 1.0176 78,613.0
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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