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 Joint clock
Data source Estimated age of G allele # pairs = concordant + discordant Quality score
    Genomes in SGDP855.0 generations 93  =  1  +  921.000
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_Dai-3B + S_Daur-2B Concordant SGDP 136,555,597 – 136,825,844 270,247.0 0.15563943 9 255.2301 705.2
S_Daur-2B + S_Basque-2B Discordant SGDP 136,557,025 – 136,776,467 219,442.0 0.02883100 15 129.3970 2,318.4
S_Daur-2B + S_Armenian-2A Discordant SGDP 136,389,749 – 136,774,712 384,963.0 0.05887274 23 232.8804 1,975.3
S_Daur-2B + S_Balochi-1A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 4 1.0084 79,334.9
S_Daur-2B + S_Brahmin-2A Discordant SGDP 135,760,098 – 136,762,052 1,001,954.0 0.08851659 39 552.7512 1,411.1
S_Daur-2B + S_Tajik-1A Discordant SGDP 136,389,749 – 136,774,712 384,963.0 0.05887274 30 232.8804 2,576.4
S_Daur-2B + S_Tuscan-1B Discordant SGDP 135,782,261 – 136,762,052 979,790.5 0.07868380 57 534.2465 2,133.8
S_Daur-2B + S_Masai-1B Discordant SGDP 135,909,353 – 136,762,052 852,698.5 0.07621271 64 471.2654 2,716.1
S_Daur-2B + S_Yakut-2B Discordant SGDP 135,782,261 – 136,822,338 1,040,077.0 0.16396375 42 631.4080 1,330.4
S_Daur-2B + S_Altaian-1A Discordant SGDP 136,389,749 – 136,774,712 384,963.0 0.05887274 25 232.8804 2,147.0
S_Daur-2B + S_Mongola-2B Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 4 1.0084 79,334.9
S_Daur-2B + S_BantuHerero-1A Discordant SGDP 135,778,044 – 136,762,052 984,008.0 0.07978017 62 537.1480 2,308.5
S_Daur-2B + S_Mozabite-1A Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 47 547.1553 1,718.0
S_Dai-3B + S_Thai-2B Discordant SGDP 136,655,758 – 137,311,903 656,144.5 0.73542195 98 904.2869 2,167.5
S_Daur-2B + S_Hungarian-1A Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 48 547.1553 1,754.5
S_Daur-2B + S_Iraqi_Jew-2B Discordant SGDP 136,389,749 – 136,774,712 384,963.0 0.05887274 30 232.8804 2,576.4
S_Daur-2B + S_Tlingit-2A Discordant SGDP 136,654,786 – 136,655,774 988.0 0.00031418 4 1.7256 46,361.1
S_Daur-2B + S_Palestinian-3B Discordant SGDP 135,778,044 – 136,762,052 984,008.0 0.07978017 64 537.1480 2,383.0
S_Daur-2B + S_Tlingit-1B Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 48 547.1553 1,754.5
S_Daur-2B + S_Russian-2B Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 48 547.1553 1,754.5
S_Daur-2B + S_Lahu-1B Discordant SGDP 136,654,786 – 136,655,774 988.0 0.00031418 4 1.7256 46,361.1
S_Daur-2B + S_Mandenka-1B Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 62 547.1553 2,266.3
S_Daur-2B + S_Tu-2B Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 4 1.0084 79,334.9
S_Daur-2B + S_Brahui-2A Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 48 547.1553 1,754.5
S_Daur-2B + S_Tujia-2A Discordant SGDP 135,782,261 – 136,822,338 1,040,077.0 0.16396375 48 631.4080 1,520.4
S_Daur-2B + S_Sindhi-1B Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 50 547.1553 1,827.6
S_Daur-2B + S_Hezhen-1B Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 4 1.0084 79,334.9
S_Daur-2B + S_Finnish-2A Discordant SGDP 136,389,749 – 136,774,712 384,963.0 0.05887274 32 232.8804 2,748.2
S_Daur-2B + S_Xibo-1A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 4 1.0084 79,334.9
S_Daur-2B + S_Georgian-1A Discordant SGDP 136,389,749 – 136,774,712 384,963.0 0.05887274 22 232.8804 1,889.4
S_Daur-2B + S_Yi-2B Discordant SGDP 136,654,786 – 136,655,774 988.0 0.00031418 4 1.7256 46,361.1
S_Daur-2B + S_Iranian-2A Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 46 547.1553 1,681.4
S_Daur-2B + S_Uygur-2A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 4 1.0084 79,334.9
S_Daur-2B + S_Samaritan-1A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 4 1.0084 79,334.9
S_Daur-2B + S_Naxi-1B Discordant SGDP 135,782,261 – 136,776,467 994,206.0 0.08490211 45 546.1406 1,647.9
S_Daur-2B + S_Palestinian-2A Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 53 547.1553 1,937.3
S_Daur-2B + S_Japanese-2B Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 4 1.0084 79,334.9
S_Daur-2B + S_Sardinian-2A Discordant SGDP 136,389,749 – 136,774,712 384,963.0 0.05887274 25 232.8804 2,147.0
S_Daur-2B + S_Korean-2B Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 4 1.0084 79,334.9
S_Daur-2B + S_Russian-1B Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 55 547.1553 2,010.4
S_Daur-2B + S_Korean-1A Discordant SGDP 135,909,353 – 136,776,467 867,114.0 0.08243101 35 483.1595 1,448.8
S_Daur-2B + S_Chechen-1B Discordant SGDP 136,389,749 – 136,762,052 372,303.0 0.05395958 30 222.8731 2,692.1
S_Daur-2B + S_Burmese-2A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 4 1.0084 79,334.9
S_Daur-2B + B_Crete-2A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 4 1.0084 79,334.9
S_Daur-2B + S_Burmese-1B Discordant SGDP 136,080,619 – 136,776,467 695,848.0 0.07473184 32 394.7925 1,621.1
S_Dai-3B + S_Quechua-1A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 4 1.0084 79,334.9
S_Daur-2B + S_Ami-1B Discordant SGDP 135,782,261 – 136,776,467 994,206.0 0.08490211 48 546.1406 1,757.8
S_Daur-2B + S_Madiga-2B Discordant SGDP 135,782,261 – 136,776,467 994,206.0 0.08490211 41 546.1406 1,501.4
S_Daur-2B + S_Ami-2B Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 4 1.0084 79,334.9
S_Daur-2B + S_Makrani-1A Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 49 547.1553 1,791.1
S_Daur-2B + S_Thai-1A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 4 1.0084 79,334.9
S_Daur-2B + S_Sindhi-1A Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 61 547.1553 2,229.7
S_Daur-2B + S_Thai-2A Discordant SGDP 135,993,765 – 136,762,052 768,286.5 0.07200356 37 427.3804 1,731.5
S_Daur-2B + S_Albanian-1A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 4 1.0084 79,334.9
S_Daur-2B + S_Kinh-2A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 4 1.0084 79,334.9
S_Daur-2B + S_Saharawi-1A Discordant SGDP 136,389,749 – 136,774,712 384,963.0 0.05887274 22 232.8804 1,889.4
S_Daur-2B + S_Kinh-1A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 4 1.0084 79,334.9
S_Daur-2B + S_French-1A Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 54 547.1553 1,973.8
S_Daur-2B + B_Australian-3B Discordant SGDP 135,778,044 – 136,776,467 998,423.5 0.08599847 62 549.0421 2,258.5
S_Daur-2B + S_Georgian-2B Discordant SGDP 136,389,749 – 136,774,712 384,963.0 0.05887274 24 232.8804 2,061.1
S_Daur-2B + B_Australian-4A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 4 1.0084 79,334.9
S_Daur-2B + S_Greek-1A Discordant SGDP 135,778,044 – 136,655,774 877,730.0 0.07673410 54 483.6977 2,232.8
S_Daur-2B + S_Dusun-1A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 4 1.0084 79,334.9
S_Daur-2B + S_Iranian-1A Discordant SGDP 135,760,098 – 136,774,712 1,014,614.0 0.09342975 42 562.7585 1,492.6
S_Daur-2B + S_Bougainville-2A Discordant SGDP 136,654,786 – 136,655,774 988.0 0.00031418 4 1.7256 46,361.1
S_Daur-2B + S_Iraqi_Jew-2A Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 52 547.1553 1,900.7
S_Daur-2B + S_Bougainville-1A Discordant SGDP 135,778,044 – 136,762,052 984,008.0 0.07978017 44 537.1480 1,638.3
S_Daur-2B + S_Iraqi_Jew-1A Discordant SGDP 135,782,261 – 136,776,467 994,206.0 0.08490211 56 546.1406 2,050.8
S_Daur-2B + S_Papuan-1B Discordant SGDP 136,654,786 – 136,655,774 988.0 0.00031418 4 1.7256 46,361.1
S_Daur-2B + S_Druze-2B Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 4 1.0084 79,334.9
S_Daur-2B + S_Papuan-10A Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 36 547.1553 1,315.9
S_Daur-2B + S_Druze-1B Discordant SGDP 135,770,859 – 136,774,712 1,003,853.0 0.08580250 38 551.4914 1,378.1
S_Daur-2B + S_Papuan-11B Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 4 1.0084 79,334.9
S_Daur-2B + S_Palestinian-3A Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 52 547.1553 1,900.7
S_Daur-2B + S_Papuan-7B Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 49 547.1553 1,791.1
S_Daur-2B + S_Sardinian-1B Discordant SGDP 136,500,227 – 136,774,712 274,484.5 0.03728607 10 162.5814 1,230.2
S_Daur-2B + S_Papuan-9B Discordant SGDP 135,778,044 – 136,655,774 877,730.0 0.07673410 45 483.6977 1,860.7
S_Daur-2B + S_Tuscan-2B Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 4 1.0084 79,334.9
S_Daur-2B + S_Hawaiian-1A Discordant SGDP 135,782,261 – 136,655,774 873,512.5 0.07563774 46 480.7962 1,913.5
S_Daur-2B + S_Jordanian-1A Discordant SGDP 135,993,765 – 136,774,712 780,946.5 0.07691672 43 437.3877 1,966.2
S_Daur-2B + S_Mansi-2B Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 50 547.1553 1,827.6
S_Daur-2B + S_Russian-2A Discordant SGDP 136,389,749 – 136,774,712 384,963.0 0.05887274 32 232.8804 2,748.2
S_Daur-2B + S_Bengali-2B Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 4 1.0084 79,334.9
S_Daur-2B + S_Abkhasian-2B Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 48 547.1553 1,754.5
S_Daur-2B + S_Yadava-1A Discordant SGDP 136,389,749 – 136,762,052 372,303.0 0.05395958 27 222.8731 2,422.9
S_Daur-2B + S_Lezgin-1B Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 47 547.1553 1,718.0
S_Daur-2B + S_Yadava-1B Discordant SGDP 135,993,765 – 136,762,052 768,286.5 0.07200356 43 427.3804 2,012.3
S_Daur-2B + S_Turkish-1A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 4 1.0084 79,334.9
S_Daur-2B + S_Irula-2A Discordant SGDP 135,597,516 – 136,655,774 1,058,258.0 0.24401194 83 704.1734 2,357.4
S_Daur-2B + S_Mandenka-1A Discordant SGDP 135,778,044 – 136,774,712 996,668.0 0.08469333 59 547.1553 2,156.6
S_Daur-2B + S_Khonda_Dora-1A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 4 1.0084 79,334.9
S_Daur-2B + S_Karitiana-1A Discordant SGDP 136,655,758 – 136,655,774 15.5 0.00000118 4 1.0084 79,334.9
S_Daur-2B + S_Mala-3A Discordant SGDP 135,778,044 – 136,762,052 984,008.0 0.07978017 40 537.1480 1,489.3
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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