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Atlas of Variant Age
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Ancestry analyses:565,507,800
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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

rs544607471
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  136,591,896  (GRCh37) Explore rs544607471 on Ensembl!
Allele frequency in   SGDP ⇪
Sample 99.1%
0.9%
AFR 94.3%
5.7%
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 100.0%
0.0%
reference ← allele frequency → alternate
Select clock model
  Mutation clock
  Recombination clock
  Joint clock
Age estimation summary Mutation clock
Data source Estimated age of T allele # pairs = concordant + discordant Quality score
    Genomes in SGDP6,298.9 generations 107  =  10  +  971.000
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_Ju_hoan_North-1A + B_Ju_hoan_North-4A Concordant SGDP 136,401,078 – 137,093,720 692,641.5 0.63258900 42 333.4679 2,519.0
S_Ju_hoan_North-1A + S_Khomani_San-1A Concordant SGDP 135,729,071 – 136,801,475 1,072,404.5 0.29129866 116 515.7542 4,498.3
S_Ju_hoan_North-2B + B_Ju_hoan_North-4A Concordant SGDP 136,341,972 – 137,058,509 716,537.0 0.56883420 30 344.9378 1,739.4
S_Ju_hoan_North-2B + S_Khomani_San-1A Concordant SGDP 136,411,978 – 136,801,475 389,497.5 0.12086568 30 187.9588 3,192.2
S_Ju_hoan_North-2B + S_Ju_hoan_North-1A Concordant SGDP 136,406,898 – 137,034,384 627,485.5 0.40473764 27 302.1930 1,786.9
S_Ju_hoan_North-3A + S_Khomani_San-1A Concordant SGDP 136,080,221 – 136,644,413 564,192.5 0.06056790 95 271.8124 6,990.1
S_Ju_hoan_North-3A + B_Ju_hoan_North-4A Concordant SGDP 135,439,018 – 136,644,413 1,205,395.0 0.34527206 87 579.5896 3,002.1
S_Khomani_San-1A + B_Ju_hoan_North-4A Concordant SGDP 136,080,221 – 136,786,842 706,621.0 0.09231650 107 340.1781 6,290.8
S_Ju_hoan_North-3A + S_Ju_hoan_North-1A Concordant SGDP 136,399,121 – 136,644,413 245,292.0 0.04213799 14 118.7402 2,358.1
S_Ju_hoan_North-3A + S_Ju_hoan_North-2B Concordant SGDP 136,406,898 – 136,644,413 237,515.0 0.04190494 7 115.0072 1,217.3
S_Khomani_San-1A + S_Icelandic-1B Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Khomani_San-1A + S_Norwegian-1B Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Khomani_San-1A + S_Finnish-1B Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_French-2A Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Khomani_San-1A + S_Bulgarian-1A Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Khomani_San-1A + S_English-2A Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Khomani_San-1A + S_Xibo-1B Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-3A + S_Tubalar-1B Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_Mozabite-1A Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_Miao-1B Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
B_Ju_hoan_North-4A + S_Orcadian-1A Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-1A + S_Karitiana-1A Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Ju_hoan_North-3A + S_Cambodian-1A Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Khomani_San-1A + S_Turkish-2B Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Khomani_San-1A + S_Mozabite-2B Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Ju_hoan_North-3A + S_Naxi-2A Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Ju_hoan_North-3A + S_Mixtec-2A Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
B_Ju_hoan_North-4A + S_Georgian-2B Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Ju_hoan_North-3A + S_Uygur-1A Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
B_Ju_hoan_North-4A + S_Spanish-2A Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-3A + S_Xibo-2A Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Khomani_San-1A + S_Mongola-2B Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-3A + S_Dusun-2B Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_Miao-2A Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-3A + S_Mansi-2A Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_Kinh-2B Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Ju_hoan_North-3A + S_Burusho-2B Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_Sindhi-2B Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-3A + S_Samaritan-1A Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Khomani_San-1A + S_Czech-2A Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-3A + S_Lezgin-2A Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Khomani_San-1A + S_Estonian-1A Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-3A + S_Adygei-1B Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_Saami-1B Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-3A + S_Spanish-2B Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Khomani_San-1A + S_Basque-1A Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-3A + S_Yemenite_Jew-1B Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Khomani_San-1A + S_Tuscan-2A Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Ju_hoan_North-3A + B_Sardinian-3B Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_Orcadian-2A Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Ju_hoan_North-3A + S_Piapoco-1B Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_Saharawi-2B Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-3A + S_Pima-1B Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-1A + S_Yemenite_Jew-1B Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Ju_hoan_North-3A + S_Pima-2B Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
B_Ju_hoan_North-4A + S_Balochi-1B Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Ju_hoan_North-2B + S_Maori-1A Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
B_Ju_hoan_North-4A + S_Bergamo-2B Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-2B + S_Brahui-1A Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
B_Ju_hoan_North-4A + S_Spanish-1B Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Ju_hoan_North-2B + S_Hazara-1A Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
B_Ju_hoan_North-4A + S_Yemenite_Jew-2A Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-2B + S_Punjabi-4B Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_Mongola-2A Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-2B + S_Lezgin-2A Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_Aleut-2A Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Ju_hoan_North-2B + S_Lezgin-1B Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_Dai-3A Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-2B + B_French-3B Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_Hezhen-1A Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Ju_hoan_North-2B + B_Mixe-1A Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_Yi-2A Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-1A + S_Mixe-3B Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_Chukchi-1B Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Ju_hoan_North-1A + S_Mixtec-1A Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_Brahmin-2B Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-1A + S_Tlingit-1B Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_Punjabi-2A Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Ju_hoan_North-1A + S_Dai-2A Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_Atayal-1B Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-1A + S_Thai-2B Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_English-1B Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-1A + S_Maori-1A Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_Estonian-2B Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-1A + S_Makrani-2A Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_Estonian-1B Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-1A + S_English-1A Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_Finnish-3A Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-1A + S_Finnish-3A Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_Saami-2A Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-1A + S_BantuKenya-1B Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_French-2B Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-1A + S_Greek-2B Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_Basque-1B Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-1A + S_Druze-1A Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_Iranian-1B Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-1A + S_Bergamo-2B Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_Kyrgyz-2B Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Ju_hoan_North-1A + S_Jordanian-3A Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_Orcadian-1A Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-1A + S_Polish-1B Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_North_Ossetian-1A Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Ju_hoan_North-1A + S_Adygei-2B Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + B_Crete-2A Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-1A + S_Tajik-2A Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
S_Khomani_San-1A + S_Piapoco-2B Discordant SGDP 136,588,252 – 136,591,898 3,645.5 0.00086334 2 2.7498 14,546.3
S_Ju_hoan_North-1A + S_Turkish-1B Discordant SGDP 136,591,888 – 136,591,898 9.5 0.00000056 2 1.0046 39,818.4
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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