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

rs370622934
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 10   position  31,793,510  (GRCh37) Explore rs370622934 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 98.9%
1.1%
OCN 98.0%
2.0%
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 SGDP374.5 generations 97  =  1  +  961.000
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_Ami-1A + S_Igorot-1B Concordant SGDP 31,480,074 – 31,979,966 499,891.5 0.32484965 4 500.8276 159.7
S_Ami-1A + S_Saami-1A Discordant SGDP 31,548,099 – 31,868,351 320,252.0 0.01981494 10 170.5729 1,172.5
S_Ami-1A + S_Czech-2B Discordant SGDP 31,601,307 – 31,868,351 267,044.5 0.01132961 14 138.2450 2,025.4
S_Ami-1A + S_Punjabi-1B Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Igorot-1B + B_French-3A Discordant SGDP 31,548,099 – 31,868,351 320,252.0 0.01981494 13 170.5729 1,524.3
S_Igorot-1B + S_Kalash-2A Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Chane-1A Discordant SGDP 31,687,839 – 31,793,555 105,716.0 0.00318573 8 54.2923 2,947.0
S_Ami-1A + S_Orcadian-2B Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Ulchi-1A Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Tubalar-1B Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Altaian-1A Discordant SGDP 31,687,839 – 31,793,555 105,716.0 0.00318573 8 54.2923 2,947.0
S_Ami-1A + S_Yakut-1A Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Tubalar-2B Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Quechua-1B Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Iraqi_Jew-1B Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Sardinian-1A Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Even-3A Discordant SGDP 31,793,510 – 31,868,351 74,841.5 0.00585184 5 41.6054 2,403.5
S_Ami-1A + S_Yemenite_Jew-1A Discordant SGDP 31,548,099 – 31,868,351 320,252.0 0.01981494 14 170.5729 1,641.5
S_Ami-1A + S_Yakut-2B Discordant SGDP 31,134,695 – 31,793,555 658,860.0 0.24469808 68 513.0113 2,651.0
S_Igorot-1B + S_Ulchi-2A Discordant SGDP 31,484,549 – 31,868,351 383,802.0 0.03239346 14 211.1397 1,326.1
S_Ami-1A + S_Tlingit-1A Discordant SGDP 31,548,099 – 31,868,351 320,252.0 0.01981494 9 170.5729 1,055.3
S_Igorot-1B + S_French-2A Discordant SGDP 31,601,307 – 31,868,351 267,044.5 0.01132961 14 138.2450 2,025.4
S_Ami-1A + S_Aleut-2B Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Sindhi-2B Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Naxi-3B Discordant SGDP 31,548,099 – 31,868,351 320,252.0 0.01981494 13 170.5729 1,524.3
S_Ami-1A + S_Bulgarian-1A Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Miao-1B Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Finnish-2B Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Han-1B Discordant SGDP 31,583,614 – 31,868,351 284,737.0 0.01207056 14 147.3302 1,900.5
S_Ami-1A + S_Iranian-1B Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Tu-2A Discordant SGDP 31,793,510 – 31,795,978 2,468.0 0.00048212 4 2.5703 31,124.3
S_Ami-1A + S_BedouinB-2A Discordant SGDP 31,548,099 – 31,868,351 320,252.0 0.01981494 17 170.5729 1,993.3
S_Ami-1A + S_Uygur-1A Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Jordanian-1A Discordant SGDP 31,548,099 – 31,868,351 320,252.0 0.01981494 12 170.5729 1,407.0
S_Ami-1A + S_Yi-2B Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Turkish-1B Discordant SGDP 31,548,099 – 31,868,351 320,252.0 0.01981494 14 170.5729 1,641.5
S_Ami-1A + S_Uygur-2B Discordant SGDP 31,565,428 – 31,868,351 302,923.0 0.01367089 15 157.3398 1,906.7
S_Ami-1A + B_Dai-4A Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_She-2B Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Pima-2A Discordant SGDP 31,697,077 – 31,793,555 96,478.5 0.00273832 7 49.5003 2,828.3
S_Ami-1A + S_Korean-2B Discordant SGDP 31,548,099 – 31,868,351 320,252.0 0.01981494 13 170.5729 1,524.3
S_Igorot-1B + S_Papuan-9B Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Burmese-2B Discordant SGDP 31,793,510 – 31,868,351 74,841.5 0.00585184 6 41.6054 2,884.2
S_Igorot-1B + S_English-2B Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Burmese-1A Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Igorot-1B + S_Polish-1A Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Thai-1B Discordant SGDP 31,079,206 – 31,868,351 789,145.5 0.32163275 30 637.0960 941.8
S_Ami-1A + S_Mixe-2A Discordant SGDP 31,687,839 – 31,793,555 105,716.0 0.00318573 7 54.2923 2,578.6
S_Ami-1A + S_Kinh-2B Discordant SGDP 31,793,510 – 31,795,978 2,468.0 0.00048212 4 2.5703 31,124.3
S_Ami-1A + S_Punjabi-4B Discordant SGDP 31,793,510 – 31,795,978 2,468.0 0.00048212 4 2.5703 31,124.3
S_Ami-1A + S_Kinh-1B Discordant SGDP 31,687,839 – 31,793,555 105,716.0 0.00318573 7 54.2923 2,578.6
S_Ami-1A + S_Abkhasian-1A Discordant SGDP 31,548,099 – 31,868,351 320,252.0 0.01981494 11 170.5729 1,289.8
S_Ami-1A + S_Dusun-1B Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Luhya-1B Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Maori-1A Discordant SGDP 31,687,839 – 31,793,555 105,716.0 0.00318573 7 54.2923 2,578.6
S_Ami-1A + S_Estonian-2A Discordant SGDP 31,565,428 – 31,841,841 276,413.0 0.01149221 14 142.8720 1,959.8
S_Ami-1A + S_Bougainville-1B Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Finnish-1B Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Papuan-14A Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Saami-2A Discordant SGDP 31,548,099 – 31,868,351 320,252.0 0.01981494 12 170.5729 1,407.0
S_Ami-1A + S_Papuan-9A Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Iraqi_Jew-2A Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Igorot-1A Discordant SGDP 31,079,206 – 31,868,351 789,145.5 0.32163275 24 637.0960 753.4
S_Ami-1A + S_Palestinian-1B Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Hawaiian-1A Discordant SGDP 31,793,510 – 33,399,761 1,606,251.5 0.88818335 99 1,482.5474 1,335.5
S_Ami-1A + S_Bergamo-2A Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Chukchi-1B Discordant SGDP 31,697,077 – 31,793,555 96,478.5 0.00273832 7 49.5003 2,828.3
S_Ami-1A + S_Jordanian-2A Discordant SGDP 31,697,077 – 31,793,555 96,478.5 0.00273832 6 49.5003 2,424.2
S_Ami-1A + S_Itelman-1B Discordant SGDP 31,687,839 – 31,793,555 105,716.0 0.00318573 7 54.2923 2,578.6
S_Ami-1A + S_Jordanian-1B Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Bengali-2A Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Russian-2B Discordant SGDP 31,548,099 – 31,868,351 320,252.0 0.01981494 11 170.5729 1,289.8
S_Ami-1A + S_Yadava-2A Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Yemenite_Jew-2A Discordant SGDP 31,575,111 – 31,868,351 293,240.5 0.01288349 12 152.0622 1,578.3
S_Ami-1A + S_Mala-3B Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Yemenite_Jew-1B Discordant SGDP 31,548,099 – 31,868,351 320,252.0 0.01981494 14 170.5729 1,641.5
S_Ami-1A + S_Brahmin-1A Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + B_French-3B Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Madiga-1B Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Piapoco-2A Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Madiga-2A Discordant SGDP 31,687,839 – 31,793,555 105,716.0 0.00318573 7 54.2923 2,578.6
S_Igorot-1B + S_Mozabite-1B Discordant SGDP 31,548,099 – 31,868,351 320,252.0 0.01981494 11 170.5729 1,289.8
S_Ami-1A + S_Kusunda-1B Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Igorot-1B + S_Even-1B Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Kusunda-2B Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Igorot-1B + S_Mala-2B Discordant SGDP 31,034,032 – 31,868,351 834,319.5 0.38828804 41 712.1038 1,151.5
S_Ami-1A + S_Makrani-1A Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Igorot-1B + S_Albanian-1A Discordant SGDP 31,697,077 – 31,793,555 96,478.5 0.00273832 6 49.5003 2,424.2
S_Ami-1A + S_Pathan-1A Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Igorot-1B + S_Finnish-1A Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Brahui-1B Discordant SGDP 31,565,428 – 31,868,351 302,923.0 0.01367089 16 157.3398 2,033.8
S_Igorot-1B + S_Druze-1A Discordant SGDP 31,793,510 – 31,795,978 2,468.0 0.00048212 4 2.5703 31,124.3
S_Ami-1A + S_Pathan-2B Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Igorot-1B + S_North_Ossetian-1B Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Kalash-2A Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Igorot-1B + S_Karitiana-1A Discordant SGDP 31,793,510 – 31,793,555 45.5 0.00001486 4 1.0337 77,389.5
S_Ami-1A + S_Sindhi-2A Discordant SGDP 31,565,428 – 31,795,978 230,549.5 0.00830117 8 118.3047 1,352.4
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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