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Individuals: 278
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Genealogical Estimation of Variant Age (GEVA)

Inference of the ancestral origin of a genetic variant at a single locus

rs905152464
Alleles:
reference
G
ancestral
alternate
A
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  109,504,999  (GRCh37) Explore rs905152464 on Ensembl!
Allele frequency in   SGDP ⇪
Sample 98.7%
1.3%
AFR 100.0%
0.0%
AMR 100.0%
0.0%
CAS 100.0%
0.0%
EAS 100.0%
0.0%
OCN 86.0%
14.0%
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 A allele # pairs = concordant + discordant Quality score
    Genomes in SGDP745.5 generations 120  =  21  +  990.857
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_Papuan-6B + S_Papuan-2B Concordant SGDP 109,132,345 – 109,662,917 530,571.5 0.40354205 18 578.5080 622.3
S_Papuan-6B + B_Papuan-15A Concordant SGDP 109,132,345 – 109,648,414 516,068.5 0.37415146 20 548.0340 729.9
S_Papuan-6B + S_Papuan-4B Concordant SGDP 108,954,234 – 109,583,828 629,593.5 0.30865218 10 550.1266 363.6
S_Papuan-6B + S_Papuan-9A Concordant SGDP 108,644,930 – 109,919,411 1,274,481.0 1.01430188 21 1,424.1924 294.9
S_Papuan-9A + B_Papuan-15A Concordant SGDP 109,132,345 – 109,627,534 495,188.5 0.27342692 17 457.4320 743.3
S_Papuan-8B + B_Papuan-15A Concordant SGDP 109,132,345 – 109,627,534 495,188.5 0.27342692 19 457.4320 830.7
S_Papuan-8B + S_Papuan-4B Concordant SGDP 108,954,234 – 110,022,483 1,068,249.0 0.80444937 25 1,157.3190 432.0
S_Papuan-4B + B_Papuan-15A Concordant SGDP 109,132,345 – 109,583,828 451,482.5 0.19888103 17 376.8164 902.3
S_Papuan-3B + B_Papuan-15A Concordant SGDP 109,132,345 – 109,648,414 516,068.5 0.37415146 22 548.0340 802.9
S_Papuan-8B + S_Papuan-6B Concordant SGDP 108,954,234 – 110,020,181 1,065,947.0 0.80221156 26 1,154.4238 450.4
S_Papuan-3B + S_Papuan-2B Concordant SGDP 109,132,345 – 109,662,917 530,571.5 0.40354205 20 578.5080 691.4
S_Papuan-3B + S_Papuan-9A Concordant SGDP 107,935,881 – 109,627,534 1,691,652.5 1.22539776 41 1,793.3114 457.3
S_Papuan-3B + S_Papuan-4B Concordant SGDP 108,954,234 – 109,583,828 629,593.5 0.30865218 7 550.1266 254.5
S_Papuan-4B + S_Papuan-9A Concordant SGDP 108,954,234 – 109,583,828 629,593.5 0.30865218 8 550.1266 290.8
S_Papuan-8B + S_Papuan-9A Concordant SGDP 107,321,596 – 109,919,411 2,597,815.0 2.19707849 65 3,005.6140 432.5
S_Papuan-4B + S_Papuan-2B Concordant SGDP 109,132,345 – 109,583,828 451,482.5 0.19888103 14 376.8164 743.1
S_Papuan-8B + S_Papuan-2B Concordant SGDP 109,132,345 – 109,627,534 495,188.5 0.27342692 16 457.4320 699.6
S_Papuan-9A + S_Papuan-2B Concordant SGDP 109,132,345 – 109,627,534 495,188.5 0.27342692 14 457.4320 612.1
S_Papuan-2B + B_Papuan-15A Concordant SGDP 107,325,385 – 109,648,414 2,323,029.0 1.99122983 67 2,709.0378 494.6
S_Papuan-3B + S_Papuan-8B Concordant SGDP 107,848,988 – 109,627,534 1,778,545.5 1.34776253 39 1,932.9119 403.5
S_Papuan-3B + S_Papuan-6B Concordant SGDP 108,644,930 – 110,613,184 1,968,253.5 2.29011247 38 2,777.8517 273.6
S_Papuan-4B + S_Yakut-2A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-6B + S_Piapoco-1A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-6B + S_Yoruba-1A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-6B + S_Tajik-1B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-6B + S_Lezgin-2A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-4B + S_Papuan-9B Discordant SGDP 108,954,234 – 109,505,034 550,800.0 0.16362676 107 396.2854 5,400.1
S_Papuan-4B + S_Burmese-2A Discordant SGDP 108,954,234 – 109,505,034 550,800.0 0.16362676 87 396.2854 4,390.8
B_Papuan-15A + S_Hungarian-1B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
B_Papuan-15A + S_Saharawi-1A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
B_Papuan-15A + S_Mansi-2A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
B_Papuan-15A + S_Bougainville-1A Discordant SGDP 109,132,345 – 109,540,064 407,718.5 0.07517395 27 256.8440 2,102.4
S_Papuan-9A + B_Crete-1A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-9A + S_Kapu-1B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-4B + S_Brahui-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-4B + S_Dai-3A Discordant SGDP 108,954,234 – 109,540,064 585,829.5 0.18494510 19 430.1542 883.4
S_Papuan-4B + S_Lahu-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
B_Papuan-15A + S_North_Ossetian-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-4B + S_Bougainville-2A Discordant SGDP 108,954,234 – 109,540,064 585,829.5 0.18494510 31 430.1542 1,441.3
S_Papuan-4B + S_Bougainville-1B Discordant SGDP 108,954,234 – 109,540,064 585,829.5 0.18494510 24 430.1542 1,115.9
S_Papuan-4B + S_Papuan-14A Discordant SGDP 108,954,234 – 109,540,064 585,829.5 0.18494510 18 430.1542 836.9
S_Papuan-3B + S_She-1B Discordant SGDP 109,448,183 – 109,937,965 489,782.0 0.53861058 38 666.9838 1,139.5
S_Papuan-4B + S_Khonda_Dora-1A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-3B + S_Papuan-10B Discordant SGDP 108,013,075 – 109,627,003 1,613,927.5 1.11518217 67 1,667.8309 803.4
S_Papuan-4B + S_Iranian-1B Discordant SGDP 109,336,853 – 109,540,064 203,210.5 0.03795379 9 128.9041 1,396.4
S_Papuan-3B + S_Papuan-6A Discordant SGDP 108,954,234 – 109,540,064 585,829.5 0.18494510 22 430.1542 1,022.9
S_Papuan-9A + S_Palestinian-3B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-3B + S_Papuan-7B Discordant SGDP 108,954,234 – 109,529,864 575,629.5 0.17566249 25 417.8322 1,196.7
B_Papuan-15A + S_Tlingit-2A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-3B + S_Samaritan-1B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
B_Papuan-15A + S_Papuan-12A Discordant SGDP 109,132,345 – 110,031,825 899,479.5 0.70144030 71 993.9024 1,428.7
S_Papuan-3B + S_Surui-1A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
B_Papuan-15A + S_Somali-1A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-3B + S_Surui-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
B_Papuan-15A + S_Finnish-3A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-3B + S_Piapoco-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
B_Papuan-15A + S_Jordanian-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-8B + B_Australian-3B Discordant SGDP 108,954,234 – 109,627,003 672,768.5 0.36524447 32 616.1245 1,038.8
B_Papuan-15A + S_Saharawi-2A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-6B + S_Tubalar-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-6B + S_Abkhasian-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-6B + S_Mozabite-2A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-6B + S_Lezgin-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-6B + S_Papuan-3A Discordant SGDP 108,954,234 – 109,627,003 672,768.5 0.36524447 19 616.1245 616.8
S_Papuan-6B + B_Yoruba-3A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-6B + S_Papuan-1B Discordant SGDP 108,954,234 – 109,505,034 550,800.0 0.16362676 94 396.2854 4,744.1
S_Papuan-6B + S_Saharawi-2A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-6B + S_Papuan-8A Discordant SGDP 108,954,234 – 109,627,003 672,768.5 0.36524447 16 616.1245 519.4
S_Papuan-4B + S_Mozabite-1B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-6B + S_Papuan-10B Discordant SGDP 108,954,234 – 110,002,153 1,047,918.5 0.74461388 62 1,099.6920 1,127.6
S_Papuan-4B + S_Lahu-1B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-6B + S_Papuan-11B Discordant SGDP 108,954,234 – 109,505,034 550,800.0 0.16362676 98 396.2854 4,945.9
S_Papuan-4B + S_Biaka-2A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-6B + S_Papuan-5B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-4B + S_Japanese-3A Discordant SGDP 108,954,234 – 109,505,034 550,800.0 0.16362676 132 396.2854 6,661.9
S_Papuan-6B + S_Papuan-13A Discordant SGDP 108,954,234 – 109,505,034 550,800.0 0.16362676 94 396.2854 4,744.1
S_Papuan-4B + S_Kinh-2A Discordant SGDP 108,954,234 – 109,540,064 585,829.5 0.18494510 22 430.1542 1,022.9
S_Papuan-6B + S_Papuan-13B Discordant SGDP 108,954,234 – 109,540,064 585,829.5 0.18494510 23 430.1542 1,069.4
S_Papuan-4B + S_Bougainville-2B Discordant SGDP 108,954,234 – 109,540,064 585,829.5 0.18494510 17 430.1542 790.4
S_Papuan-6B + S_Papuan-7B Discordant SGDP 108,954,234 – 109,529,864 575,629.5 0.17566249 23 417.8322 1,100.9
S_Papuan-4B + S_Papuan-11B Discordant SGDP 108,954,234 – 109,505,034 550,800.0 0.16362676 101 396.2854 5,097.3
S_Papuan-6B + S_Papuan-12B Discordant SGDP 108,954,234 – 109,540,064 585,829.5 0.18494510 22 430.1542 1,022.9
S_Papuan-4B + S_Papuan-14B Discordant SGDP 108,954,234 – 109,540,064 585,829.5 0.18494510 25 430.1542 1,162.4
S_Papuan-6B + S_Gambian-2B Discordant SGDP 109,320,672 – 109,540,064 219,392.0 0.04714178 16 144.0216 2,221.9
S_Papuan-4B + S_Mala-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-6B + S_Bengali-1A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-4B + S_Madiga-2A Discordant SGDP 108,954,234 – 109,540,064 585,829.5 0.18494510 26 430.1542 1,208.9
S_Papuan-6B + S_Bengali-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-4B + S_Estonian-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-6B + S_Yadava-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-4B + S_Esan-2A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-6B + S_Brahmin-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-9A + S_Samaritan-1B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-6B + S_Balochi-1A Discordant SGDP 108,954,234 – 109,540,064 585,829.5 0.18494510 27 430.1542 1,255.4
S_Papuan-9A + S_Adygei-2A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-6B + S_Luhya-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-2B + S_Papuan-4A Discordant SGDP 109,132,345 – 110,001,864 869,519.0 0.63236425 53 924.2605 1,146.9
S_Papuan-6B + S_Pathan-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
B_Papuan-15A + B_Australian-4B Discordant SGDP 109,132,345 – 109,627,003 494,657.5 0.25547333 31 442.8143 1,400.1
S_Papuan-6B + S_Punjabi-3B Discordant SGDP 108,954,234 – 109,540,064 585,829.5 0.18494510 29 430.1542 1,348.4
B_Papuan-15A + S_Papuan-1B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-6B + S_Punjabi-4B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
B_Papuan-15A + S_Papuan-2A Discordant SGDP 109,132,345 – 110,096,282 963,936.5 0.73002681 31 1,047.7110 591.8
S_Papuan-6B + S_Albanian-1A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
B_Papuan-15A + S_Irula-1A Discordant SGDP 109,132,345 – 109,540,064 407,718.5 0.07517395 21 256.8440 1,635.2
S_Papuan-6B + S_Estonian-1A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
B_Papuan-15A + S_English-1A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-6B + S_Finnish-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
B_Papuan-15A + S_Estonian-1A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-6B + S_Greek-1B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
B_Papuan-15A + S_Saami-1A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-6B + S_Hungarian-2A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
B_Papuan-15A + S_Jordanian-3B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-6B + S_Icelandic-1B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
B_Papuan-15A + S_Saharawi-1B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-6B + S_Iranian-1B Discordant SGDP 109,336,853 – 109,540,064 203,210.5 0.03795379 9 128.9041 1,396.4
B_Papuan-15A + S_Adygei-2A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-6B + S_Jordanian-3B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
B_Papuan-15A + S_Mende-2A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
S_Papuan-6B + S_Russian-1B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 4 1.0312 77,582.5
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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