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Atlas of Variant Age
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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

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 Recombination clock
Data source Estimated age of A allele # pairs = concordant + discordant Quality score
    Genomes in SGDP251.9 generations 120  =  21  +  990.899
Pairwise results table Recombination 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 3 323.8336 185.3
S_Papuan-6B + B_Papuan-15A Concordant SGDP 109,132,345 – 109,648,414 516,068.5 0.37415146 3 300.3212 199.8
S_Papuan-6B + S_Papuan-4B Concordant SGDP 108,954,234 – 109,583,828 629,593.5 0.30865218 3 247.9217 242.0
S_Papuan-6B + S_Papuan-9A Concordant SGDP 108,644,930 – 109,919,411 1,274,481.0 1.01430188 3 812.4415 73.9
S_Papuan-9A + B_Papuan-15A Concordant SGDP 109,132,345 – 109,627,534 495,188.5 0.27342692 3 219.7415 273.0
S_Papuan-8B + B_Papuan-15A Concordant SGDP 109,132,345 – 109,627,534 495,188.5 0.27342692 3 219.7415 273.0
S_Papuan-8B + S_Papuan-4B Concordant SGDP 108,954,234 – 110,022,483 1,068,249.0 0.80444937 3 644.5595 93.1
S_Papuan-4B + B_Papuan-15A Concordant SGDP 109,132,345 – 109,583,828 451,482.5 0.19888103 3 160.1048 374.8
S_Papuan-3B + B_Papuan-15A Concordant SGDP 109,132,345 – 109,648,414 516,068.5 0.37415146 3 300.3212 199.8
S_Papuan-8B + S_Papuan-6B Concordant SGDP 108,954,234 – 110,020,181 1,065,947.0 0.80221156 3 642.7693 93.3
S_Papuan-3B + S_Papuan-2B Concordant SGDP 109,132,345 – 109,662,917 530,571.5 0.40354205 3 323.8336 185.3
S_Papuan-3B + S_Papuan-9A Concordant SGDP 107,935,881 – 109,627,534 1,691,652.5 1.22539776 3 981.3182 61.1
S_Papuan-3B + S_Papuan-4B Concordant SGDP 108,954,234 – 109,583,828 629,593.5 0.30865218 3 247.9217 242.0
S_Papuan-4B + S_Papuan-9A Concordant SGDP 108,954,234 – 109,583,828 629,593.5 0.30865218 3 247.9217 242.0
S_Papuan-8B + S_Papuan-9A Concordant SGDP 107,321,596 – 109,919,411 2,597,815.0 2.19707849 3 1,758.6628 34.1
S_Papuan-4B + S_Papuan-2B Concordant SGDP 109,132,345 – 109,583,828 451,482.5 0.19888103 3 160.1048 374.8
S_Papuan-8B + S_Papuan-2B Concordant SGDP 109,132,345 – 109,627,534 495,188.5 0.27342692 3 219.7415 273.0
S_Papuan-9A + S_Papuan-2B Concordant SGDP 109,132,345 – 109,627,534 495,188.5 0.27342692 3 219.7415 273.0
S_Papuan-2B + B_Papuan-15A Concordant SGDP 107,325,385 – 109,648,414 2,323,029.0 1.99122983 3 1,593.9839 37.6
S_Papuan-3B + S_Papuan-8B Concordant SGDP 107,848,988 – 109,627,534 1,778,545.5 1.34776253 3 1,079.2100 55.6
S_Papuan-3B + S_Papuan-6B Concordant SGDP 108,644,930 – 110,613,184 1,968,253.5 2.29011247 3 1,833.0900 32.7
S_Papuan-4B + S_Yakut-2A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-6B + S_Piapoco-1A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-6B + S_Yoruba-1A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-6B + S_Tajik-1B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-6B + S_Lezgin-2A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-4B + S_Papuan-9B Discordant SGDP 108,954,234 – 109,505,034 550,800.0 0.16362676 3 131.9014 454.9
S_Papuan-4B + S_Burmese-2A Discordant SGDP 108,954,234 – 109,505,034 550,800.0 0.16362676 3 131.9014 454.9
B_Papuan-15A + S_Hungarian-1B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
B_Papuan-15A + S_Saharawi-1A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
B_Papuan-15A + S_Mansi-2A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
B_Papuan-15A + S_Bougainville-1A Discordant SGDP 109,132,345 – 109,540,064 407,718.5 0.07517395 3 61.1392 981.4
S_Papuan-9A + B_Crete-1A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-9A + S_Kapu-1B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-4B + S_Brahui-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-4B + S_Dai-3A Discordant SGDP 108,954,234 – 109,540,064 585,829.5 0.18494510 3 148.9561 402.8
S_Papuan-4B + S_Lahu-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
B_Papuan-15A + S_North_Ossetian-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-4B + S_Bougainville-2A Discordant SGDP 108,954,234 – 109,540,064 585,829.5 0.18494510 3 148.9561 402.8
S_Papuan-4B + S_Bougainville-1B Discordant SGDP 108,954,234 – 109,540,064 585,829.5 0.18494510 3 148.9561 402.8
S_Papuan-4B + S_Papuan-14A Discordant SGDP 108,954,234 – 109,540,064 585,829.5 0.18494510 3 148.9561 402.8
S_Papuan-3B + S_She-1B Discordant SGDP 109,448,183 – 109,937,965 489,782.0 0.53861058 3 431.8885 138.9
S_Papuan-4B + S_Khonda_Dora-1A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-3B + S_Papuan-10B Discordant SGDP 108,013,075 – 109,627,003 1,613,927.5 1.11518217 3 893.1457 67.2
S_Papuan-4B + S_Iranian-1B Discordant SGDP 109,336,853 – 109,540,064 203,210.5 0.03795379 3 31.3630 1,913.1
S_Papuan-3B + S_Papuan-6A Discordant SGDP 108,954,234 – 109,540,064 585,829.5 0.18494510 3 148.9561 402.8
S_Papuan-9A + S_Palestinian-3B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-3B + S_Papuan-7B Discordant SGDP 108,954,234 – 109,529,864 575,629.5 0.17566249 3 141.5300 423.9
B_Papuan-15A + S_Tlingit-2A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-3B + S_Samaritan-1B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
B_Papuan-15A + S_Papuan-12A Discordant SGDP 109,132,345 – 110,031,825 899,479.5 0.70144030 3 562.1522 106.7
S_Papuan-3B + S_Surui-1A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
B_Papuan-15A + S_Somali-1A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-3B + S_Surui-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
B_Papuan-15A + S_Finnish-3A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-3B + S_Piapoco-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
B_Papuan-15A + S_Jordanian-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-8B + B_Australian-3B Discordant SGDP 108,954,234 – 109,627,003 672,768.5 0.36524447 3 293.1956 204.6
B_Papuan-15A + S_Saharawi-2A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-6B + S_Tubalar-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-6B + S_Abkhasian-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-6B + S_Mozabite-2A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-6B + S_Lezgin-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-6B + S_Papuan-3A Discordant SGDP 108,954,234 – 109,627,003 672,768.5 0.36524447 3 293.1956 204.6
S_Papuan-6B + B_Yoruba-3A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-6B + S_Papuan-1B Discordant SGDP 108,954,234 – 109,505,034 550,800.0 0.16362676 3 131.9014 454.9
S_Papuan-6B + S_Saharawi-2A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-6B + S_Papuan-8A Discordant SGDP 108,954,234 – 109,627,003 672,768.5 0.36524447 3 293.1956 204.6
S_Papuan-4B + S_Mozabite-1B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-6B + S_Papuan-10B Discordant SGDP 108,954,234 – 110,002,153 1,047,918.5 0.74461388 3 596.6911 100.6
S_Papuan-4B + S_Lahu-1B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-6B + S_Papuan-11B Discordant SGDP 108,954,234 – 109,505,034 550,800.0 0.16362676 3 131.9014 454.9
S_Papuan-4B + S_Biaka-2A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-6B + S_Papuan-5B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-4B + S_Japanese-3A Discordant SGDP 108,954,234 – 109,505,034 550,800.0 0.16362676 3 131.9014 454.9
S_Papuan-6B + S_Papuan-13A Discordant SGDP 108,954,234 – 109,505,034 550,800.0 0.16362676 3 131.9014 454.9
S_Papuan-4B + S_Kinh-2A Discordant SGDP 108,954,234 – 109,540,064 585,829.5 0.18494510 3 148.9561 402.8
S_Papuan-6B + S_Papuan-13B Discordant SGDP 108,954,234 – 109,540,064 585,829.5 0.18494510 3 148.9561 402.8
S_Papuan-4B + S_Bougainville-2B Discordant SGDP 108,954,234 – 109,540,064 585,829.5 0.18494510 3 148.9561 402.8
S_Papuan-6B + S_Papuan-7B Discordant SGDP 108,954,234 – 109,529,864 575,629.5 0.17566249 3 141.5300 423.9
S_Papuan-4B + S_Papuan-11B Discordant SGDP 108,954,234 – 109,505,034 550,800.0 0.16362676 3 131.9014 454.9
S_Papuan-6B + S_Papuan-12B Discordant SGDP 108,954,234 – 109,540,064 585,829.5 0.18494510 3 148.9561 402.8
S_Papuan-4B + S_Papuan-14B Discordant SGDP 108,954,234 – 109,540,064 585,829.5 0.18494510 3 148.9561 402.8
S_Papuan-6B + S_Gambian-2B Discordant SGDP 109,320,672 – 109,540,064 219,392.0 0.04714178 3 38.7134 1,549.9
S_Papuan-4B + S_Mala-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-6B + S_Bengali-1A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-4B + S_Madiga-2A Discordant SGDP 108,954,234 – 109,540,064 585,829.5 0.18494510 3 148.9561 402.8
S_Papuan-6B + S_Bengali-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-4B + S_Estonian-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-6B + S_Yadava-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-4B + S_Esan-2A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-6B + S_Brahmin-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-9A + S_Samaritan-1B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-6B + S_Balochi-1A Discordant SGDP 108,954,234 – 109,540,064 585,829.5 0.18494510 3 148.9561 402.8
S_Papuan-9A + S_Adygei-2A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-6B + S_Luhya-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-2B + S_Papuan-4A Discordant SGDP 109,132,345 – 110,001,864 869,519.0 0.63236425 3 506.8914 118.4
S_Papuan-6B + S_Pathan-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
B_Papuan-15A + B_Australian-4B Discordant SGDP 109,132,345 – 109,627,003 494,657.5 0.25547333 3 205.3787 292.1
S_Papuan-6B + S_Punjabi-3B Discordant SGDP 108,954,234 – 109,540,064 585,829.5 0.18494510 3 148.9561 402.8
B_Papuan-15A + S_Papuan-1B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-6B + S_Punjabi-4B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
B_Papuan-15A + S_Papuan-2A Discordant SGDP 109,132,345 – 110,096,282 963,936.5 0.73002681 3 585.0214 102.6
S_Papuan-6B + S_Albanian-1A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
B_Papuan-15A + S_Irula-1A Discordant SGDP 109,132,345 – 109,540,064 407,718.5 0.07517395 3 61.1392 981.4
S_Papuan-6B + S_Estonian-1A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
B_Papuan-15A + S_English-1A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-6B + S_Finnish-2B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
B_Papuan-15A + S_Estonian-1A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-6B + S_Greek-1B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
B_Papuan-15A + S_Saami-1A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-6B + S_Hungarian-2A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
B_Papuan-15A + S_Jordanian-3B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-6B + S_Icelandic-1B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
B_Papuan-15A + S_Saharawi-1B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-6B + S_Iranian-1B Discordant SGDP 109,336,853 – 109,540,064 203,210.5 0.03795379 3 31.3630 1,913.1
B_Papuan-15A + S_Adygei-2A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-6B + S_Jordanian-3B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
B_Papuan-15A + S_Mende-2A Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
S_Papuan-6B + S_Russian-1B Discordant SGDP 109,504,970 – 109,505,034 64.0 0.00000055 3 1.0004 59,973.6
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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