Populations:	`26`
Individuals:	`2,535`
Ancestry analyses:	`565,507,800`

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

rs533440641

Alleles:

reference

ancestral

alternate

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 109,522,980 (GRCh37)

Explore rs533440641 on Ensembl!

ShowHide allele frequencies

Allele frequency in SGDP ⇪

Sample	`99.6%`		`0.4%`
`AFR`	`97.7%`		`2.3%`
`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 `C` allele	# pairs = concordant + discordant	Quality score
Genomes in SGDP	`2,000.7` generations	`93` = `1` + `92`	`0.989`

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_Khomani_San-2A + S_Khomani_San-1B	Concordant	SGDP	`109,522,747` – `109,530,357`	`7,610.0`	`0.00348510`	2	4.6528	8,597.0
S_Khomani_San-1B + S_Samaritan-1B	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Hungarian-1A	Discordant	SGDP	`109,520,160` – `109,522,998`	`2,838.0`	`0.00100100`	2	2.3622	16,933.1
S_Khomani_San-1B + S_Finnish-2B	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Albanian-1B	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Mende-2A	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + B_Mandenka-3A	Discordant	SGDP	`109,522,977` – `109,530,357`	`7,380.5`	`0.00340293`	2	4.5426	8,805.5
S_Khomani_San-1B + S_Lezgin-2B	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-2A + S_Luo-2B	Discordant	SGDP	`109,522,977` – `109,524,125`	`1,148.5`	`0.00041459`	2	1.5513	25,785.2
S_Khomani_San-2A + S_Pathan-1A	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-2A + S_Khonda_Dora-1B	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-2A + S_BantuKenya-2B	Discordant	SGDP	`109,522,977` – `109,524,125`	`1,148.5`	`0.00041459`	2	1.5513	25,785.2
S_Khomani_San-2A + S_Mbuti-1B	Discordant	SGDP	`109,471,639` – `109,524,125`	`52,486.0`	`0.01044617`	28	26.1933	21,379.5
S_Khomani_San-2A + S_Mbuti-2B	Discordant	SGDP	`109,471,639` – `109,522,998`	`51,359.0`	`0.01003928`	27	25.6523	21,050.7
S_Khomani_San-1B + S_Luo-1B	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Ju_hoan_North-3A	Discordant	SGDP	`108,954,234` – `109,522,998`	`568,764.0`	`0.17244605`	132	274.0067	9,634.8
S_Khomani_San-2A + S_Luhya-1A	Discordant	SGDP	`109,471,639` – `109,540,064`	`68,424.5`	`0.02253832`	31	33.8438	18,319.5
S_Khomani_San-1B + S_Tajik-2A	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-2A + S_Abkhasian-2A	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Saharawi-2A	Discordant	SGDP	`109,520,160` – `109,522,998`	`2,838.0`	`0.00100100`	2	2.3622	16,933.1
S_Khomani_San-2A + B_Dinka-3A	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Piapoco-1B	Discordant	SGDP	`109,520,160` – `109,522,998`	`2,838.0`	`0.00100100`	2	2.3622	16,933.1
S_Khomani_San-2A + S_Saharawi-2B	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_BantuKenya-1A	Discordant	SGDP	`109,487,963` – `109,522,998`	`35,035.0`	`0.00939475`	17	17.8168	19,083.1
S_Khomani_San-2A + S_Khomani_San-1A	Discordant	SGDP	`109,471,639` – `109,611,374`	`139,734.5`	`0.18726817`	40	68.0726	11,752.2
S_Khomani_San-1B + S_Greek-1B	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-2A + S_BantuHerero-2B	Discordant	SGDP	`108,980,153` – `109,540,064`	`559,911.0`	`0.09415087`	188	269.7573	13,938.5
S_Khomani_San-1B + S_Iranian-1B	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Mozabite-1B	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_BedouinB-1A	Discordant	SGDP	`109,522,977` – `109,524,125`	`1,148.5`	`0.00041459`	2	1.5513	25,785.2
S_Khomani_San-1B + S_Mongola-2A	Discordant	SGDP	`109,520,160` – `109,522,998`	`2,838.0`	`0.00100100`	2	2.3622	16,933.1
S_Khomani_San-1B + S_Jordanian-3A	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Tubalar-2A	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Russian-1A	Discordant	SGDP	`109,520,160` – `109,522,998`	`2,838.0`	`0.00100100`	2	2.3622	16,933.1
S_Khomani_San-1B + S_BantuTswana-2B	Discordant	SGDP	`109,522,977` – `109,536,510`	`13,533.0`	`0.00568871`	3	7.4958	8,004.4
S_Khomani_San-1B + S_Adygei-2B	Discordant	SGDP	`109,521,900` – `109,522,998`	`1,098.0`	`0.00039087`	2	1.5270	26,194.5
S_Khomani_San-1B + S_Tlingit-2B	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Yemenite_Jew-2B	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Naxi-2B	Discordant	SGDP	`109,520,160` – `109,522,998`	`2,838.0`	`0.00100100`	2	2.3622	16,933.1
S_Khomani_San-1B + B_Yoruba-3B	Discordant	SGDP	`109,522,977` – `109,524,125`	`1,148.5`	`0.00041459`	2	1.5513	25,785.2
S_Khomani_San-1B + S_Naxi-3B	Discordant	SGDP	`109,520,160` – `109,522,998`	`2,838.0`	`0.00100100`	2	2.3622	16,933.1
S_Khomani_San-1B + S_Mandenka-1B	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Biaka-2B	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Surui-1A	Discordant	SGDP	`109,520,160` – `109,522,998`	`2,838.0`	`0.00100100`	2	2.3622	16,933.1
S_Khomani_San-1B + S_Naxi-1B	Discordant	SGDP	`109,521,900` – `109,522,998`	`1,098.0`	`0.00039087`	2	1.5270	26,194.5
S_Khomani_San-2A + S_Mbuti-3A	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Japanese-1A	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Saharawi-1A	Discordant	SGDP	`109,520,160` – `109,522,998`	`2,838.0`	`0.00100100`	2	2.3622	16,933.1
S_Khomani_San-1B + S_Mbuti-2A	Discordant	SGDP	`109,522,977` – `109,534,671`	`11,694.5`	`0.00496550`	4	6.6134	12,096.7
S_Khomani_San-1B + S_Estonian-1B	Discordant	SGDP	`109,520,160` – `109,522,998`	`2,838.0`	`0.00100100`	2	2.3622	16,933.1
S_Khomani_San-1B + S_Japanese-3B	Discordant	SGDP	`109,520,160` – `109,522,998`	`2,838.0`	`0.00100100`	2	2.3622	16,933.1
S_Khomani_San-1B + S_Finnish-3A	Discordant	SGDP	`109,520,160` – `109,522,998`	`2,838.0`	`0.00100100`	2	2.3622	16,933.1
S_Khomani_San-1B + B_Australian-4A	Discordant	SGDP	`109,520,160` – `109,522,998`	`2,838.0`	`0.00100100`	2	2.3622	16,933.1
S_Khomani_San-1B + S_Hungarian-2A	Discordant	SGDP	`109,521,900` – `109,522,998`	`1,098.0`	`0.00039087`	2	1.5270	26,194.5
S_Khomani_San-1B + S_Gambian-1A	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Icelandic-1B	Discordant	SGDP	`109,520,160` – `109,522,998`	`2,838.0`	`0.00100100`	2	2.3622	16,933.1
S_Khomani_San-1B + S_Gambian-2B	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Masai-1A	Discordant	SGDP	`109,522,977` – `109,524,125`	`1,148.5`	`0.00041459`	2	1.5513	25,785.2
S_Khomani_San-1B + S_Mansi-2A	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Palestinian-3A	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Bengali-2B	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Bergamo-2A	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Relli-1A	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Tuscan-2A	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Yadava-2B	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Jordanian-2A	Discordant	SGDP	`109,520,160` – `109,522,998`	`2,838.0`	`0.00100100`	2	2.3622	16,933.1
S_Khomani_San-1B + S_Mala-2A	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Orcadian-1B	Discordant	SGDP	`109,520,160` – `109,522,998`	`2,838.0`	`0.00100100`	2	2.3622	16,933.1
S_Khomani_San-1B + S_Mala-3A	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Abkhasian-2B	Discordant	SGDP	`109,520,160` – `109,522,998`	`2,838.0`	`0.00100100`	2	2.3622	16,933.1
S_Khomani_San-1B + S_Somali-1B	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Ju_hoan_North-2B	Discordant	SGDP	`108,954,234` – `109,522,998`	`568,764.0`	`0.17244605`	130	274.0067	9,488.8
S_Khomani_San-1B + S_Madiga-1A	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Tajik-1B	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Brahmin-2B	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Ju_hoan_North-1A	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Madiga-2B	Discordant	SGDP	`109,520,160` – `109,522,998`	`2,838.0`	`0.00100100`	2	2.3622	16,933.1
S_Khomani_San-1B + B_Crete-1B	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Kusunda-1A	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + B_Papuan-15A	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Brahui-2A	Discordant	SGDP	`109,520,160` – `109,522,998`	`2,838.0`	`0.00100100`	2	2.3622	16,933.1
S_Khomani_San-1B + S_Esan-1B	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Luhya-2B	Discordant	SGDP	`109,451,350` – `109,522,998`	`71,648.0`	`0.01263291`	41	35.3910	23,169.7
S_Khomani_San-1B + S_Esan-2A	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Brahui-1B	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Mandenka-2B	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Luo-2A	Discordant	SGDP	`109,522,977` – `109,524,125`	`1,148.5`	`0.00041459`	2	1.5513	25,785.2
S_Khomani_San-1B + S_Dinka-1B	Discordant	SGDP	`108,954,234` – `109,522,998`	`568,764.0`	`0.17244605`	167	274.0067	12,189.5
S_Khomani_San-1B + S_Hazara-1B	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Surui-2B	Discordant	SGDP	`109,520,160` – `109,522,998`	`2,838.0`	`0.00100100`	2	2.3622	16,933.1
S_Khomani_San-1B + S_Punjabi-4A	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Piapoco-2A	Discordant	SGDP	`109,522,977` – `109,522,998`	`21.5`	`0.00000769`	2	1.0103	39,591.4
S_Khomani_San-1B + S_Punjabi-1A	Discordant	SGDP	`109,328,376` – `109,522,998`	`194,622.5`	`0.02968687`	62	94.4188	13,133.0

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Data shown in this table can be downloaded from this page.

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.
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).