Extended Data Table 2.
Estimated proportion of Neanderthal ancestry
| f4-ratios | Archaic Ancestry Informative SNPs | ||||||||
|---|---|---|---|---|---|---|---|---|---|
| Sample Code | Age BP | SNPs | Est. | 95% CI | SNPs | Est. | 95% CI | Increase in Neanderthal ancestry with B | S.E. |
| UstIshim | 45,020 | 2,137,615 | 4.4% | 3.6% – 5.3% | 778,774 | 3.0% | 2.3% – 3.7% | −0.9% | 1.3% |
| Oase1 | 39,610 | 285,076 | 9.9% | 8.4% – 11.4% | 59,854 | 7.5% | 6.0% – 8.9% | 2.5% | 1.8% |
| Kostenki14 | 37,470 | 1,774,156 | 3.6% | 2.7% – 4.4% | 632,748 | 2.8% | 2.3% – 3.3% | −1.0% | 1.0% |
| GoyetQ116-1 | 34,795 | 846,983 | 3.4% | 2.4% – 4.3% | |||||
| Muierii2 | 33,300 | 98,618 | 5.2% | 3.0% – 7.4% | 22,189 | 3.0% | 2.5% – 3.5% | 0.6% | 1.1% |
| Paglicci133 | 32,895 | 82,330 | 4.1% | 2.1% – 6.0% | |||||
| Cioclovina1 | 32,435 | 12,784 | 4.1% | −1.1% – 9.3% | |||||
| Kostenki12 | 32,415 | 61,228 | 1.9% | −0.7% – 4.4% | 13,385 | 2.6% | 2.1% – 3.2% | 1.7% | 1.5% |
| KremsWA3 | 30,970 | 203,986 | 3.9% | 2.6% – 5.2% | - | ||||
| Vestonice13 | 30,870 | 139,568 | 4.6% | 2.6% – 6.5% | 35,983 | 3.3% | 2.7% – 3.8% | 0.3% | 1.3% |
| Vestonice15 | 30,870 | 30,900 | 4.3% | 0.6% – 7.9% | 5,855 | 2.7% | 2.1% – 3.4% | −1.5% | 1.3% |
| Vestonice14 | 30,870 | 5,677 | 2.6% | −5.9% – 11.0% | |||||
| Pavlov1 | 30,260 | 57,005 | 4.4% | 1.6% – 7.1% | 9,327 | 3.1% | 2.5% – 3.8% | 0.7% | 1.2% |
| Vestonice43 | 30,010 | 163,946 | 6.9% | 5.2% – 8.5% | 38,749 | 2.9% | 2.4% – 3.3% | 0.9% | 0.9% |
| Vestonice16 | 30,010 | 945,292 | 4.1% | 3.1% – 5.1% | 268,157 | 2.8% | 2.3% – 3.3% | −0.1% | 1.0% |
| Ostuni2 | 28,975 | 17,017 | 1.6% | −3.2% – 6.3% | 2,746 | 2.3% | 1.4% – 3.1% | 1.3% | 1.6% |
| GoyetQ53-1 | 27,975 | 12,567 | 4.8% | −0.7% – 10.3% | |||||
| Paglicci108 | 27,750 | 4,330 | 3.4% | −6.0% – 12.7% | |||||
| Ostuni1 | 27,620 | 369,313 | 4.2% | 3.0% – 5.4% | 88,449 | 2.6% | 2.2% – 3.0% | 0.1% | 0.9% |
| GoyetQ376-19 | 27,515 | 25,400 | 6.5% | 2.7% – 10.2% | |||||
| GoyetQ56-16 | 26,320 | 9,988 | 3.6% | −1.9% – 9.1% | |||||
| Malta1 | 24,305 | 1,439,501 | 2.9% | 1.9% – 3.8% | 437,187 | 2.5% | 2.1% – 2.9% | 1.0% | 0.8% |
| ElMiron | 18,720 | 797,714 | 3.6% | 2.6% – 4.5% | 250,071 | 2.8% | 2.5% – 3.2% | 0.6% | 0.9% |
| AfontovaGora3 | 16,710 | 286,355 | 3.0% | 1.8% – 4.2% | 96,237 | 3.3% | 2.9% – 3.7% | −1.5% | 1.0% |
| AfontovaGora2 | 16,710 | 143,751 | 2.2% | 0.4% – 4.0% | 37,280 | 2.3% | 1.9% – 2.7% | −0.3% | 0.9% |
| Rigney1 | 15,465 | 35,600 | 0.8% | −2.6% – 4.2% | |||||
| HohleFels49 | 15,130 | 63,151 | 2.3% | −0.6% – 5.2% | |||||
| GoyetQ-2 | 15,005 | 72,263 | 1.7% | −0.6% – 4.0% | |||||
| Brillenhohle | 14780 | 13,459 | 2.5% | −3.0% – 8.1% | |||||
| HohleFels79 | 14,670 | 11,211 | 1.7% | −5.1% – 8.5% | |||||
| Burkhardtshohle | 14,615 | 38,376 | 1.7% | −1.6% – 5.0% | |||||
| Villabruna | 13,980 | 1,215,433 | 2.7% | 1.8% – 3.5% | 425,148 | 3.3% | 3.0% – 3.7% | 1.1% | 0.9% |
| Bichon | 13,665 | 2,116,782 | 2.9% | 1.9% – 3.8% | 769,422 | 2.7% | 2.2% – 3.2% | 0.7% | 1.3% |
| Satsurblia | 13,255 | 1,460,368 | 1.5% | 0.6% – 2.4% | 542,561 | 2.0% | 1.7% – 2.4% | 0.9% | 0.6% |
| Rochedane | 12,960 | 237,390 | 1.9% | 0.5% – 3.3% | |||||
| Iboussieres39 | 11,725 | 9,659 | 6.4% | −0.8% – 13.7% | |||||
| Continenza | 10,855 | 11,717 | 4.1% | −1.4% – 9.6% | 1,733 | 2.9% | 1.8% – 4.0% | −10.6% | 4.4% |
| Ranchot88 | 10,085 | 414,863 | 2.9% | 1.8% – 4.0% | |||||
| LesCloseaux13 | 9,900 | 8,635 | −3.0% | −9.7% – 3.8% | |||||
| Kotias | 9,720 | 2,133,968 | 1.8% | 1.0% – 2.7% | 779,146 | 2.1% | 1.8% – 2.4% | 0.7% | 0.5% |
| Falkenstein | 9,200 | 64,428 | 4.8% | 1.7% – 7.8% | |||||
| Karelia | 8,375 | 1,754,410 | 1.9% | 1.1% – 2.7% | 582,444 | 2.2% | 1.9% – 2.6% | −0.2% | 0.7% |
| Bockstein | 8,265 | 21,977 | 5.7% | 1.0% – 10.5% | |||||
| Ofnet | 8,245 | 6,263 | 9.8% | 1.4% – 18.1% | |||||
| Chaudardes1 | 8,205 | 92,657 | 1.9% | −0.2% – 3.9% | |||||
| Loschbour | 8,050 | 2,091,584 | 2.5% | 1.6% – 3.3% | 774,139 | 2.6% | 2.0% – 3.1% | 2.7% | 1.7% |
| LaBrana1 | 7,815 | 1,884,745 | 1.9% | 1.1% – 2.8% | 642,231 | 2.7% | 2.3% – 3.2% | 0.4% | 0.8% |
| Hungarian.KO1 | 7,660 | 1,410,303 | 2.1% | 1.2% – 3.0% | 439,408 | 2.4% | 2.0% – 2.8% | −0.1% | 1.2% |
| Motala12 | 7,625 | 1,874,519 | 2.5% | 1.6% – 3.3% | 655,685 | 2.3% | 1.9% – 2.7% | −0.1% | 0.7% |
| BerryAuBac | 7,245 | 54,690 | 2.5% | −0.2% – 5.1% | |||||
| Stuttgart | 7,140 | 2,078,724 | 1.9% | 1.1% – 2.7% | 767,813 | 2.1% | 1.8% – 2.5% | 0.0% | 0.7% |
| Dai | 0 | 2,144,502 | 1.4% | 0.7% – 2.1% | 782,066 | 1.8% | 1.5% – 2.1% | 1.4% | 0.4% |
| Han | 0 | 2,144,502 | 1.8% | 1.1% – 2.5% | 782,164 | 2.1% | 1.8% – 2.5% | 1.9% | 0.7% |
| English | 0 | 2,144,502 | 1.5% | 0.8% – 2.2% | |||||
| French | 0 | 2,144,502 | 1.5% | 0.9% – 2.1% | 782,386 | 1.7% | 1.4% – 1.9% | 1.4% | 0.6% |
| Sardinian | 0 | 2,144,502 | 1.2% | 0.6% – 1.9% | 782,351 | 1.7% | 1.4% – 2.0% | 0.7% | 0.5% |
| Karitiana | 0 | 782,037 | 2.1% | 1.7% – 2.4% | 1.5% | 1.0% | |||