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. Author manuscript; available in PMC: 2016 Nov 2.
Published in final edited form as: Nature. 2016 May 2;534(7606):200–205. doi: 10.1038/nature17993

Extended Data Table 4.

Sex determination for newly reported samples.Y-rate is the ratio of NY/Nauto divided by the same quantity for the genome-wide target set. Female sex (F) is inferred as Y-rate<0.05 and male sex (M) as Y-rate>0.

Sample Target Type Nauto NX NY NX/Nauto NY/Nauto X-rate Y-rate Sex
1240k or 2.2M* 1151240 49711 32681 0.0432 0.0284
390k 388745 1819 2242 0.0047 0.0058
Kostenki14 2.2M all 29633405 395534 262846 0.0133 0.0089 0.309 0.312 M
GoyetQ116-1 1240k all 2122620 36391 22256 0.0171 0.0105 0.397 0.369 M
Cioclovina1 1240k Damage 11521 184 125 0.0160 0.0108 0.370 0.382 M
Kostenki12 2.2M Subset 63908 856 504 0.0134 0.0079 0.310 0.278 M
Muierii2 2.2M Damage 81165 2177 8 0.0268 0.0001 0.621 0.003 F
Vestonice13 2.2M Damage 119094 1578 1059 0.0133 0.0089 0.307 0.313 M
Vestonice15 2.2M Damage 28762 338 227 0.0118 0.0079 0.272 0.278 M
Vestonice14 390k Damage 4846 8 11 0.0017 0.0023 0.353 0.394 M
Vestonice43 2.2M Damage 136933 1826 1204 0.0133 0.0088 0.309 0.310 M
Pavlov1 2.2M Damage 54429 631 404 0.0116 0.0074 0.268 0.261 M
Vestonice16 2.2M Subset 2433741 30463 20976 0.0125 0.0086 0.290 0.304 M
KremsWA3 1240k all 235069 4119 2661 0.0175 0.0113 0.406 0.399 M
Ostuni2 2.2M Damage 15749 138 1 0.0088 0.0001 0.203 0.002 F
Ostuni1 2.2M Damage 427199 10868 47 0.0254 0.0001 0.589 0.004 F
Paglicci108 1240k Damage 3883 124 2 0.0319 0.0005 0.740 0.018 F
GoyetQ53-1 1240k Damage 10771 311 4 0.0289 0.0004 0.669 0.013 F
GoyetQ376-19 1240k Damage 20052 680 10 0.0339 0.0005 0.785 0.018 F
GoyetQ56-16 1240k Damage 8702 304 7 0.0349 0.0008 0.809 0.028 F
Paglicci133 1240k Subset 81092 1641 983 0.0202 0.0121 0.469 0.427 M
ElMiron 2.2M Damage 1765696 40647 196 0.0230 0.0001 0.533 0.004 F
HohleFels79 390k Damage 10188 28 22 0.0027 0.0022 0.587 0.374 M
AfontovaGora3 2.2M Damage 291798 8705 37 0.0298 0.0001 0.691 0.004 F
HohleFels49 390k Damage 61051 113 111 0.0019 0.0018 0.396 0.315 M
Rigney1 1240k Damage 32797 1131 9 0.0345 0.0003 0.799 0.010 F
GoyetQ-2 1240k Damage 65563 1123 706 0.0171 0.0108 0.397 0.379 M
Brillenhohle 390k Damage 12603 22 22 0.0017 0.0017 0.373 0.303 M
Burkhardtshohle 1240k Damage 34207 563 407 0.0165 0.0119 0.381 0.419 M
Villabruna 2.2M Subset 5505838 72055 52110 0.0131 0.0095 0.303 0.333 M
Rochedane 1240k Subset 256325 4780 2830 0.0186 0.0110 0.432 0.389 M
Continenza 2.2M Damage 10647 208 2 0.0195 0.0002 0.452 0.007 F
Iboussieres39 390k Damage 8246 12 22 0.0015 0.0027 0.311 0.463 M
Ranchot88 1240k Damage 594962 18520 119 0.0311 0.0002 0.721 0.007 F
LesCloseaux13 1240k Damage 7326 275 2 0.0375 0.0003 0.869 0.010 F
Falkenstein 390k Damage 58970 113 102 0.0019 0.0017 0.410 0.300 M
Bockstein 390k Damage 20214 62 0 0.0031 0.0000 0.655 0.000 F
Ofnet 390k Damage 5294 13 1 0.0025 0.0002 0.525 0.033 F
Chaudardes1 1240k Damage 84052 1429 865 0.0170 0.0103 0.394 0.363 M
BerryAuBac 1240k All 49670 902 554 0.0182 0.0112 0.421 0.393 M
*

We restrict analysis to the 1240k target set for study of the 2.2M capture datasets.