Table 2. Test of Rx approach for individuals with known sex assignments.
| Sample | Nseq | NchrX | NchrY | p-value | Rx | 95% CI | Assignment |
|---|---|---|---|---|---|---|---|
| HG00096 | 129336187 | 3404137 | 338394 | 5.857e-13 | 0.5313 | 0.5029–0.5596 | XY |
| HG00099 | 215786533 | 10712732 | 7026 | 2.200e-16 | 1.0191 | 0.9684–1.0699 | XX |
| HG00100 | 351555180 | 18015697 | 12776 | 2.200e-16 | 1.0590 | 1.0024–1.1156 | XX |
| HG00101 | 185089582 | 4997300 | 499215 | 3.813e-13 | 0.5523 | 0.5174–0.5873 | XY |
| Vi33.16 | 16648258 | 794453 | 2813 | 1.458e-15 | 0.9551 | 0.9092–1.0011 | XX |
| Vi33.25 | 15431136 | 767200 | 2124 | 2.699e-16 | 1.0042 | 0.9541–1.0542 | XX |
| Vi33.26 | 15051507 | 750642 | 2098 | 2.200e-16 | 1.0109 | 0.9587–1.0630 | XX |
| Mezmaiskaya-E733 | 23589975 | 1114078 | 3640 | 1.193e-14 | 0.9334 | 0.8864–0.9803 | XX |
| Ajv52 | 4084279 | 110151 | 9607 | 5.128e-13 | 0.5478 | 0.5131–0.5825 | XY |
| Ajv53 | 861535 | 44341 | 119 | 2.200e-16 | 1.0636 | 1.0025–1.1247 | XX |
| Ajv58 | 95232858 | 2466677 | 208840 | 1.158e-12 | 0.5159 | 0.4897–0.5422 | XY |
| Ajv59 | 214849 | 5690 | 505 | 9.797e-13 | 0.5306 | 0.5030–0.5583 | XY |
| Ajv70 | 7189980 | 181985 | 15666 | 3.529e-12 | 0.4981 | 0.4749–0.5214 | XY |
| Gok2 | 53548001 | 2429279 | 2785 | 1.754e-12 | 0.8972 | 0.8382–0.9562 | XX |
| Gok4 | 1769314 | 46570 | 3938 | 8.424e-13 | 0.5315 | 0.4992–0.5638 | XY |
| Gok5 | 770044 | 34904 | 26 | 6.264e-13 | 0.9016 | 0.8460–0.9572 | XX |
| Gok7 | 562131 | 24580 | 26 | 6.143e-12 | 0.8685 | 0.8092–0.9278 | XX |
| Ire8 | 2274888 | 60465 | 4891 | 7.349e-13 | 0.5441 | 0.5060–0.5823 | XY |
| Denisova_4 | 38626 | 1021 | 80 | 1.491e-12 | 0.5519 | 0.5054–0.5984 | XY |
| Denisova_8 | 828216 | 21641 | 1854 | 1.157e-12 | 0.5286 | 0.4939–0.5633 | XY |
Nseq: number of total alignments; NchrX: number of alignments on X chromosome; NchrY: number of alignments on Y chromosome; p-value: F-statistic p-value in linear regression of the number of reference reads with number of mapped reads.