Table 2.
Information content comparisons in the two SNP marker sets and the COGA STR marker set (Average (min, max))
| Chromosome | Illumina | Affymetrix | COGA STR (all loci) | ||
| all loci | r2 < 0.4 | all loci | r2 < 0.4 | ||
| 1 | 0.91 (0.75,0.95) | 0.91 (0.75,0.96) | 0.91 (0.69,0.95) | 0.91 (0.69,0.95) | 0.64 (0.28,0.90) |
| 2 | 0.91 (0.79,0.95) | 0.91 (0.79,0.95) | 0.92 (0.78,0.96) | 0.92 (0.77,0.96) | 0.70 (0.47,0.90) |
| 3 | 0.91 (0.82,0.95) | 0.91 (0.83,0.95) | 0.92 (0.84,0.97) | 0.92 (0.83,0.97) | 0.59 (0.41,0.86) |
| 4 | 0.89 (0.72,0.96) | 0.89 (0.72,0.95) | 0.91 (0.59,0.96) | 0.91 (0.59,0.96) | 0.62 (0.47,0.78) |
| 5 | 0.90 (0.77,0.95) | 0.90 (0.77,0.95) | 0.92 (0.75,0.96) | 0.92 (0.75,0.96) | 0.63 (0.37,0.85) |
| 6 | 0.90 (0.72,0.96) | 0.90 (0.71,0.95) | 0.92 (0.71,0.96) | 0.92 (0.71,0.96) | 0.60 (0.37,0.84) |
| 7 | 0.91 (0.78,0.95) | 0.91 (0.78,0.95) | 0.91 (0.78,0.96) | 0.91 (0.77,0.95) | 0.78 (0.59,0.92) |
| 8 | 0.90 (0.79,0.95) | 0.89 (0.75,0.95) | 0.91 (0.75,0.95) | 0.91 (0.75,0.95) | 0.67 (0.44,0.87) |
| 9 | 0.89 (0.78,0.95) | 0.89 (0.77,0.95) | 0.91 (0.70,0.96) | 0.91 (0.69,0.96) | 0.62 (0.47,0.85) |
| 10 | 0.89 (0.78,0.95) | 0.89 (0.78,0.95) | 0.91 (0.68,0.95) | 0.91 (0.68,0.95) | 0.48 (0.31,0.76) |
| 11 | 0.89 (0.66,0.95) | 0.89 (0.66,0.95) | 0.92 (0.70,0.96) | 0.92 (0.69,0.96) | 0.51 (0.30,0.74) |
| 12 | 0.90 (0.75,0.95) | 0.89 (0.75,0.95) | 0.90 (0.74,0.96) | 0.90 (0.74,0.96) | 0.65 (0.38,0.90) |
| 13 | 0.90 (0.77,0.95) | 0.89 (0.76,0.95) | 0.91 (0.62,0.96) | 0.91 (0.62,0.96) | 0.62 (0.33,0.86) |
| 14 | 0.90 (0.79,0.95) | 0.89 (0.79,0.95) | 0.86 (0.43,0.95) | 0.86 (0.42,0.95) | 0.62 (0.49,0.79) |
| 15 | 0.89 (0.77,0.95) | 0.89 (0.76,0.95) | 0.90 (0.83,0.95) | 0.90 (0.83,0.95) | 0.67 (0.56,0.85) |
| 16 | 0.90 (0.75,0.95) | 0.89 (0.74,0.95) | 0.87 (0.46,0.95) | 0.86 (0.46,0.95) | 0.57 (0.33,0.82) |
| 17 | 0.89 (0.79,0.94) | 0.88 (0.78,0.94) | 0.85 (0.51,0.94) | 0.85 (0.51,0.94) | 0.56 (0.35,0.77) |
| 18 | 0.88 (0.75,0.95) | 0.88 (0.75,0.95) | 0.91 (0.70,0.95) | 0.91 (0.70,0.95) | 0.51 (0.35,0.69) |
| 19 | 0.88 (0.73,0.95) | 0.86 (0.71,0.94) | 0.81 (0.57,0.94) | 0.81 (0.56,0.94) | 0.56 (0.41,0.76) |
| 20 | 0.89 (0.82,0.94) | 0.89 (0.80,0.94) | 0.89 (0.78,0.95) | 0.89 (0.71,0.95) | 0.60 (0.39,0.82) |
| 21 | 0.91 (0.85,0.94) | 0.90 (0.84,0.94) | 0.92 (0.75,0.95) | 0.91 (0.75,0.95) | 0.59 (0.39,0.83) |
| 22 | 0.89 (0.79,0.95) | 0.88 (0.78,0.95) | 0.84 (0.77,0.94) | 0.84 (0.77,0.94) | 0.55 (0.34,0.76) |
| X | 0.74 (0.33,0.97) | 0.72 (0.20,0.97) | 0.91 (0.84,0.97) | 0.88 (0.78,0.95) | 0.32 (0.24,0.40) |
| Genome | 0.89 (0.33,0.97) | 0.89 (0.20,0.96) | 0.90 (0.43,0.97) | 0.90 (0.42,0.97) | 0.61 (0.24,0.92) |
| No. chr w/avg IC < 0.8 | 1 | 1 | 0 | 0 | 23 |
| No. chr w/min IC < 0.7 | 2 | 2 | 8 | 10 | 23 |