Table 3.
PRDM9 Results Summary.
| Recombination Data | Proportion of Regions with a PBS |
Binomial Test P Value | Total Motif Count |
Binomial Test P Value | Hotspot Source | |||
|---|---|---|---|---|---|---|---|---|
| Submotif | Hotspots | Cold Spots | Hotspots | Cold Spots | ||||
| HapMap CEU | 0.50 | 0.45 | 2.70E-16 | 41,984 | 39,168 | 4.95E-23 | HapMap | |
| Allele A | 0.38 | 0.33 | 2.23E-23 | 27,808 | 25,390 | 1.06E-25 | ||
| Allele C | 0.29 | 0.27 | 1.29E-06 | 14,176 | 13,778 | 0.02 | ||
| HapMap YRI | 0.49 | 0.44 | 7.71E-22 | 40,732 | 37,687 | 1.58E-27 | HapMap | |
| Allele A | 0.38 | 0.32 | 9.04E-29 | 26,901 | 24,346 | 1.57E-29 | ||
| Allele C | 0.28 | 0.26 | 7.77E-07 | 13,831 | 13,341 | 3.01E-03 | ||
| Western chimpanzee | 0.64 | 0.60 | 0.02 | 5,776 | 5,480 | 0.01 | PanMap | |
| Western | 0.28 | 0.27 | 0.26 | 1,615 | 1,502 | 0.04 | ||
| A1 | 0.21 | 0.19 | 0.04 | 1,143 | 1,042 | 0.03 | ||
| E1 | 0.26 | 0.26 | 0.93 | 1,427 | 1,499 | 0.19 | ||
| Pt1 | 0.28 | 0.25 | 8.04E-04 | 1,591 | 1,437 | 0.01 | ||
| Western chimpanzee | 0.60 | 0.59 | 0.62 | 12,599 | 12,410 | 0.23 | This study | |
| Western | 0.27 | 0.28 | 0.26 | 3,393 | 3,534 | 0.09 | ||
| A1 | 0.21 | 0.21 | 0.92 | 2,490 | 2,496 | 0.94 | ||
| E1 | 0.25 | 0.26 | 0.13 | 3,163 | 3,241 | 0.34 | ||
| Pt1 | 0.28 | 0.25 | 1.61E-03 | 3,553 | 3,139 | 4.41E-07 | ||
| Nigerian chimpanzee | 0.63 | 0.58 | 2.55E-04 | 9,316 | 8,520 | 2.62E-09 | This study | |
| Western | 0.29 | 0.26 | 3.85E-05 | 2,654 | 2,356 | 2.70E-05 | ||
| A1 | 0.21 | 0.20 | 0.29 | 1,807 | 1,745 | 0.31 | ||
| E1 | 0.27 | 0.25 | 0.01 | 2,413 | 2,214 | 3.60E-03 | ||
| Pt1 | 0.27 | 0.25 | 0.01 | 2,442 | 2,205 | 5.35E-04 | ||
| Bonobo | 0.61 | 0.59 | 0.05 | 14,081 | 13,369 | 1.77E-05 | This study | |
| Western | 0.29 | 0.28 | 0.08 | 3,968 | 3,859 | 0.22 | ||
| A1 | 0.23 | 0.21 | 0.01 | 2,928 | 2,739 | 0.01 | ||
| E1 | 0.27 | 0.25 | 0.04 | 3,556 | 3,357 | 0.02 | ||
| Pt1 | 0.27 | 0.26 | 0.04 | 3,629 | 3,414 | 0.01 | ||
| Gorilla | 0.32 | 0.30 | 1.39E-05 | 10,384 | 9,421 | 8.08E-12 | This study | |
| Gg1-1 | 0.23 | 0.21 | 1.94E-03 | 6,429 | 6,080 | 1.86E-03 | ||
| Gg1-2 | 0.15 | 0.13 | 2.49E-06 | 3,955 | 3,341 | 6.93E-13 | ||
Note.—Comparison between identified hotspots and matched cold spot regions based on proximity, size, and GC-content. For each set of hotspots, the proportion of hotspots versus cold spots that contain a predicted binding sequence (PBS) based on species-specific PWM of the PRDM9 sequence. This is contrasted on the right with the total predicted binding motifs present in the combined sets of hotspots versus cold spots. Results for each relevant submotif and the combined results are presented for each genetic map with the source of the hotspots listed.