TABLE 3.
Statistical analyses of recombination in the seven subintervals of thea1-sh2 interval
| Subintervals | Haplotypes | Comparisons to the average of a1-sh2a |
Comparisons to the genome's averagea |
Comparisons among stocksa |
Recombination activitiesb |
|---|---|---|---|---|---|
| I | mex | 0.28 | 0.40 | 0.016↓ (mex vs. par) | Average spot |
| par | 6.7e−5↑ | 0.00032↑ | 0.0014↑ (par vs. lux) | Hot spot (local, global) | |
| lux | 0.00014↑ | 0.010↑ | 0.87 (lux vs. mex) | Hot spot (local, global) | |
| II | mex | 1.3e−8↑ | 2.1e−8↑ | 9.9e−8↑ (mex vs. par) | Hot spot (local, global) |
| par | 0.14 | 0.28 | 0.11 (par vs. lux) | Average spot | |
| lux | 0.34 | 0.80 | <2.2e−16↓ (lux vs. mex) | Average spot | |
| III | mex | 0.00033↑ | 0.0019↑ | 9.3e−6↑ (mex vs. par) | Hot spot (local, global) |
| par | 0.99 | 0.25 | 0.0013 (par vs. lux) | Average spot | |
| lux | 0.026↓ | 1.9e−7↓ | <2.2e−16↓ (lux vs. mex) | Cold spot (local, global) | |
| IV | mex | <2.2e−16↑ | <2.2e−16↑ | 0.011↑ (mex vs. par) | Hot spot (local, global) |
| par | 2.9e−14↑ | 5.5e−12↑ | 0.026↑ (par vs. lux) | Hot spot (local, global) | |
| lux | <2.2e−16↑ | <2.2e−16↑ | 1.9e−8↓ (lux vs. mex) | Hot spot (local, global) | |
| V | mex | 1.2e−9↓ | 2.9e−13↓ | 0.67 (mex vs. par) | Cold spot (local, global) |
| par | 0.00028↓ | 4.6e−14↓ | 0.58 (par vs. lux) | Cold spot (local, global) | |
| lux | 1.9e−6↓ | <2.2e−16↓ | 0.89 (lux vs. mex) | Cold spot (local, global) | |
| VI | mex | 0.049↑ | 0.083 | 0.037↑ (mex vs. par) | Hot spot (local) |
| par | 0.99 | 0.85 | 0.55 (par vs. lux) | Average spot | |
| lux | 0.020↑ | 0.50 | 0.044↓ (lux vs. mex) | Hot spot (local) | |
| VII | mex | <2.2e−16↓ | <2.2e−16↓ | 0.083 (mex vs. par) | Cold spot (local, global) |
| par | 1.3e−15↓ | <2.2e−16↓ | 0.94 (par vs. lux) | Cold spot (local, global) | |
| lux | <2.2e−16↓ | <2.2e−16↓ | 0.037↓ (lux vs. mex) | Cold spot (local, global) |
Goodness-of-fit χ2 tests were used in the comparisons of the observed rate of recombination in a given subinterval with the average rate of recombination per megabase in each teosinte A1 Sh2 haplotype (column three) and with the genome's average (2.1 cM/Mb) (column four), and homogeneity χ2 tests were used in the comparisons of rates of recombination per megabase in a given subinterval among the three teosinte A1 Sh2 haplotypes (column five). Details are described in materials and methods. The P-values obtained from these χ2 tests are listed. (↑) and (↓) indicate that an observed rate of recombination is significantly higher and lower (at the 0.05 level), respectively, than the rate of recombination per megabase to which it was compared.
According to its recombination activity, a subinterval is classified as a global or local hot spot, an average spot, or a global or local cold spot. A global hot or cold spot exhibits significantly higher or lower recombination activity than the genome as a whole. A local hot or cold spot exhibits significantly higher or lower recombination activity than the a1-sh2 interval. Recombination activity of an average spot is not significantly different from that of the a1-sh2 interval and the genome. The cutoff level for the P-values is 0.05.