Table 4.
Divergence aggregated by class, linkage, CpG censoring, and differences used. Differences used were classified as: all differences (EQ+/−); CG equilibrating differences only (EQ+); and non CG equilibrating differences only (EQ-). Sites were classified as one of: ERV (PV); selfish DNA (RM+); or non-repetitive or repetitive but non-selfish (RM-)
| Uncensored (CpG+) | Censored (CpG-) | ||||||
|---|---|---|---|---|---|---|---|
| Linkage | Class | EQ+/− | EQ+ | EQ- | EQ+/− | EQ+ | EQ- |
| A | PV | 0.01649 | 0.01430 | 0.00222 | 0.01066 | 0.00885 | 0.00182 |
| A | RM+ | 0.01446 | 0.01230 | 0.00217 | 0.01017 | 0.00831 | 0.00187 |
| A | RM- | 0.01144 | 0.00969 | 0.00177 | 0.00865 | 0.00712 | 0.00154 |
| X | PV | 0.01365 | 0.01182 | 0.00184 | 0.00829 | 0.00694 | 0.00135 |
| X | RM+ | 0.01087 | 0.00929 | 0.00159 | 0.00776 | 0.00639 | 0.00137 |
| X | RM- | 0.01005 | 0.00841 | 0.00166 | 0.00767 | 0.00627 | 0.00140 |