Table 1.
Comparisons of sequence identity, and synonymous and nonsynonymous substitutions
| Species | Nt (%) | AA (%) | Ks | Ka |
|---|---|---|---|---|
| TART Gag | ||||
| mel/vir | 26 (37) | 13 (18) | 1.79 ± 0.36 | 1.09 ± 0.2 |
| TART Pol | ||||
| mel/vir | 45 (52) | 36 (45) | 1.8 ± 0.64 | 0.57 ± 0.17 |
| mel/ame | 44 (50) | 34 (38) | 1.65 ± 0.37 | 0.61 ± 0.03 |
| vir/ame | 57 | 54 | 1.5 ± 0.19 | 0.37 ± 0.02 |
| R1 Pol | ||||
| mel/hyd | 60 | 59 | 1.3 ± 0.16 | 0.32 ± 0.03 |
| Adh | ||||
| mel/vir | 75 | 79 | 1.04 ± 0.25 | 0.12 ± 0.03 |
Nt, % nucleotide identity; AA, % amino acid identity. Values in parentheses are calculated omitting residues in gapped regions. Ks, synonymous substitutions; Ka, replacement substitutions (±SE). Species are indicated by their first three letters. All pairwise sequence alignments were performed with clustalw (11), refined in gendoc (12), and analyzed with mega 2.1; genetic distance is based on Kumar et al. (13). Separation of D. melanogaster and Drosophila hydei is approximately equal to the separation of D. melanogaster and D. virilis. R1mel, X51968; R1hyd, U23196; Adhmel, X98338; Adhvir, AB033640.1. When TARTmel Pol is compared to longer Pol proteins, the extra domain of TARTvir and TARTame is not included in the calculations.