Table 2.
Candidate Sites under Positive Selection with ω > 1
| Gene | Encoded genome | -lnL | -lnL | ω | Selected Sitesa | |
|---|---|---|---|---|---|---|
| Model 2a | Model 2b | |||||
| rpl32 | Plastid | 1520.600 | 1532.556 | 3.272 | 18I (0.931) | 47V (1.00) |
| 25W (0.919) | 49K (1.00) | |||||
| 46F (0.997) | ||||||
| rps2 | Plastid | 4319.073 | 4339.983 | 2.193 | 5Y (0.973) | 80A (0.974) |
| 9D (0.946 | 112E (0.967) | |||||
| 13M (0.959) | 114R (0.951) | |||||
| 14 M (0.995) | 116H (0.983) | |||||
| 17G (0.974) | 117K (0.924) | |||||
| 20F (0.998) | 118F (0.965) | |||||
| 23G (1.00) | 123T (0.986) | |||||
| 37A (0.979) | 124E (1.00) | |||||
| 39G (1.00) | 127G (0.983) | |||||
| 41G (0.944) | 141S (0.99) | |||||
| 42I (1.00) | 148G (0.972) | |||||
| 45I (0.908) | 154T (0.985) | |||||
| 52R (0.986) | 166Q (0.951) | |||||
| 53F (0.993)* | 167E (1.00) | |||||
| 67R (0.919) | 168E (0.996) | |||||
| 70Q (1.00) | 169Y (0.994)* | |||||
| 79K (0.996) | 222E (0.978) | |||||
| rps4 | Plastid | 3789.815 | 3814.208 | 4.749 | 13R (1.00) | 30S (0.999) |
| 15R (1.00) | 149E (0.94) | |||||
| 28S (0.988) | 172C (0.951) | |||||
| 29R (0.999) * | ||||||
| rps7 | Plastid | 2368.431 | 2397.530 | 5.945 | 14S (1.00)* | 112P (0.995) |
| 68G (0.962) | 125V (0.999) | |||||
| 81G (1.00)* | 128A (0.999) | |||||
| 85H (0.914)* | 133D (0.902) | |||||
| 93S (0.955) | ||||||
| rps18 | Plastid | 3025.523 | 3048.144 | 4.296 | 5L (1.00) | 14P (0.992) |
| 6T (1.00) | 74Q (0.962) | |||||
| 8S (0.972) | 82S (0.949) | |||||
a
Posterior probabilities of ω > 1 are shown in the parentheses. Sequence positions and amino acid residues are based on the spinach plastid ribosome structure (PDB ids: 3BBN and 3BBO). Residues lying within 10Å of a residue in another ribosomal protein are indicated with an asterisk.