Table 1.
Summary Statistics for Ancestral Reconstructions in this Study.
| Ancestor | Ln Posterior Probability (PP) | Ln PP Units Worse Than ML | Average PP | # Expected Errors | # Sites Different From ML Ancestor |
|---|---|---|---|---|---|
| Anc-gkdup | |||||
| ML | −14.6 | – | 0.94 | 12 | 0/187 |
| AltALL | −27.8 | 13.2 | 0.91 | 18 | 20/187 |
| Bayes 1 | −25.4 | 10.8 | 0.92 | 15 | 7/187 |
| Bayes 2 | −28.1 | 13.5 | 0.92 | 15 | 5/187 |
| Bayes 3 | −29.9 | 15.3 | 0.91 | 17 | 11/187 |
| Bayes 4 | −34.9 | 20.4 | 0.91 | 17 | 13/187 |
| Bayes 5 | −36.7 | 22.1 | 0.91 | 17 | 10/187 |
| AncSR1 DBD | |||||
| ML | −15.6 | – | 0.87 | 11 | 0/82 |
| AltALL | −20.1 | 4.5 | 0.85 | 12 | 12/82 |
| Bayes 1 | −23.0 | 7.4 | 0.85 | 12 | 7/82 |
| Bayes 2 | −29.4 | 13.8 | 0.82 | 15 | 12/82 |
| Bayes 3 | −30.0 | 14.4 | 0.84 | 13 | 9/82 |
| Bayes 4 | −39.5 | 23.9 | 0.82 | 15 | 10/82 |
| Bayes 5 | −40.0 | 24.4 | 0.82 | 16 | 12/82 |
| AncSR1 LBD | |||||
| ML | −123.0 | – | 0.69 | 76 | 0/249 |
| AltALL | −153.6 | 30.6 | 0.64 | 88 | 65/249 |
| Best 1 | −176.6 | 53.6 | 0.64 | 89 | 57/249 |
| Best 2 | −177.3 | 54.3 | 0.65 | 88 | 55/249 |
| Best 3 | −177.5 | 54.5 | 0.64 | 90 | 57/249 |
| Best 4 | −177.8 | 54.8 | 0.65 | 87 | 55/249 |
| Best 5 | −177.5 | 54.5 | 0.65 | 87 | 59/249 |
| Bayes 1 | −228.9 | 105.9 | 0.60 | 99 | 75/249 |
| Bayes 2 | −233.2 | 110.2 | 0.61 | 97 | 77/249 |
| Bayes 3 | −229.5 | 106.5 | 0.61 | 96 | 76/249 |
| Bayes 4 | −236.3 | 113.3 | 0.59 | 101 | 86/249 |
| Bayes 5 | −227.1 | 104.1 | 0.61 | 96 | 76/249 |
| AncSR2 LBD | |||||
| ML | −23.0 | – | 0.93 | 17 | 0/249 |
| AltALL | −41.7 | 18.7 | 0.90 | 25 | 26/249 |
Note.—For each ancestral protein sequence, columns show the natural logarithm of the posterior probability (Ln PP), the difference in Ln PP compared to the maximum likelihood (ML) reconstruction, the mean PP over sites, the number of expected errors in the sequence given its PP, the number of sites that are different from the ML reconstruction, and the total number of residues in the protein.