Table 2 AICc scores for each of the phylogenetic matrix partitioning strategies
Matrix | Number of characters | Partitioning strategy | Number of partitions | Log-likelihood | AICc | ΔAICc |
|---|---|---|---|---|---|---|
ntAll | 58,347 | OnePart | 1 | −3135739.544116 | 6272952.811161 | 114533.884536 |
CodonPart | 3 | −3099273.099639 | 6200056.468462 | 41637.541838 | ||
GenePart | 78 | −3120195.077316 | 6243312.241766 | 84893.315142 | ||
CodonGenePart | 234 | −3076219.426792 | 6158418.926624 | 0 | ||
RY | 58,347 | OnePart | 1 | −1239354.453402 | 2480173.246480 | 21572.787069 |
CodonPart | 3 | −1235533.368070 | 2472537.854401 | 13937.394990 | ||
GenePart | 78 | −1234706.178899 | 2471197.311314 | 12596.851903 | ||
CodonGenePart | 234 | −1228081.159986 | 2458600.459411 | 0 | ||
ntNo3rd | 38,898 | OnePart | 1 | −1387913.034830 | 2777313.721117 | 30326.016847 |
CodonPart | 2 | −1385570.086154 | 2772645.570816 | 25657.866546 | ||
GenePart | 78 | −1376158.263023 | 2755293.787916 | 8306.083646 | ||
CodonGenePart | 156 | −1371218.716450 | 2746987.704270 | 0 | ||
AA | 19,449 | OnePart | 1 | −1418038.152084 | 2837614.101717 | 8353.616354 |
GenePart | 78 | −1413039.660496 | 2829260.485363 | 0 |