Table 2.
Statistical support for alternative hypotheses on amniote phylogenetic relationships
| Hypothesis | Templeton test, Δ ± SE
|
Kishino-Hasegawa test, Δ ± SE
|
||||
|---|---|---|---|---|---|---|
| Protein-coding | rRNA | tRNA | Protein-coding | rRNA | tRNA | |
| out, (mammals, (turtle, (alligator, chicken))) | 5,919 | 3,234 | 3,299 | −4.53 ± 19 | −15,943.7 | −14,859.6 |
| out, (mammals, (chicken, (turtle, alligator))) | 2 ± 9.8 | 20 ± 8.5 | 3 ± 9.2 | −40102.1 | −15.9 ± 9.4 | −6.5 ± 9.4 |
| out, ((mammals, chicken), (turtle, alligator)) | 25 ± 13.2 | 39 ± 11.5 | 11 ± 11.3 | −75.3 ± 20.3 | −50.1 ± 17.4 | −24.4 ± 12.7 |
| out, (turtle, (mammals, (alligator, chicken))) | 23 ± 9 | 20 ± 8.1 | 7 ± 7 | −77.8 ± 28.3 | −26.2 ± 13 | −10.2 ± 6.6 |
| out, ((tuatara, iguana), (turtles, (alligator, chicken))) | 4,080 | −19,435.4 | ||||
| out, (turtles, ((tuatara, iguana), (alligator, chicken))) | 2 ± 5.8 | −5.7 ± 8.9 | ||||
| out, ((turtles, (tuatara, iguana)), (alligator, chicken)) | 7 ± 5.4 | −7.9 ± 8.5 | ||||
The differences in number of steps (Δ) from that of the MP tree are shown ± their SE, which were estimated by the Wilcoxon signed-rank test32. The differences in log likelihood of alternative trees (Δ) from that of the ML tree are shown ± their SE, which were estimated by the formula of Kishino and Hasegawa31. Two phylogenies were declared significantly different when the difference in log likelihoods or number of steps was more than 1.96 times the SE.