Table 3 Erroneous segments in which reconstructed MSA is “far-apart” from true MSA
w/ many block-wise steps a | w/ many site-wise steps b | long blocks c | ||||
|---|---|---|---|---|---|---|
Score category | MAFFT (E-INS-i) | Prank (Best-fit) | MAFFT (E-INS-i) | Prank (Best-fit) | MAFFT (E-INS-i) | Prank (Best-fit) |
12 primates | ||||||
I | 0.6% | 1.7% | 1.4% | 1.8% | 0.6% | 0.9% |
D | 2.0% | 6.8% | 4.1% | 8.6% | 1.7% | 3.1% |
S | 0.1% | 0.1% | 0.1% | 0.2% | 0.1% | 0.1% |
Overall | 0.5% | 0.4% | 1.1% | 0.6% | 0.6% | 0.4% |
15 mammals | ||||||
I | 18.8% | 27.2% | 16.8% | 22.5% | 3.0% | 5.7% |
D | 36.1% | 54.1% | 33.6% | 49.3% | 5.8% | 8.0% |
S | 4.4% | 7.7% | 3.2% | 5.3% | 1.0% | 1.6% |
Overall | 22.3% | 17.6% | 20.3% | 14.3% | 4.7% | 4.6% |
9 fast-evolving mammals | ||||||
I | 40.1% | 51.5% | 36.9% | 47.7% | 4.1% | 7.1% |
D | 68.9% | 83.4% | 66.5% | 80.9% | 7.1% | 7.8% |
S | 16.6% | 24.1% | 13.9% | 19.6% | 2.7% | 2.9% |
Overall | 50.7% | 43.9% | 48.2% | 40.0% | 6.5% | 6.7% |