Table 3.
Average SPS and CS scores (in %) on HOMSTRAD
| TCoffee |
MUSCLE |
ProbCons |
MUMMALS |
|||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| SPS | ||||||||||||
| 0–20% {156} | 46.68 | 47.21 | 0.005 | 48.08 | 50.18 | 4 × 10−4 | 49.67 | 50.67 | 6 × 10−8 | 54.39 | 54.44 | – |
| 20–40% {459} | 79.19 | 79.71 | 4 × 10−13 | 78.86 | 80.11 | 1 × 10−10 | 80.55 | 81.44 | 3 × 10−22 | 82.67 | 82.71 | 4 × 10−4 |
| 40–70% {348} | 94.48 | 94.80 | 2 × 10−11 | 94.45 | 94.77 | 1 × 10−4 | 94.75 | 95.19 | 7 × 10−12 | 95.04 | 95.14 | 9 × 10−4 |
| 70–100% {69} | 99.10 | 99.16 | – | 99.02 | 99.07 | – | 99.10 | 99.08 | – | 98.94 | 99.14 | 0.005 |
| All {1032} | 80.76 | 81.19 | 2 × 10−22 | 80.82 | 81.80 | 6 × 10−16 | 81.91 | 82.60 | 6 × 10−38 | 83.65 | 83.72 | 5 × 10−8 |
| CS | ||||||||||||
| 0–20% {156} | 39.97 | 40.64 | 2 × 10−4 | 41.77 | 43.70 | 0.003 | 43.12 | 44.15 | 3 × 10−7 | 47.94 | 48.00 | – |
| 20–40% {459} | 72.97 | 73.76 | 9 × 10−17 | 73.01 | 74.61 | 2 × 10−11 | 74.67 | 75.80 | 5 × 10−24 | 77.31 | 77.43 | 0.001 |
| 40–70% {348} | 91.79 | 92.33 | 2 × 10−13 | 91.90 | 92.28 | 8 × 10−5 | 92.20 | 92.84 | 6 × 10−13 | 92.61 | 92.77 | 3 × 10−5 |
| 70–100% {69} | 99.03 | 99.10 | – | 98.98 | 99.03 | – | 99.06 | 99.02 | – | 98.87 | 99.08 | 0.007 |
| All {1032} | 76.07 | 76.71 | 1 × 10−30 | 76.39 | 77.53 | 8 × 10−16 | 77.44 | 78.32 | 6 × 10−40 | 79.47 | 79.60 | 4 × 10−8 |
Each subset includes all protein sequence alignments with average pairwise identity within the specified range. For each algorithm, the higher accuracy value is in bold.