Table 3.
Z-scores for mixed alpha and beta class topologies in test set A: scores obtained for each topology for Blosum62, VT160_RA, and VTML200 matrices are shown in columns 2, 3, and 4
| Z-score | |||||||
|---|---|---|---|---|---|---|---|
| Topology | Blosum62 | VT160_RA | VTML200 | Blosum62 combined | VT160_RA combined | ||
| Max z-score | Max % improvement | Max z-score | Max % improvement | ||||
| 3.10.20 | 2.13 | 2.36 | 2.17 | 2.40 | 2.03 | 2.39 | 1.51 |
| 3.10.100 | 3.01 | 3.67 | 3.21 | 5.52 | 50.48 | 5.57 | 51.77 |
| 3.10.120 | 2.78 | 2.85 | 2.65 | 4.14 | 45.17 | 4.13 | 44.83 |
| 3.10.129 | 1.06 | 1.06 | 1.11 | 1.26 | 13.65 | 1.14 | 3.03 |
| 3.10.130 | 2.26 | 2.62 | 2.31 | 4.58 | 74.78 | 4.55 | 73.84 |
| 3.10.180 | 1.62 | 1.70 | 1.64 | 2.58 | 51.77 | 2.58 | 51.89 |
| 3.30.30 | 2.70 | 3.07 | 2.75 | 3.70 | 20.80 | 3.75 | 22.31 |
| 3.30.70 | 2.38 | 2.73 | 2.41 | 3.71 | 35.56 | 3.70 | 35.54 |
| 3.30.420 | 0.14 | 0.27 | 0.29 | 0.29 | 1.15 | 0.30 | 3.54 |
| 3.30.428 | 2.35 | 2.84 | 2.47 | 3.18 | 11.93 | 3.26 | 14.70 |
| 3.30.465 | 2.03 | 2.11 | 2.02 | 2.77 | 31.30 | 2.77 | 31.20 |
| 3.30.505 | 2.52 | 2.91 | 2.71 | 3.13 | 7.45 | 3.21 | 10.27 |
| 3.30.1050 | 2.87 | 3.16 | 2.74 | 3.47 | 9.85 | 3.34 | 5.55 |
| 3.30.1520 | 2.37 | 2.78 | 2.48 | 2.86 | 2.77 | 2.82 | 1.47 |
| 3.40.20 | 3.42 | 3.81 | 3.46 | 4.55 | 19.33 | 4.55 | 19.21 |
| 3.40.33 | 3.05 | 3.36 | 2.94 | 4.90 | 45.88 | 4.92 | 46.64 |
| 3.40.109 | 0.72 | 0.91 | 0.29 | 1.49 | 64.71 | 1.46 | 60.88 |
| 3.40.140 | 4.38 | 4.79 | 4.48 | 5.13 | 7.03 | 5.19 | 8.38 |
| 3.40.718 | 0.42 | 1.00 | 0.81 | 2.75 | 175.14 | 2.76 | 176.14 |
| 3.40.980 | 2.79 | 3.27 | 2.85 | 3.75 | 14.65 | 3.81 | 16.45 |
| 3.40.1050 | 0.07 | 0.32 | 0.02 | 2.23 | 595.27 | 2.14 | 567.18 |
| 3.60.21 | 0.92 | 0.84 | 0.79 | 1.69 | 83.39 | 1.67 | 80.72 |
| 3.70.10 | 3.29 | 3.77 | 3.29 | 4.34 | 15.15 | 4.31 | 14.41 |
| 3.90.79 | 1.86 | 2.05 | 1.84 | 3.01 | 46.42 | 2.89 | 40.90 |
| 3.90.730 | 5.25 | 5.62 | 5.34 | 5.69 | 1.34 | 5.67 | 1.01 |
Columns 5 and 6 show the maximum z-scores obtained and the maximum percentage improvements obtained when using Blosum62 combined with topology-based matrices. Columns 7 and 8 show the maximum z-scores obtained and the maximum percentage improvements obtained when using VT160_RA combined with topology-based matrices. Maximum percentage improvements are the improvements of combined topology-based matrices over the maximum z-score giving generic matrix for each topology. Only the topologies where z-score improvements were observed for both Blosum62 combined and VT160_RA combined matrices over all three of the generic matrices are shown.