Table 3.
Alignment overview with informative measures
| Aligner | Weighted | AP | Cov | CE | LCCC | cKO | cGO | cEN | cIP |
|---|---|---|---|---|---|---|---|---|---|
| AlignMCL | No | 7711 | 7064 | 19 528 | 7716 | 4.39 | 3.34 | 2.80 | 6.00 |
| AlignMCL | Yes | 7711 | 7064 | 19 528 | 7716 | 4.39 | 3.34 | 2.80 | 6.00 |
| AlignNemo | No | 4776 | 2826 | 9385 | 3936 | 4.37 | 3.24 | 3.09 | 6.46 |
| AlignNemo | Yes | 4081 | 2515 | 8127 | 3425 | 4.43 | 3.28 | 3.21 | 6.38 |
| CUFID | No | 5654 | 11 308 | 13 892 | 6664 | 4.54 | 4.34 | 4.03 | 5.30 |
| CUFID | Yes | 5250 | 10 500 | 14 744 | 7070 | 4.14 | 3.78 | 3.69 | 4.85 |
| HubAlign | No | 5926 | 11 852 | 50 016 | 24 978 | 5.19 | 4.36 | 4.50 | 5.99 |
| IsoRankN | No | 2964 | 5065 | 8711 | 3945 | 2.18 | 2.80 | 1.93 | 2.53 |
| MAGNA++ | No | 5933 | 11 866 | 3388 | 1601 | 11.19 | 6.10 | 9.10 | 13.93 |
| MI-GRAAL | No | NA | NA | NA | NA | NA | NA | NA | NA |
| NETAL | No | 3100 | 6200 | 456 | 129 | ∞ | 7.74 | 3100 | ∞ |
| NetCoffee | No | 2310 | 4620 | 3742 | 1654 | 2.94 | 2.85 | 2.62 | 3.68 |
| NetworkBLAST | No | 7904 | 3185 | 12 552 | 5224 | 6.68 | 3.47 | 4.46 | 9.81 |
| NetworkBLAST | Yes | 4008 | 2195 | 10 404 | 4432 | 5.37 | 3.47 | 4.06 | 7.68 |
| PINALOG | No | 5317 | 10 634 | 32 792 | 16 285 | 4.19 | 4.01 | 3.76 | 4.70 |
| PrimAlign | No | 3801 | 4883 | 16 518 | 6971 | 2.31 | 2.86 | 1.71 | 3.07 |
| PrimAlign | Yes | 3752 | 4843 | 16 408 | 6934 | 2.29 | 2.86 | 1.70 | 3.04 |
| SANA | No | 5933 | 11 866 | 43 524 | 21 738 | 9.11 | 5.14 | 7.43 | 11.03 |
| SMETANA | No | 3487 | 5384 | 18 770 | 8981 | 2.83 | 2.97 | 2.31 | 3.46 |
| SMETANA | Yes | 3854 | 5718 | 14 417 | 6320 | 2.86 | 3.03 | 2.28 | 3.55 |
| WAVE | No | 5933 | 11 866 | 32 500 | 16 138 | 10.85 | 5.48 | 9.90 | 12.68 |