From: Erratum to: State of the art: refinement of multiple sequence alignments
BAliBASE reference alignments | ClustalW | Dialign | Mafft | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|
 | Default | RASCAL | RF | REFINER | Default | RASCAL | RF | REFINER | Default | RASCAL | RF | REFINER |
Reference 1 | 0.65 | 0.63 | 0.66 | 0.66 | 0.62 | 0.65 | 0.67 | 0.62 | 0.70 | 0.69 | 0.69 | 0.71 |
Reference 2 | 0.78 | 0.80 | 0.80 | 0.80 | 0.78 | 0.80 | 0.79 | 0.79 | 0.83 | 0.82 | 0.83 | 0.82 |
Reference 3 | 0.66 | 0.69 | 0.67 | 0.68 | 0.65 | 0.64 | 0.65 | 0.66 | 0.76 | 0.73 | 0.75 | 0.77 |
Reference 4 | 0.67 | 0.68 | 0.66 | 0.70 | 0.67 | 0.71 | 0.66 | 0.69 | 0.75 | 0.73 | 0.70 | 0.77 |
Reference 5 | 0.65 | 0.67 | 0.66 | 0.68 | 0.67 | 0.65 | 0.64 | 0.67 | 0.76 | 0.73 | 0.72 | 0.76 |
Average | 0.682 | 0.694 | 0.69 | 0.704 | 0.678 | 0.690 | 0.682 | 0.692 | 0.760 | 0.740 | 0.738 | 0.766 |
Increment (%) | 0 | 1.760 | 1.173 | 3.226 | 0.000 | 1.770 | 0.590 | 2.065 | 0.000 | -2.632 | -2.895 | 0.789 |
BAliBASE reference alignments | Muscle | Probcons | T-Coffee | |||||||||
 | Default | RASCAL | RF | REFINER | Default | RASCAL | RF | REFINER | Default | RASCAL | RF | REFINER |
Reference 1 | 0.66 | 0.66 | 0.67 | 0.68 | 0.72 | 0.72 | 0.70 | 0.73 | 0.68 | 0.68 | 0.69 | 0.68 |
Reference 2 | 0.80 | 0.81 | 0.80 | 0.80 | 0.83 | 0.83 | 0.82 | 0.82 | 0.8 | 0.83 | 0.82 | 0.82 |
Reference 3 | 0.71 | 0.71 | 0.71 | 0.73 | 0.76 | 0.73 | 0.75 | 0.77 | 0.61 | 0.62 | 0.62 | 0.64 |
Reference 4 | 0.71 | 0.72 | 0.68 | 0.74 | 0.77 | 0.75 | 0.71 | 0.77 | 0.71 | 0.71 | 0.70 | 0.72 |
Reference 5 | 0.70 | 0.71 | 0.67 | 0.72 | 0.76 | 0.74 | 0.71 | 0.75 | 0.72 | 0.73 | 0.69 | 0.74 |
Average | 0.716 | 0.722 | 0.706 | 0.734 | 0.768 | 0.754 | 0.738 | 0.77 | 0.704 | 0.714 | 0.704 | 0.720 |
Increment (%) | 0.000 | 0.838 | -1.397 | 2.514 | 0.000 | -1.823 | -3.906 | 0.260 | 0.000 | 1.420 | 0.000 | 2.273 |