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Table 1 Balibase results. Categories ("Cat.") refer to the five Balibase categories. Average 1 is the average sum-of-pairs score over all 141 alignments, while average 2 is the average across all five categories.

From: Kalign – an accurate and fast multiple sequence alignment algorithm

Method CPU time (sec.) Cat. 1 Cat. 2 Cat. 3 Cat. 4 Cat. 5 Average 1 Average 2
Kalign 27 0.85 0.92 0.79 0.88 0.92 0.86 0.87
ClustalW 75 0.85 0.93 0.75 0.85 0.86 0.86 0.85
Muscle 75 0.88 0.93 0.82 0.88 0.97 0.89 0.89
Mafft 100 0.86 0.92 0.78 0.91 0.96 0.88 0.89
Dialign 234 0.80 0.89 0.68 0.90 0.94 0.83 0.84
T-Coffee 1286 0.86 0.93 0.78 0.92 0.96 0.88 0.89