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Table 2 Total TC scores on the full-length BAliBASE 3.0 subsets.

From: MSACompro: protein multiple sequence alignment using predicted secondary structure, solvent accessibility, and residue-residue contacts

MSA tools RV11 RV12 RV20 RV30 RV40 RV50
MSACompro 47.13 86.93 47.16 58.63 64.42 63.43
Clustalw 22.74 71.30 21.98 25.63 39.55 30.75
DIALIGN-TX 26.53 75.23 30.49 36.83 44.82 46.56
FSA 26.95 81.77 18.68 24.63 47.43 39.81
MAFFT 28.05 74.36 32.85 41.07 47.51 49.31
MSAProbs 44.11 86.5 46.44 57.63 62.18 60.75
MUSCLE 31.79 80.39 35 38.6 45.02 45.94
Opal 41.97 84.05 34.61 42.03 51.35 50.06
POA 15.26 63.84 23.34 26.73 33.67 27
Probalign 45.34 86.20 43.93 53.6 60.31 54.94
ProbCons 41.66 85.55 40.63 51.47 53.22 57.31
T-coffee 42.29 85.25 38.88 47 55.94 58.69
  1. Bold denotes the highest scores. MSACompro yielded the highest TC scores on all the subsets.