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Table 1 Sum-of-pairs score of ClustalW with anchor points on Balibase 3, compared to other usual aligners

From: Automatic detection of anchor points for multiple sequence alignment

Alignment RV11 RV12 RV20 RV30 RV40 RV50
CLUSTALW 2.0 49.27 86.89 86.23 70.71 79.65 70.56
CW+pc. (2) 34.78 81.92 83.02 64.52 71.45 67.78
CW+pc. (6) 52.62 89.84 85.90 70.66 80.70 77.28
CW+pc. (12) 53.13 87.63 85.71 73.14 80.31 74.35
CW+c. pc. (2) 50.66 86.35 86.21 74.53 80.37 77.51
CW+c. pc. (6) 52.62 90.11 86.32 74.21 80.55 77.46
CW+c. pc. (12) 53.13 87.63 86.21 74.36 80.42 74.75
DIALIGN-TX 51.52 89.18 87.88 76.18 83.64 82.28
MAFFT 6.717b 66.19 93.36 92.72 87.08 92.19 90.25
MUSCLE 3.7 57.16 91.54 88.91 81.45 86.49 83.52
PROBCONS 1.12 66.97 94.12 91.68 84.53 90.34 89.41
T-COFFEE 7.81 66.77 94.08 91.62 83.81 89.96 89.43
  1. This table gives the mean of the SP score on all data of each of the reference datasets of BAliBASE 3, for several multiple alignment schemes. CW+pc. (k) refers to the performance scores of ClustalW when supplied with the partial columns computed by MS4, for smin = k; while CW+c. pc. (k) refers to the consistent partial columns for the same value.