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Table 2 Motif characteristics affecting quality of motif alignment.

From: A new protein linear motif benchmark for multiple sequence alignment software

  clustalw dialign kalign mafft_linsi mummals muscle probcons tcoffee
context 0.4601 0.5314 0.5686 0.6983 0.6030 0.6672 0.5528 0.6159
conservation 0.1557 0.0848 -0.0070 0.0729 0.0707 -0.0037 0.0513 0.0370
length 0.1298 0.1857 0.0274 0.0147 0.0923 0.0324 0.0083 0.0339
  1. Pearson correlation coefficients for SPS scores versus structural, motif conservation and motif length, for the eight different alignment programs evaluated. Values in bold indicate a significant correlation (critical value = 0.306 for 95% confidence interval)