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Table 9 SP scores for different weights of secondary structures on the SABmark benchmark. Bold denotes the two best scores, and an extra superscript of star denotes the highest score.

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

W2

0

0.1

0.2

0.3

0.4

0.5

0.6

0.7

0.8

0.9

1

SP

60.553

62.988

65.514

67.333

68.348

68.698 *

68.465

68.159

67.282

66.153

64.745

  1. The results show that using secondary structure information (i.e. w2 > 0) always increases the alignment scores over without using it (i.e. w2 = 0). MSACompro yielded the highest accuracy score of ~68.70 when w2 is set to 0.5.
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BMC Bioinformatics

ISSN: 1471-2105

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