Skip to main content

Advertisement

Table 1 Sum-of-pairs scores of various alignment programs on the benchmark database IRMBASE 2

From: DIALIGN-TX: greedy and progressive approaches for segment-based multiple sequence alignment

Method (Protein) REF1 REF2 REF3 REF4 Total
DIALIGN-TX 89.42 94.90 93.75 93.64 92.93
DIALIGN-T 0.2.2 89.670 94.190 93.93 0 93.120 92.730
DIALIGN 2.2 90.430 93.40- 91.78-- 92.98- 92.15--
CLUSTAL W2 07.13-- 10.63-- 19.87-- 26.17-- 15.95--
T-COFFEE 5.56 72.67-- 77.80-- 83.03-- 83.48- 79.24--
POA V2 87.56- 49.57-- 41.90-- 37.56-- 54.15--
MAFFT 6.240 L-INSi 82.780 84.29- 84.15-- 82.42-- 84.41--
MAFFT 6.240 E-INSi 90.53 0 94.370 93.110 94.79 + 93.20 +
MUSCLE 3.7 32.67-- 34.82-- 54.19-- 57.84-- 44.88--
PROBCONS 1.12 78.78-- 86.82-- 87.29- 87.69-- 85.15--
  1. Average sum-of-pair scores (SPS) of the benchmarked programs on the core blocks (given by the implanted conserved motifs) of IRMBASE 2. Minus symbols denote statistically significant inferiority of the respective method compared with DIALIGN-TX, while plus symbols denote statistically significant superiority of the method. 0 denotes non-significant superiority or inferiority of DIALIGN-TX, respectively. Single plus or minus symbols denote significance according to the Wilcoxon Matched Pairs Signed Rank Test with p ≤ 0.05 and double symbols denote significance with p ≤ 0.001, respectively.