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

Table 6 Sum-of-pairs scores on BALIBASE 3

Method (Protein)	RV11	RV12	RV20	RV30	RV40	RV50	Total
DIALIGN-TX	51.52	89.18	87.87	76.18	83.65	82.28	78.83
DIALIGN-T 0.2.2	49.30^-	88.76⁰	86.29⁰	74.66⁰	81.95^-	80.14^-	77.31^--
DIALIGN 2.2	50.73⁰	86.66^-	86.91⁰	74.05⁰	83.31⁰	80.69⁰	77.52^--
CLUSTAL W2	50.06⁰	86.43⁰	85.16⁰	72.50^-	78.93⁰	74.24^-	75.36^--
T-COFFEE 5.56	58.22⁺⁺	92.27⁺⁺	90.92⁺⁺	79.09⁺	86.03⁺	86.09⁺	82.41⁺⁺
POA V2	37.96^--	83.19^--	85.28^-	71.93^-	78.22^--	71.49^--	72.17^--
MAFFT 6.240 L-INSi	67.11 ⁺⁺	93.63⁺⁺	92.67 ⁺⁺	85.55⁺⁺	91.97 ⁺⁺	90.00 ⁺⁺	87.07 ⁺⁺
MAFFT 6.240 E-INSi	66.00⁺⁺	93.61⁺⁺	92.64⁺⁺	86.12 ⁺⁺	91.46⁺⁺	89.91⁺⁺	86.83⁺⁺
MUSCLE 3.7	57.90⁺	91.67⁺⁺	89.17⁺	80.60⁺	87.26⁺	83.39⁰	82.19⁺⁺
PROBCONS 1.12	66.99⁺⁺	94.12 ⁺⁺	91.68⁺⁺	84.61⁺⁺	90.24⁺⁺	89.28⁺⁺	86.40⁺⁺

Average sum-of-pair scores (SPS) of the benchmarked programs on the core blocks of BALIBASE 3. The symbols are analogous to Table 1.

ISSN: 1748-7188