Table 14.

Performance of methods on pairwise alignments.

Methods	Percentage Identity Range					Overall
	0–10	10–20	20–30	30–50	50–100
AMPS	20.7	62.3	89.8	95.4	99.5	88.97
CLUSTALW	19.9	58.8	88.9	96.1	99.6	88.54
PILEUP	24.3	61.7	90.0	94.5	99.6	89.01
PRRP	17.3	58.3	85.2	93.0	99.1	87.22
PIMA	15.9	58.5	89.9	94.5	99.6	88.12
DIALIGN	14.2	43.6	75.4	88.8	97.6	82.86
MSA	17.4	55.1	89.2	94.5	99.2	87.48
T COFFEE	15.4	67.6	93.6	96.5	99.6	89.90
N. Family	15	35	22	45	156	273