Table 5. Comparison of algorithms for small datasets.

Algorithm	BAliBASE			PREFAB		OXBench-X			SABmark
	SP	TC	time	SP/TC	time	SP	TC	time	SP	TC	time
QuickProbs 2	88.0	61.7	23:41	74.2	1:41:26	89.5	80.3	1:35:35	61.1	40.8	24
MSAProbs	87.8	60.8	35:29	73.7	2:26:39	89.1	80.0	2:42:09	60.2	40.0	29
GLProbs	87.9	59.3	23:21	72.4	1:25:40	89.1	80.0	1:10:08	61.4	41.4	3:55
MAFFT auto	86.5	58.7	10:20	72.6	17:28	88.7	79.4	7:13	57.3	36.8	1:01
Clustal-iter2	84.8	56.7	67:32	71.0	2:35:46	88.5	79.5	45:30	55.2	35.7	2:52
Clustal-default	84.2	55.9	7:41	70.0	21:56	87.8	78.1	7:34	55.0	35.5	3:52
UPP	83.0	54.2	1:23:33	69.1	5:00:29	88.9	80.0	2:49:29	52.9	33.1	18:36
FAMSA	82.6	50.1	2:40	68.3	5:39	87.4	77.5	1:30	56.4	36.8	23
Kalign-LCS	83.0	50.4	29	65.9	1:51	86.8	76.4	36	55.6	35.6	2
Muscle	81.9	47.8	14:10	67.7	35:04	87.5	77.6	26:44	54.5	33.5	45
MAFFT default	81.7	47.5	1:48	68.0	5:58	86.6	76.2	1:39	53.2	33.0	39
Kalign2	81.1	47.1	37	65.5	2:03	86.3	75.9	48	52.4	32.6	2