Table 8.

Average f_D and f_M scores and average normalized Dali Z-score, GDT_TS score, and ContactA and ContactB scores (in %) on the Twilight and Superfamily subsets of SABmark 1.65 when pairwise alignments are performed over all protein sequence pairs instead of obtaining a single multiple alignment

	TCoffee			MUSCLE			ProbCons			MUMMALS
Twilight {205}
fD	24.88	25.06	0.005	25.30	26.50	4 × 10−5	26.23	26.49	4 × 10−4	29.13	29.17	0.02
fM	16.78	16.85	–	17.05	17.68	3 × 10−4	17.92	17.96	0.04	19.64	19.65	–
Dali Z-score	13.41	13.60	1 × 10−4	13.83	14.40	3 × 10−5	13.46	13.74	4 × 10−10	15.06	15.10	0.03
GDT_TS	12.74	12.89	7 × 10−8	13.16	13.69	2 × 10−7	12.88	13.10	5 × 10−11	14.24	14.26	–
ContactA	7.70	7.79	0.002	8.01	8.34	4 × 10−4	8.09	8.15	5 × 10−4	8.93	8.94	–
ContactB	10.17	10.29	0.01	10.75	10.98	–	10.99	10.94	–	11.90	11.92	–
Superfamily {422}
fD	50.73	51.01	1 × 10−13	50.79	51.79	3 × 10−16	51.60	52.27	1 × 10−28	54.79	54.83	3 × 10−6
fM	38.09	38.24	5 × 10−9	38.16	38.85	3 × 10−11	39.10	39.45	7 × 10−19	41.06	41.08	5 × 10−5
Dali Z-score	33.82	33.98	3 × 10−11	33.80	34.60	2 × 10−19	33.56	34.23	7 × 10−45	35.67	35.64	1 × 10−5
GDT_TS	31.81	31.95	2 × 10−13	31.84	32.52	2 × 10−22	31.72	32.18	3 × 10−39	33.34	33.36	1 × 10−5
ContactA	23.11	23.19	2 × 10−6	23.21	23.74	9 × 10−20	23.29	23.63	3 × 10−25	24.65	24.64	0.01
ContactB	28.85	28.91	0.003	29.10	29.51	3 × 10−9	29.28	29.53	4 × 10−9	30.74	30.73	–

For each algorithm, the higher accuracy value is in bold.