Table 2.

Accuracy of sequence alignments using ClustalW (Thompson et al. 1994). Frequency (f) of wrong alignments, mean ( $\widehat{CS}$) and standard deviation (CS_sd) of the CS scores (100 simulations). Values are color-coded as follows: f = 0, 0 < f ≤ 0.9 and 0.9 < f.

			T0			T1			T2			T3
		f	$\widehat{CS}$	CSsd	f	$\widehat{CS}$	CSsd	F	$\widehat{CS}$	CSsd	f	$\widehat{CS}$	CSsd
S1	200	0	1.000	0.000	0	1.000	0.000	0.02	0.999	0.006	0.02	0.999	0.005
	200ext	0	1.000	0.000	0	1.000	0.000	0.01	1.000	0.004	0.05	0.997	0.013
	1000	0	1.000	0.000	0	1.000	0.000	0	1.000	0.000	0.08	0.998	0.008
	200ID	0.17	0.985	0.011	1	0.952	0.028	0.99	0.958	0.025	1	0.928	0.033
S2	200	0	1.000	0.000	0	1.000	0.000	0	1.000	0.000	0.03	0.998	0.010
	200ext	0	1.000	0.000	0.01	0.999	0.009	0	1.000	0.000	0.04	0.998	0.010
	1000	0	1.000	0.000	0	1.000	0.000	0	1.000	0.000	0.07	0.999	0.005
	200ID	0.22	0.988	0.009	0.98	0.966	0.020	0.97	0.956	0.026	1	0.907	0.044
S3	200	0	1.000	0.000	0.1	0.991	0.031	0.05	0.996	0.019	1	0.127	0.175
	200ext	0	1.000	0.000	0.09	0.995	0.016	0.07	0.996	0.018	1	0.147	0.215
	1000	0	1.000	0.000	0.18	0.996	0.010	0.18	0.996	0.010	1	0.069	0.083
	200ID	0.07	0.974	0.016	0.9	0.969	0.033	1	0.914	0.058	1	0.123	0.160