Table 1.

Alignment time comparison of various numbers of human mtDNA genomes (complete sequences)

	No. of sequences compared
Method	50	100	200	400
MISHIMA + MAFFT	00:01:05	00:02:23	00:12:59	01:38:09
MISHIMA + CLUSTAL W -max-depth = 1	00:00:43	00:02:06	00:06:05	00:34:19
CLUSTAL W	02:15:32	04:48:59	10:16:22	25:08:23
MUSCLE	00:44:29	01:28:12	02:08:44	-----
MAFFT	00:02:43	00:05:44	00:16:31	00:38:51
Nucleotide diversity	0.003	0.002	0.002	0.002