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Table 2 Alignment time comparison of various numbers of mammalian mtDNA genomes (complete sequences)

From: MISHIMA - a new method for high speed multiple alignment of nucleotide sequences of bacterial genome scale data

  No. of sequences compared
Method 50 100 200
MISHIMA + MAFFT 00:06:50 00:10:24 00:19:03
CLUSTAL W 02:15:04 05:05:20 10:40:31
MUSCLE 00:46:13 01:38:59 -----
MAFFT 00:12:13 00:33:36 00:53:38
Nucleotide diversity 0.249 0.274 0.262