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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

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MAFFT

00:12:13

00:33:36

00:53:38

Nucleotide diversity

0.249

0.274

0.262

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BMC Bioinformatics

ISSN: 1471-2105

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