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Table 2 Comparison of performance with E. coli CFT073 - S. typhimurium pair.

From: Cgaln: fast and space-efficient whole-genome alignment

 

length (bp)

Sn (%)

Sp (%)

time (s)

memory (MB)

Blastz (default)

4,952,433

83.0

61.2

73

348

Blastz (T = 2 C = 2)

3,330,116

79.5

84.2

22

347

AVID

3,263,793

78.1

73.8

178

2365

NUCmer

219,651

4.9

69.7

27

90

Cgaln (-X4000)

3,456,219

78.7

81.0

11

167

  1. Comparison of the performance of Cgaln with other programs for E. coli CFT073 vs. S. typhimurium. "-X4000" of Cgaln indicates the threshold T col was set at 4000.
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BMC Bioinformatics

ISSN: 1471-2105

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