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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.