Skip to main content

Table 4 Comparison of performance with human chromosome X - mouse chromosome X pair.

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

  length (bp) Sn (%) time memory (GB)
Blastz (default) 41,649,203 58.9 117 m 03 s 2.8
Blastz (T = 2 C = 2) 21,094,947 36.5 15 m 21 s 2.8
Blastz* (T = 2 C = 2) 32,684,714 58.0 23 m 22 s 0.4
NUCmer 1,299,148 5.4 4 m 01 s 2.3
Cgaln (-X2500 k = 11) 25,675,191 54.4 5 m 56 s 0.9
Cgaln (-X2500 k = 12) 27,776,861 56.0 4 m 21 s 1.2
  1. Performance of alignment programs examined on human chromosome X (chrX) vs. mouse chromosome X. The threshold T col was set to "-X2500".