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Table 1 Comparison of results.

From: Clustering exact matches of pairwise sequence alignments by weighted linear regression

  No. of contigs Average contig length Time in MUMmer Time using linear regression
Set 1 2 60848 102.003 s 0.922 + 0.037 = 0.959 s
Set 2 3 43489 124.064 s 0.823 + 0.034 = 0.857 s
Set 3 3 41227 108.776 s 0.889 + 0.034 = 0.923 s
Set 4 9 14389 39.470 s 0.881 + 0.047 = 0.928 s
Set 5 44 2621 5.182 s 0.881 + 0.127 = 1.008 s
Set 6 36 2210 2.963 s 0.884 + 0.102 = 0.986 s
Set 7 18 1810 1.772 s 0.861 + 0.053 = 0.914 s
  1. Comparing alignment of several sets of contigs (assembled from a BAC in O. glaberrima) to a reference chromosome (in O. sativa) using only MUMmer and using MUMmer with weighted linear regression. The time using linear regression is shown as the sum between the time MUMmer takes to find the set of seeds plus the execution time of the weighted linear regression algorithm. (See the text for detailed discussion).