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Table 8 Minimum, Maximum and Average run times (in seconds) for 5 different methods over 100 randomly chosen 5S RNA and tRNA alignments each from [38] and [39].

From: Efficient pairwise RNA structure prediction using probabilistic alignment constraints in Dynalign

  tRNA 5S RNA
Min Max Avg Min Max Avg
Dynalign new constraint 1.0 55.0 9.98 2.0 234.0 34.38
Dynalign M constraint 4.0 29.0 9.39 36.0 111.0 73.07
StemLoc 3.0 1308.0 210.16 11.0 8133.0 616.06
Consan 21.0 793.0 209.29 123.0 7330.0 1032.84
FOLDALIGN 14.0 76.0 30.33 181.0 822.0 349.48
  1. A dual-core AMD Opteron®-270 2.0 GHz system with 4 GBytes of main memory running Linux Fedora Core 4 was utilized for the timing experiments.