Skip to main content

Table 1 Computation times in seconds for each algorithm.

From: Comparison of methods for genomic localization of gene trap sequences

  

Computation Time in seconds

 

# of Sequences

MegaBLAST

SSAHAa

BLATa

Full-length Genes

3320

1767 (40578)b

361 (29895)

1434 (204331)

Sequence Tags

7043

223 (1025)

38 (5806)

276 (854)

  1. a Reported computation times for SSAHA and BLAT do not include pre-indexing of the genome (see text).
  2. b Results using the repeat-masked genome are listed first, followed by results from the unmasked genome in parenthesis.