Table 1 Runtime comparison for five small genomes between HMMER, RPS-BLAST, UFO and batch search at the Pfam web site (March 2009).
From: UFO: a web server for ultra-fast functional profiling of whole genome protein sequences
| Â | Â | CPU time | |||
|---|---|---|---|---|---|
Species | # Proteins | HMMER | RPS-BLAST | Pfam-web | UFO |
A. pseudotrichon. | 847 | 19 h 37 m | 4 m 11 s | 9 h 28 m | 2.5 s |
E. chaffeensis | 803 | 17 h 58 m | 3 m 13 s | 9 h 19 m | 2.0 s |
U. parvum | 577 | 13 h 54 m | 3 m 46 s | 7 h 38 m | 1.8 s |
U. urealyticum | 611 | 14 h 36 m | 3 m 42 s | 8 h 03 m | 1.9 s |
W. endosymbiont | 746 | 16 h 49 m | 3 m 40 s | 8 h 42 m | 1.9 s |