CBESW: Sequence Alignment on the Playstation 3

BMC Bioinformatics

Table 3 List of query sequences used in different performance comparisons

Accession number	Query Sequence Length	Comparison w/SSEARCH	Comparison w/Striped SW	Comparison w/CUDA
O29181	63	√	√	√
P03630	127	√	√	√
P02232	143			√
P05013	189			√
P14942	222			√
P00762	246			√
P53765	255	√	√	√
Q8ZGB4	361	√	√	√
P10318	362			√
P07327	374			√
P01008	464			√
P10635	497			√
P58229	511	√	√
P25705	553			√
P42357	657	√	√	√
P21177	729	√	√	√
Q38941	850	√	√	√
O60341	852	√	√	√

List of query sequences, as well as their respective accession number, used in different performance comparisons with other publicly available implementations of SW-based protein database scanning, namely SSEARCH, Striped Smith-Waterman and CUDA.

ISSN: 1471-2105