SWeBLAST: a Sliding Window Web-based BLAST tool for recombinant analysis.
We describe a simple Perl computer tool for matching successive subsequences of a query sequence using the BLAST facilities of Genbank. SWeBLAST helps identify 'parents' of recombinant sequences, even when these are themselves unrelated, thus it is complementary to methods that compare sets of aligned homologous sequences, and avoids the significant problem of these methods in having first to decide which sequences to compare. SWeBLAST searches may also be valuable for checking the recombination history of genes proposed for use as transgenes.
Fourment
Mathieu
M
Department of Biological Sciences, Macquarie University, Sydney, NSW 2109, Australia.
Gibbs
Adrian J
AJ
Gibbs
Mark J
MJ
D019295:Computational Biology / Q000379:methods*; D020407:Internet; D010802:Phylogeny; D017800:Potyvirus / Q000145:classification / Q000235:genetics; D016415:Sequence Alignment / Q000379:methods*; D017421:Sequence Analysis / Q000379:methods; D012984:Software; D014584:User-Computer Interface