Article

SWeBLAST: a Sliding Window Web-based BLAST tool for recombinant analysis.

Department of Biological Sciences, Macquarie University, Sydney, NSW 2109, Australia.
Journal of Virological Methods (impact factor: 2.01). 08/2008; 152(1-2):98-101. DOI:10.1016/j.jviromet.2008.06.009 pp.98-101
Source: PubMed

ABSTRACT 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.

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Keywords

avoids
 
BLAST facilities
 
checking
 
compare sets
 
homologous sequences
 
query sequence
 
recombinant sequences
 
sequences
 
simple Perl computer tool
 
successive subsequences
 
SWeBLAST
 
SWeBLAST searches
 

Mathieu Fourment