Journal
JOURNAL OF VIROLOGICAL METHODS
Volume 152, Issue 1-2, Pages 98-101Publisher
ELSEVIER
DOI: 10.1016/j.jviromet.2008.06.009
Keywords
virus recombinants; BLAST; RDP3; transgene safety
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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. (C) 2008 Elsevier B.V. All rights reserved.
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