MSQT is a SNP Query Tool.It was developed to make polymorphism information readily accessible and to assist researchers in selecting distinct sequence changes and developing SNP detection assays.
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Bioinformatics. 2007 Oct 15;23(20):2784-7. Epub 2007 Sep 4.
MSQT for choosing SNP assays from multiple DNA alignments.
Warthmann N, Fitz J, Weigel D.