J Nicolas, P Durand, G Ranchy, S Tempel and A S Valin (2005), "Suffix-Tree ANalyser (STAN): looking for nucleotidic and peptidic patterns in chromosomes", Bioinformatics, 21, 24: 4408 -- 4410.
Abstract: We have developed STAN, a tool to search for nucleotidic and peptidic patterns within whole chromosomes. Pattern syntax uses a String Variable Grammar-like formalism which allows the description of complex patterns including ambiguities, insertions/deletions, gaps, repeats and palindromes. STAN is based on a reduction to multi-part matching on a suffix-tree data structure and can handle large DNA sequences, whether assembled or not.
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