PRATT is a tool to discover patterns that are conserved in a set of protein sequences. The user can specify what kind of patterns should be searched for, and how many sequences should match a pattern to be reported.
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I.Jonassen, J.F.Collins, D.G.Higgins.
Finding flexible patterns in unaligned protein sequences
Protein Science 4, 1587-1595 (1995)
Efficient discovery of conserved patterns using a pattern graph.
CABIOS 13, 509-522 (1997).