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Titlebook: Combinatorial Pattern Matching; 8th Annual Symposium Alberto Apostolico,Jotun Hein Conference proceedings 1997 Springer-Verlag Berlin Heide

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Flexible identification of structural objects in nucleic acid sequences: Palindromes, mirror repeatseudoknots and triple helices. We further explore here the idea of a model against which the words in a sequence are compared for finding these structural objects [17]. In the present case, models are words defined over the alphabet of nucleotides that have both direct and inverse occurrences in the
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Banishing bias from consensus sequences,them. One such procedure is particularly effective in finding new, distant members of a given family of related sequences: start with a multiple alignment of the given members of the family and use an integral or fractional consensus sequence derived from the alignment to further probe the database.
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Efficient algorithms for approximate string matching with swaps,for the extended .-differences problem. That is, we add swaps into the set of edit operations without increasing the time complexities of previous algorithms that consider only changes, deletions, and insertions for the edit distance and .-differences problems.
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