## Combinatorial Pattern Matching: ... Annual SymposiumSpringer-Verlag, 2005 - Combinatorial analysis |

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Page 89

bosomal bacterial DNA

bosomal bacterial DNA

**sequences**from the NCBI DNA**sequence**database . We randomly picked 150**sequences**to form a test set and compared the preprocessing time , string matching time and total running time of the Tarhio - Ukkonen ...Page 140

an O ( nka ) time algorithm that finds all maximal #patterns in the

an O ( nka ) time algorithm that finds all maximal #patterns in the

**sequences**( notice that there can now be more then one maximal #pattern ) . The idea is to transform the**sequences**into permutations of the same set , and then build ...Page 324

If the

If the

**sequences**contain the same motif then it is more meaningful to seek an alignment that contains the motif ( i.e. that satisfies the corresponding regular expression constraint ) over those that do not because the motif should be ...### What people are saying - Write a review

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### Contents

Sharper Upper and Lower Bounds for an Approximation Scheme | 1 |

Text Indexing with Errors | 21 |

Succinct Suffix Arrays Based on RunLength Encoding | 45 |

Copyright | |

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### Common terms and phrases

algorithm alignment alphabet appear applications approximate assume automaton bits blocks bound called character column common complexity compressed compute consider consists construction contains corresponding data structure defined Definition denote described distance edges edit efficient encoding errors example exists expression extended Figure function gene genome give given graph input instance integer interval label Lemma length linear mass matching maximal method minimal motif multiset node Note obtained occurrences optimal pair path pattern points position possible PQ tree prefix present probability problem procedure programming Proof reduce regular relations represent respectively running Science score sequences similar solution solved space step stored string structure substring suffix suffix array suffix tree symbols takes Theorem tree University vertex weight