The Mathematical Institute, University of Oxford, Eprints Archive

Local Uniqueness of Alignments with a Fixed Proportion of Gaps

Hauser, Raphael and Matzinger, Heinrich (2005) Local Uniqueness of Alignments with a Fixed Proportion of Gaps. Technical Report. Unspecified. (Submitted)

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We consider two independent random strings with i.i.d. characters and examine their optimal alignments containing a fixed proportion of gaps. We prove that when the proportion of gaps is small then with high probability optimal alignments differ only in a small number of places and are locally unique everywhere else. The result is somewhat surprising, as one might expect unrelated sequences to admit many near-optimal alignments, whereas for related sequences one might expect an optimal alignment that is unique in many places.

Item Type:Technical Report (Technical Report)
Subjects:A - C > Biology and other natural sciences
O - Z > Probability theory and stochastic processes
H - N > Numerical analysis
Research Groups:Numerical Analysis Group
ID Code:1145
Deposited By: Lotti Ekert
Deposited On:13 May 2011 07:19
Last Modified:29 May 2015 18:50

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