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Sequence Alignment Algorithm using Quality Information  

Na, Joong-Chae (서울대학교 전기, 컴퓨터공학부)
Roh, Kang-Ho (서울대학교 전기, 컴퓨터공학부)
Park, Kun-Soo (서울대학교 전기, 컴퓨터공학부)
Publication Information
Journal of KIISE:Computer Systems and Theory / v.32, no.11_12, 2005 , pp. 578-586 More about this Journal
Abstract
In this Paper we consider the problem of sequence alignment with quality scores. DNA sequences produced by a base-calling program (as part of sequencing) have quality scores which represent the confidence level for individual bases. However, previous sequence alignment algorithms do not consider such quality scores. To solve sequence alignment with quality scores, we propose a measure of an alignment of two sequences with orality scores. We show that an optimal alignment in this measure can be found by dynamic programming.
Keywords
Sequence alignment; dynamic programming; bioinformatics; DNA sequence comparison;
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