Pairwise Sequence Alignment

Robert Giegerich and David Wheeler

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Robert Giegerich

• Contents
• 1 Distance and Similarity
• 2 Pairwise Alignment via Dynamic Programming
• 3 Weight Matrices for Sequence Similarity Scoring
• 4 Realistic Gap Models
• 5 Variations of Pairwise Alignment
• 6 Appendix
• 7 Some Recommended Reading
• References
• About this document ...