Pairwise Sequence Alignment

  1. Jonathan Pevsner

Published Online: 28 JAN 2005

DOI: 10.1002/047145916X.ch3

Book Title

Bioinformatics and Functional Genomics

Bioinformatics and Functional Genomics

Additional Information

How to Cite

Pevsner, J. (2005) Pairwise Sequence Alignment, in Bioinformatics and Functional Genomics, John Wiley & Sons, Inc., Hoboken, NJ, USA. doi: 10.1002/047145916X.ch3

Publication History

  1. Published Online: 28 JAN 2005
  2. Published Print: 18 JUN 2004

ISBN Information

Print ISBN: 9780471210047

Online ISBN: 9780471459163

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CHAPTER TOOLS

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Keywords:

  • pairwise sequence alignment;
  • nucleotides;
  • Dayhoff model;
  • accepted point mutation matrices;
  • blocks substitution matrix;
  • scoring matrices

Summary

This chapter includes the following topics:

  • Introduction

  • Dayhoff Model: Accepted Point Mutations

  • PAM250 and Other PAM Matrices

  • Alignment Algorithms: Global and Local

  • Significance of Pairwise Alignments: Percent Identity

  • Perspective

  • Pitfalls

  • Web Resources

  • Discussion Questions

  • Problems

  • Self-Test Quiz

  • Suggested Reading

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