Abstract
Alignment (pairwise and multiple) is central in the comparison of biological sequences. Some of the purposes in aligning sequences are:
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Reconstructing molecular evolution.
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Matching of functionally equivalent regions.
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Matching of homologous nucleotides/amino acids.
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Definition of patterns the sequences must contain.
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References
Levensthein, V.I. (1996) Binary codes capable of correcting insertions, and reversals. Cybernetics and Control Theory 10: 707–710.
Needleman, S.B. and CD. Wunsch (1970). “A general method applicable to the search for similarities in the amino acid sequences of two proteins” Journal of Molecular Biology. 48: 443–453.
Gotoh, O. (1982). “An improved algorithm for matching biological sequences.” Journal Molecular Biology. 162: 705–708.
Sellers, P. (1980). “The theory and computation of evolutionary distances: Pattern recognition.” Journal Algorithms 1: 359–373.
Smith, T.F. and M.S. Waterman (1981). “The identification of common molecular subsequences.” Journal of Molecular Biology. 147: 195–197.
Sankoff, D. a. R.J.C. (1975). “Simultaneous Comparison of Three or More Sequences Related by a Tree.” pp 253–264.
Feng, D.-F. and R.F. Doolittle (1987). “Progressive sequence alignment as prerequisite to correct phylogenetic trees.” Journal of Molecular Evolution 25: 351–360.
Thompson, J.D., Higgins, D.G. and Gibson,T.J. (1994): CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalities and weight matrix choice. Nucleic Acids Research 22.4673–4680.
Hein, J.J. (1990). “Unified approach to alignment and phytogenies.” Methods in Enzymology. 183: 627–645.
Felsenstein, J. (1981). “Evolutionary Trees from DNA Sequences: A maximum likelihood approach.” Journal of Molecular Evolution. 17: 368–376.
Felsenstein, J. (1985). “Confidence limits on phytogenies: an approach using the bootstrap.” Evolution 39: 783–791.
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© 1998 Chapman & Hall
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Hein, J. (1998). Multiple Alignment. In: Karp, A., Isaac, P.G., Ingram, D.S. (eds) Molecular Tools for Screening Biodiversity. Springer, Dordrecht. https://doi.org/10.1007/978-94-009-0019-6_61
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DOI: https://doi.org/10.1007/978-94-009-0019-6_61
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