Comparative Sequence Analysis: Finding Genes

Publisher Summary This chapter discusses the various approaches for detecting sequence similarities, with emphasis on their applications to genome sequence analysis. The major goal of large-scale genome analysis is to identify and characterize as many genes of an organism as possible. The problem of finding genes in sequences resulting from large-scale projects is typically more challenging than the problem for the individual investigator because of the lack of contextual information about any particular segment of DNA. The sequences are determined as DNA but searched as protein. The chapter also describes, widely used algorithms for detecting sequence similarities and its significances; consensus methods for searching, simple and complex patterns of consensus representation and the use of blocks for representing the most highly conserved regions between the gaps.

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