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Pairwise Alignment

Peter Lockhart, Tony Weisstein

From the Biological ESTEEM collection

ESTEEM Category

Sequence Alignment


These two worksheets implement a dynamic programming algorithm for pairwise sequence alignment. The user inputs three sequences and sets scoring parameters for matches, mismatches, and gaps; the worksheet then calculates the optimal trace-back path, from which the user can determine the optimal alignment. Separate worksheets are available for global and local alignment.

Editor's Note

The documentation provided on the download site consists of a 29-page draft chapter (in .pdf format) on Sequence Alignment.

Go to the Sequence Alignment module  in a new window

Peter Lockhart, Tony Weisstein, "Pairwise Alignment," Convergence (December 2006)