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"Local sequence alignments" - Smith-Waterman alignment
Perform a manual local alignment for the sequences, GAAGAGTATA and AAGCTATACC. Assume a match score of 1, a gap penalty of 3 and a substitution score of -1. Complete the following steps:
Fill in the entries of the F matrix using the recurrence relationship for the local alignment of these sequences. Show back pointers to matrix entry/entries that give you the maximal score.
Apply the trace back procedure to generate a local alignment.
Draw out the alignments on paper and include the image in your assignment repository. Please type the alignments immediately following.
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