Give two DNA sequences of length 6 each such that they have 4 best local alignments with a score of 12. (For alignment: Match = 6, Mismatch = -3, Gap = -4)
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Step 1:** Generate two DNA sequences of length 6 each: Sequence 1: EHDCMN Sequence 2: GGGAGG ** Show more…
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Individual assignment Consider global alignment with affine gap penalty function. Let the scoring scheme parameters be as follows: match score (ma) = +1; mismatch penalty (mi) = -2; gap opening penalty (h) = -5; gap extension penalty (g) = -1. Now, consider two alignments A1 and A2 between the same two DNA sequences: (A1) s1 : a c c a t t t t a - g - g - c t c s2 : a c g a - t - t a g g g g g c t c (A2) s1 : a c c a t t t t a - - - g g c t c s2 : a c g a - - t t a g g g g g c t c Compute the scores for these two alignments using the given scoring scheme.
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