2. Perform a pairwise sequence alignment for the following DNA sequences using the Needleman-Wunsch algorithm. Use a scoring system (match: +1, mismatch: -1, gap: -2). Provide the alignment and calculate the alignment score. • Sequence 1: ATCGTAC • Sequence 2: ATGCT
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- A T C G T A C - 0 -2 -4 -6 -8 -10 -12 -14 A -2 T -4 G -6 C -8 T-10 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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Give the global alignment and the local alignment of the given sequences CACGGT and CGATGT. Which one has a higher score? (for alignment Match=6 Mismatch=-3 Gap=-4)
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