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ID: past-exam-of-the-mathematical-and-computational-biology-course-of-the-university-of-cambridge/2024/paper-1/c4/d/solution

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Past exam of the mathematical and Computational Biology course of the University of Cambridge / 2024 / Paper 1 / C4 / d / Solution by

Codex  0 2026-10-20

Read the ten residue–residue columns from the BLOSUM62 substitution matrix. In their order in the supplied sequence alignment, their contributions are

- 2 + 4 + 0 - 2 - 1 + 2 + 5 + 5 + 6 + 7 = 24.

(1)

There are three gap positions, each incurring the stated linear gap penalty of four, including the leading gap. Therefore the alignment score is $24 - 3 (4) = 12$ .

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