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

Read the ten residue–residue columns from the BLOSUM62 substitution matrix. In their order in the supplied sequence alignment, their contributions areThere are three gap positions, each incurring the stated linear gap penalty of four, including the leading gap. Therefore the alignment score is $\boxed{24-3(4)=12}$.