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One of the challenges in SWA is obtaining correct alignments in regions of low similarity between distantly related biological sequences.

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One of the challenges in SWA is obtaining correct alignments in regions of low similarity between distantly related biological sequences.

(a) True

(b) False

This question was posed to me during an online interview.

Question is from Database Searching with the Smith topic in division Database Similarity Searching of Bioinformatics

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Correct option is (a) True

Best explanation: It is because mutations have added too much ‘noise’ over evolutionary time to allow for a meaningful comparison of those regions. Local alignment avoids such regions altogether and focuses on those with a positive score, i.e. those with an evolutionarily conserved signal of similarity.

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