royaltyy1291 royaltyy1291

08-03-2024
Biology

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In a Smith-Waterman alignment, Why do we need mismatch scores to be negative?
1) Gap penalties would need to be positive
2) We don't want mismatch to be greater than match scores
3) We don't want to align long non-homologous sequences
4) It wouldn't work with short word sizes

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