# Score

From GcatWiki

Bit score is calculated from a formula that takes into account the alignment of similar or identical residues, as well as any gaps introduced to align the sequences. A key element in this calculation is the "Substitution matrix", which assigns a score for aligning any possible pair of residues. Bit scores are normalized, which means that the bit scores from different alignments can be compared, even if different scoring matrices have been used.

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