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How are the pairwise alignment scores generated? To see other biotech frequently asked questions,
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(Continued from previous question...) How are the pairwise alignment scores generated? A pairwise score is calculated for every pair of
sequences that are to be aligned. These scores are presented in a table in the
results. Pairwise scores are calculated as the number of identities in the best
alignment divided by the number of residues compared (gap positions are
excluded). Both of these scores are initially calculated as percent identity
scores and are converted to distances by dividing by 100 and subtracting from
1.0 to give number of differences per site. We do not correct for multiple
substitutions in these initial distances.
See also: (Continued on next question...)
Other Frequently Asked Questions
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