[EMBOSS] needle -nobrief

Marc Logghe Marc.Logghe at ablynx.com
Wed Mar 19 08:29:28 UTC 2008


Hi all,

I have checked the docs and googled around but I did not find an
explanation for how the shortest_similarity or shortest_identity is
calculated by needle (using the -nobrief option).

For longest_identity it seems to be:

(Identical residues x 100)/(Length of Alignment - Total Number of Gaps
in Alignment)

Thanks and regards,

Marc

 





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