[ensembl-dev] How is Identity calculated?
Matthieu Muffato
muffato at ebi.ac.uk
Fri Nov 28 11:17:19 GMT 2014
Dear Sam,
%id is the number of identical matches divided by the length of the
considered sequence. Gaps (bits of that sequence that are not matched on
the other sequence) are thus included
Mathtieu
On 26/11/14 19:03, Sam Seaver wrote:
> In a list of orthologs computed by EnsemblCompara, Ensembl computes both
> the Target %id and Query %id.
>
> I suspect very much that this is the case of the number of identities
> being divided by the length of the target or query sequence, but I'm
> curious as to whether this includes the gaps that arise from the MSA?
>
> Thanks
> Sam
>
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