[EMBOSS] question using 'matpatmotifs'

[ajb at ebi.ac.uk]

Hi Jean,

It is more like a feature. PS50888 is a matrix and patmatmotifs
doesn't deal with that type of PROSITE entry - it just compares
the pattern string entries.

Alan


> Hi,
>
> I used 'swissprot:hair_drome' as input sequence and run 'matpatmotifs' in
> EMBOSS and got 0 hits. However, when I used the same input sequnce on
> interproscan, the result
> (http://www.ebi.ac.uk/cgi-bin/iprscan/iprscan?tool=iprscan&jobid=iprscan-200
> 70118-14025926) show that it contains basic Helix-loop-helix motif which
> is
> ID PS50888 in prosite database. Is this a bug or did I do something wrong?
> I
> also run the same sequence against the 'motifs' program in GCG package.
> Again no hit was found.
>
> Thank you.
>
> Jean Mao
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