fuzznuc

[Philippe Dessen]

Just a question about fuzznuc :
Is it possible to define a pattern with repetition of a motif (as n
letters with n>1) ?
That is not mentionned in documentation .

The following pattern (a stop codon in a coding frame) seems to be
illegal !
<(NNN)(0,)TGA(NNN)(1,)>

$ fuzznuc seqfile
Nucleic acid pattern search
Search pattern: <(NNN)(0,)TGA(NNN)(1,)>
Number of mismatches [0]:
Output file [rptufrpx.fuzznuc]:
   This is a warning: Illegal character [(]

   EMBOSS An error in fuzznuc.c at line 96:
Illegal pattern

--------
in GCG syntax  you can use  (NNN){1,}


Regards

Philippe Dessen