fuzznuc
Philippe Dessen
dessen at infobiogen.fr
Mon Jul 16 12:25:38 UTC 2001
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
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