On 19/10/2012 10:33, Dr. Josef Maier - IStLS wrote:
Hello Angus,
you could use preg with following pattern as written in regular
expressions:
([KRH][^DE][^DE][^DE])|([^DE][KRH][^DE][^DE])|([^DE][^DE][KRH][^DE])|([^DE][^DE][^DE][KRH])
Alternatively you could search with four different PROSITE-st
Dear Aengus,
I have an idea of how to do it. You must of course complete the
motif/pattern as much as possible because with just {DE}(4) you will
find much to much unless you search only a few sequences. You must run
the program fuzzpro with parameter -rformat=listfile. You will obtain
s
regular expressions.
Best regards,
Josef
Josef Maier, IStLS Information Services to Life Science
> Date: Thu, 18 Oct 2012 15:52:44 +0100
> From: Aengus Stewart
> Subject: [EMBOSS] Help to build a motif for fzzpro
> To: emboss@lists.open-bio.org
> Message-ID: <508017bc.80...@c
Hi all,
I have been asked to build a motif and the first part of the motif is.
"The first 4 AAs must not be acidic and 1 of them should be basic"
I am not sure how to do this. So far I have
{DE}(4)
I am thinking I run with this and then post-filter the fuzzpro file?
Any ideas greatfully
