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Article #2648Re: [Bio-software] EBOX motif analysis
From: Aneesh Krishna
Date: Wed, 25 Jun 2008 04:43
Date: Wed, 25 Jun 2008 04:43
42 lines
3639 bytes
3639 bytes
Hi Shobit, To locate or search for any kind of such patterns there are online tools available. There are tools which take in the pattern as a regular expression and looks for the pattern in the input sequence. You can use DREG (http://bioinfo.hku.hk/EMBOSS/) This is a part of NUCLEIC MOTIFS in the EMBOSS package. The program requires 2 input. 1. Input Sequence: The user's sequence 2. Regular expression pattern: CA[CG][CG]TG The output will locate the positions of the E-box in the input sequence. I hope this will serve the purpose. On 6/24/08, Googlefan <indiasweden@gmail.com> wrote: > > Hello, I want to analyse E-BOX ( CANNTG) motif in my sequence. Could > you please tell me any tool to analyse it. > Thanks > Shobhit > > _______________________________________________ > Bio-soft mailing list > Bio-soft@net.bio.net > http://www.bio.net/biomail/listinfo/bio-soft > -- Aneesh.K Associate-Life Sciences Mascon Global Limited Delhi Mob: 09999061058
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X-Google-Thread: fa6b6,dcb79ff75da808e5 X-Google-Attributes: gidfa6b6,domainid0,public,usenet X-Google-Language: ENGLISH,ASCII-7-bit Path: arc1-ca.pugleaf.net!g2news1.google.com!news3.google.com!news4.google.com!out04b.usenetserver.com!news.usenetserver.com!in01.usenetserver.com!news.usenetserver.com!in03.usenetserver.com!news.usenetserver.com!newshub.sdsu.edu!elk.ncren.net!news.purdue.edu!not-for-mail From: "Aneesh Krishna" <krishna.aneesh@gmail.com> Newsgroups: bionet.software Subject: Re: [Bio-software] EBOX motif analysis Date: Wed, 25 Jun 2008 10:13:34 +0530 Organization: BIOSCI/IUBio, Biology Dept., Indiana University Lines: 42 Approved: BIOSCI Approval Key <biosci-approval-key@net.bio.net> Message-ID: <mailman.552.1214377505.3533.bio-soft@net.bio.net> References: <0a6b0aa6-084d-4e01-b1c0-cf442e4ca86b@d1g2000hsg.googlegroups.com> NNTP-Posting-Host: kalo.bio.indiana.edu Mime-Version: 1.0 Content-Type: text/plain; charset=ISO-8859-1 Content-Transfer-Encoding: 7bit X-Trace: mailhub227.itcs.purdue.edu 1214377531 24636 129.79.224.26 (25 Jun 2008 07:05:31 GMT) X-Complaints-To: news@purdue.edu NNTP-Posting-Date: Wed, 25 Jun 2008 07:05:31 +0000 (UTC) Cc: bionet-software@moderators.isc.org To: Googlefan <indiasweden@gmail.com> X-Envelope-From: krishna.aneesh@gmail.com DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=gmail.com; s=gamma; h=domainkey-signature:received:received:message-id:date:from:to :subject:cc:in-reply-to:mime-version:content-type:references; bh=ycr+MHJCOvptekJ+kt/PPMDUSRUZt+80wxRglcz8cQc=; b=AxPxwiud2hAOQPMO4Cuh+1zXpEb4wtqaQyzRCELZtcocpjiNZvpejPTIcANbulxrj2 kcEksLgDzrtAbiVKxU0fOFZ4+xdI7NDfTAMCmBt5iktP4agzwYrrXf6gGfP6sBVpPa+D e+izdonA3L4HCf08u2kiKhH6mkzuhSdxWAHRE= DomainKey-Signature: a=rsa-sha1; c=nofws; d=gmail.com; s=gamma; h=message-id:date:from:to:subject:cc:in-reply-to:mime-version :content-type:references; b=L0D5+pP8zhILOJe5J3abVlEaAC34KXOP0jx5rPn+tbN93V7Ur9L8IbcdXAJkopqAQd yZciHEoAmkvlwV5NMM23WKplW2uWg02FWVHVMCLNOgbj7KNQbFQsgvjwsHc9ikiPDVGL fOS1yJmxF/hFro6xoCoKWqnSVQ91gNLa1KoGI= In-Reply-To: <0a6b0aa6-084d-4e01-b1c0-cf442e4ca86b@d1g2000hsg.googlegroups.com> X-Mailman-Approved-At: Wed, 25 Jun 2008 02:05:03 -0500 Content-Disposition: inline X-Content-Filtered-By: Mailman/MimeDel 2.1.4 X-BeenThere: bio-soft@net.bio.net X-Mailman-Version: 2.1.4 Precedence: list X-Auth: PGPMoose V1.1 PGP bionet.software iQCVAwUBSGHuIaCIqsWvyF5FAQG7+AQAoH2MHxDQpL0YdCg1Rh3x8J8r9q/EJjyI dDylxapvuQEZc5ZB3h8+7lbf72Ooe5MPGXNy1Y0myTPUJIzdqlkr35W5ak3B9put eclZrq35hWep4rZOUJ1QCZu0RWIiQZ+XciTi1XkT1CEtCYQlF+Qq6AdhwBIj609K XQZKrcvE2gM= =gSQg