Path: utzoo!mnetor!uunet!yale!cmcl2!beta!dd
From: dd@beta.UUCP (Dan Davison)
Newsgroups: sci.bio
Subject: Re: Abbreviations for ambigious bases
Message-ID: <16606@beta.UUCP>
Date: 18 Mar 88 00:49:14 GMT
References: <3193@phri.UUCP>
Organization: Los Alamos Natl Lab, Los Alamos, N.M.
Lines: 35
Summary: it's not IUPAC, it's MOLGEN/Stanford/BIONET codes

In article <3193@phri.UUCP>, roy@phri.UUCP (Roy Smith) writes:
> 
> 	David Kristofferson was kind enough to send me Rich Roberts'
> official enzyme list.  Looking the list over, I'm confused about what the
> non-standard bases mean.  For example, I see:
> 
> AccI                           GT^JKAC
> AeuI (EcoRII)                  CC^LGG
> 
> 	I've never seen the J or L before.  I would guess that J is [AC]
> 
> 	Did the standard change, or was I mislead, or is Rich Roberts using
> his own notation, or what?  Come to think of it, if I had my way, I think I
> Roy Smith, {allegra,cmcl2,philabs}!phri!roy

It's the ambiguous base code developed by the MOLGEN project at SU
SUMEX-AIM.STANFORD.EDU back in the dawn of time, 1979-1980.  It bears no
resemblence to the Staden or IUPAC codes.  

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dan davison theoretical biology los alamos national laboratory t-10 ms k710
los alamos, nm 87544  dd@lanl.gov, dd@lanl.UUCP, ...cmcl2!lanl!dd

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los alamos, nm 875545/dd@lanl.gov (arpa)/dd@lanl.uucp(new)/..cmcl2!lanl!dd
"I refuse to be intimidated by reality any more"  "What is reality anyway?
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