[bionet.molbio.genbank] Subsequence Searching

POSTMAST@gunbrf.bitnet (05/01/91)

Dr. Snyder,
In a request posted to the genbank-bb of BIOSCI you said
> I am looking for some software that will allow me to extract subsequences
> from genbank or PIR.
> For example, I would like to be able to provide a keyword such as 'splice
> site' and have the program search genbank and return with a list of sequence
> names and the subsequence from each entry corresponding to my keyword.
If you have access to a VAX/VMS machine, I think you will find PIR's XQS
program SCAN function will do pecisely that.
The FASTA program, as modified and maintained by Dr. William R. Pearson
(wrp@biochsn.acc.virginia.edu) will extract similar as well as identical
sequences.  The PIR FILESERVer uses a FASTA program to search the current
PIR databases.  You can receive instructions on how to use the PIR FILESERVer
by send a mail message to FILESERV@GUNBRF.BITNET consisting of the following
commands
  HELP
  HELP SEARCH
------------------------------------------------------------------------
                                 Dr. John S. Garavelli
                                 Database Coordinator
                                 Protein Identification Resource
                                 National Biomedical Research Foundation
                                 Washington, DC  20007
                                 POSTMASTER@GUNBRF.BITNET