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From: gunnell@FCRFV1.NCIFCRF.GOV ("Gunnell, Mark")
Newsgroups: bionet.software
Subject: (none)
Message-ID: <9101282149.AA24963@genbank.bio.net>
Date: 28 Jan 91 21:48:00 GMT
Sender: daemon@genbank.bio.net
Lines: 32


With reference to Roy Smith's question about Fasta speed, (although
this does not specifically address his question regarding PC's running FASTA),
we recently had the opportunity to test Fasta on a VAX 9000 - 210, and compare
the results to machines currently in our laboratory or accessible to us 
(To show relative performance, WordSearch and Find times are also included):

                        { all times rounded to the nearest second }

                         CPU Seconds                      Ratio
                  ----------------------------    --------------------------
                   CONVEX   VAX    CRAY    VAX     CONVEX/    8650/    CRAY/
                    C230   8650   XMP24   9000     9000       9000     9000

Fasta v1.5a +         79     88      28     15      5.3       5.9       1.9
WordSearch GCG 6 +   270    292      na     42      6.4       7.0        -
Find GCG 6 *         205    110      na     19     10.8       5.8        -

na  -  program not available

+  humraf12 (49 nt) vs GenBank Primate Database (Rel. 65 - 6997 sequences 
   8,434,211 nt).
*  5aa vs PIR1,PIR2,PIR3 (Rel. 26 - 25,814 sequences  7,348,950 aa)
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Mark A. Gunnell                   | Internet: gunnell@ncifcrf.gov
Sci. Applications Analyst         | Bitnet:   gunnell%ncifcrf.gov@cunyvm.bitnet
Advanced Scientific Computing Lab.| Phone:   (301) 846-5779
PRI/DynCorp                       |
NCI-FCRDC                         |
PO Box B, Bldg 430                |
Frederick, MD 21702   USA         |
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