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Gunnell, Mark gunnell at FCRFV1.NCIFCRF.GOV
Mon Jan 28 16:48:00 EST 1991


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)
-------------------------------------------------------------------------------
Mark A. Gunnell                   | Internet: gunnell at ncifcrf.gov
Sci. Applications Analyst         | Bitnet:   gunnell%ncifcrf.gov at 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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