psi-blast (again)

Arne Mueller a.mueller at icrf.icnet.uk
Tue Apr 27 16:56:08 EST 1999

Hi All,

I've just found out that blast version 2.0.8 in psi-blast mode doesn't
recognize all hits that version 2.0.6 reported (though I used the same
parameters off course!). 

In the README at ftp://ncbi.nlm.nih.gov/blast/executables/README it

Notes for 2.0.7 release:
2.) A problem with very redundant databases and psi-blast was fixed.

any idea what that means? My database shouldn't be redundant at all,
however I wonder whether the sequence found by version 2.0.6 with
e-value 1e-88 and %id 9.6 but not found in version 2.0.8 is due to the
mentioned change in version 2.0.7 ... .

	Thanks for suggestions,


Arne Mueller
Biomolecular Modelling Laboratory
Imperial Cancer Research Fund
44 Lincoln's Inn Fields
London WC2A 3PX, U.K.
phone : +44-(0)171 2693405      | Fax : +44-(0)171 269 3258
email : a.mueller at icrf.icnet.uk | http://www.icnet.uk/bmm/

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