local homology search

Lee Smith lmsmith at cyllene.uwa.edu.au
Fri Jan 18 07:09:59 EST 2002

Hi Guys

This is what I want to do:
I have a large sequence, from which I have identified all ORFs of 
greater than 30aa in length (there are approx 1000 of these). I want 
to place these ORFs into a file, and then search for homology to 
various protein 'query' sequences.

Can FASTA or  BLAST be used to search local files (I know you can 
search a file of filenames)?
If not, does anyone have any other suggestions?



Dr Lee Smith
UWA Dept of Microbiology
QEII Medical Centre
WA 6009

LMSmith at cyllene.uwa.edu.au

08 9346 3587


More information about the Bio-soft mailing list