As far as I know, you will need to download and install BLAST or FASTA and
run it locally to do this. I don't think any servers give permission for
you to upload a file to run your query against (but I may be wrong).
BLAST and WU-BLAST are available free for non-commercial use. I believe
FASTA is as well.
On 18 Jan 2002, Lee Smith wrote:
> 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