BLAST versus BLAT, limit for the length of the query

twetjen twetjen at tzi.de
Tue Jun 18 04:10:31 EST 2002


I just can answer your first question. From my experience it's only 
timne consuming, but there exists no upper limit for a contig. I have 
blasted already two complete microbial genomes to a database.


Andrea wrote:

> Hi,
> I have got two questions:
> 1. I would like to blast big contigs to a database.
> Is there a upper limit for the length of the query sequence? Or is it
> just time-consuming if I blast a big contig instead of overlapping parts
> of the contig?
> 2. Has anyone here experience with the new "Blast" called Blat?
> Do you think it will be faster than BLAST?
> Are the results comparable?
> Thanks for your help!
> Andrea
> --
> http://www.bioinformatik.de
> ---

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