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!