[Bioperl-l] divide and blast blastunsplit blast subsequence

[Kevin Lam]

Hi!
I am trying to annotate a 200kb sequence by doing blastx to find the protein
seq location
I need to split the sequence up so that I get the best hits for each region
(the top blast hits will mask the smaller proteins if i do it as a whole
sequence)
if i were to do it manually i can set the subsequence in the web gui for
ncbi's blast.
this way, the blast hits coords are based on the whole 200kb.

but I can't find this option in blast or a straightforward way to do it in
bioperl.

I found similar solutions like
http://www.bio.davidson.edu/projects/DAB/DAB.html
divide and blast (but I need to specify coords)

there also this from the bioperl archives
http://bioinformatics.org/pipermail/bioclusters/2002-August/000375.html

but isn't there an easier way like i can specify blast subsequence 200-900
of fasta file and it will return the blastx hits in coords in terms of the
whole 200kb?