[Genome] Extracting corresponding genomic location sequence from other genomes

[Goel, Manisha]

Hello,

I have a list of coordinates for regions of interest for the
D.melanogaster genome.
For comparison, I would like to extract the corresponding regions from
D.simulans and D.pseudoobscura genomes as well. 
Although I can do this individually using the genome browser and get DNA
for aligned species, I need to do this for too many sequences.
Is a more automated way of doing this available ?
Can I also somehow get the "Alignment score statistics" for such regions
?

Thanks a lot for your advice ..
-Manisha



Post-doc Research Associate
Stowers Institute for Medical research
1000 E 50th St.
Kansas city, MO 64110