[BiO BB] Getting sequences by base pair locations
Yuval Itan
y.itan at ucl.ac.uk
Thu Jul 27 12:22:36 EDT 2006
Hello all,
I was BLATing a few hundred human genes against the chimp genome, and
kept the best chimp hits for every human gene.
I have the base pair start and end location for every chimp hit, and I
need to get the sequence for each of these chimp hits. Here is an
example for a few chimp hits bp locations:
Start End
142854 144504
154479 155198
153066 167370
163146 163559
I have one chimp genome file (about 3GB) including all chromosomes, but
I could also get one file per chromosome if that would make things
easier. Does anyone have a script or a link for an interface that can
do the job?
Thank you very much,
Yuval
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