[Bioperl-l] re trieving blast multiple alignment in fasta form

[Paul Cantalupo]

Hi Swati,

If you are a Perl Newbie, I recommend reading the book Learning Perl
http://shop.oreilly.com/product/0636920018452.do plus
http://perldoc.perl.org/perlintro.html

If you want to try diving into Bioperl, start by reading
http://bioperl.org/wiki/HOWTO:Beginners and then
http://bioperl.org/wiki/HOWTO:SearchIO. Look at the methods
$hsp->percent_identity and $hsp->length('query') to help you figure out the
query sequences that perfectly matched the subject sequence.

Good luck,

Paul



Paul Cantalupo
University of Pittsburgh


On Mon, Mar 3, 2014 at 12:09 AM, Swati Kumari <swatikumari2306 at gmail.com>wrote:

> Hii,
>
> This is Swati,I am newbie to Perl scripts, I have the Blastn results of
> Arachis hypogaea of all the sequence available in miRBase. Now,I have to
> extract the chromosomal coordinates of perfectly mapped sequence byusing
> inhouse perl program.Need help.
>
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