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Old 03-23-2010, 04:23 AM   #5
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Location: Southern France

Join Date: Aug 2009
Posts: 269

Originally Posted by jjk View Post
At the moment i have more or less a chloroplast genome assembled. What i could do now is get al the ORF's and blast it and obtain the names by using for example BLAST2GO. The problems i am facing with that is when i take a ORF it might also be present somewhere else. And when i realign the results back it does not match the region i had before. ( Can do it all 1 by one but that will take ages!)

My question is now is the following possible:

Give a program the chloroplast sequence in fasta.

Let the program look for ORF's

Blast the ORF's and annotate the location

Send me the file.

Thanks for the help
Maybe this previous thread could help
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