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jjk · 03-22-2010, 11:55 PM

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

03-22-2010, 11:55 PM	#1
jjk Member Location: Brisbane Join Date: Nov 2009 Posts: 21	Looking for Annotation software 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