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Old 02-25-2011, 06:01 AM   #2
Location: germany

Join Date: Dec 2010
Posts: 15

Hi alex,

I just wanted to say: It seems we have very similar problems and no idea.

I didn't get your problem clearly enough, but I have a general advice:

Check all the out format options you have in tblastn and blastdbcmd? You get them by typing tblastn -help and blastdbcmd -help.

Above that there are perl scripts in the BLAST book written by Korf, Yandell and Bedell. With these you can handle your output for example get hits with higher ninety percent identity.
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