[BiO BB] Search reverse repeat - Bayesian Filter detected spam
Austin.Tanney at arragen.com
Tue Jun 1 11:53:53 EDT 2004
Run BLAST ensuring that you use the "reverse complement" BLAST. I am pretty sure most versions of BLAST have this
If you are just interested in BLASTing two sequences specifically against one another use this
> -----Original Message-----
> From: Zhang, Yuanji [mailto:yjzhang at noble.org]
> Sent: 01 June 2004 16:47
> To: 'bio_bulletin_board at bioinformatics.org'
> Subject: [SPAM] - [BiO BB] Search reverse repeat - Bayesian Filter
> detected spam
> Which similarity search program will align reverse repeats in
> the genome?
> For example, if I have 2 sequences,
> >Seq A
> >Seq B
> Seq A and Seq B are reverse repeats to each other.
> BLAST does not align A and B.
> I can manipulate the sequences by reversing one seq and then
> align, but I'd
> like to know whether there is a program that align A and B
> without extra
> sequence manipulation. Any information is appreciated.
> BiO_Bulletin_Board maillist - BiO_Bulletin_Board at bioinformatics.org
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