[BiO BB] Search reverse repeat - Bayesian Filter detected spam
mgollery at unr.edu
Tue Jun 1 12:21:31 EDT 2004
I don't believe the reverse complement idea will work, because these two
sequences are reversed, but not complements. What you could do is use a
script to complement them, then run Blast with reverse complement
Tanney, Austin wrote:
> 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
>>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
>>Which similarity search program will align reverse repeats in
>>For example, if I have 2 sequences,
>>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
>>sequence manipulation. Any information is appreciated.
>>BiO_Bulletin_Board maillist - BiO_Bulletin_Board at bioinformatics.org
> BiO_Bulletin_Board maillist - BiO_Bulletin_Board at bioinformatics.org
Center For Bioinformatics
University of Nevada at Reno
Dept. of Biochemistry / MS330
Marty's Law- the number of Bioinformatics acronyms will double every 18
More information about the BBB