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02-09-2007, 03:00 PM
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 primer mismatching software/sites where I can find a software or a website in which I can blast my primers (rat) and have back the possible mismatching? I already used BLAST from Ensembl and NCBI and FASTA but they return a lot of false positive, are time consuming (average of 3 minutes each primer), do not allow to search for both primers in the same moment...        |
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02-10-2007, 08:50 AM
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 Re: primer mismatching software/sites Hello Tlaragio! Not sure exactly what you want to BLAST against. I have some programs that I used: virtual PCR (where you enter primer sequences) http://grup.cribi.unipd.it/cgi-bin/mateo/vpcr2.cgi If you have used Perl before, Perl Primer can BLAST primers you design in the program: http://perlprimer.sourceforge.net/tutorial.html For Linux (A Perl 5 interpreter or higher on a Linux system is required.), Oligo Picker BLASTs your primers in NCBI http://pga.mgh.harvard.edu/oligopicker/index.html Cheers! Last edited by moleculardude; 02-10-2007 at 08:52 AM. |
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