[BioPython] check for primer in primer3 or biopython?

[Sebastian Bassi]

Hello Anders,

Anders Lundmark wrote:

> I belive you can use the tags 'PRIMER_LEFT_INPUT' and
> 'PRIMER_RIGHT_INPUT' in your primer3 input file to specify a primer
> pair to check versus a given sequence.

According to primer3 readme file:

PRIMER_LEFT_INPUT (nucleotide sequence, default empty)
The sequence of a left primer to check and around which to design
right primers and optional internal oligos.  Must be a substring
of SEQUENCE.

PRIMER_RIGHT_INPUT (nucleotide sequence, default empty)
The sequence of a right primer to check and around which to
design left primers and optional internal oligos.  Must be a
substring of the reverse strand of SEQUENCE.

I think this won't be useful since it doesn't allow mismatches ("Must be 
a substring of SEQUENCE.") and real PCR primers could have mismatches.
Anyway I will try it.


-- 
Best regards,

//=\ Sebastian Bassi - Diplomado en Ciencia y Tecnologia, UNQ   //=\
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