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egonozer / in_silico_pcr

Perl script for simulating PCR reactions. Extract sequences from a query based on primer sequences.
GNU General Public License v3.0
37 stars 12 forks source link

single primer #6

Open IntPr opened 1 year ago

IntPr commented 1 year ago

How can I use it if I only have a single primer sequence (either forward or reverse) and not the complete primer set?

egonozer commented 1 year ago

You could try using a dummy primer sequence as the other primer. For example 20 A's. Then use the -c option to determine whether your actual primer sequence is found anywhere in your target.

On May 9, 2023, at 10:55 AM, IntPr @.***> wrote:

How can I use it if I only have a single primer sequence (either forward or reverse) and not the complete primer set?

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IntPr commented 1 year ago

thank you, it works, but it also selects sequences that don't have any primer matches at all.