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Last update on 13. Nov 2025 .
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    Design Sequencing Primers

    OCCURRENCE

    ARB_NT/Probes/Design Sequencing Primers

     

    DESCRIPTION

    This module will search for primers for all positions.

    The best result is one primer for all (marked) taxa, the worst case are n primers for n taxa.

    • does only search in marked sequences.
    • sequences need to be aligned.

    Searches for sections in alignment which require the lowest number of primer combinations. You have to specify the maximum allowed number of different primers. Specify '1' to report only primers valid for all marked species.

    The module outputs a list of primer candidates, probably outputs hundreds of pages. Checking these primers requires a lot of manual work.

    Press ctrl-C to abort the program.

     

    Field experience

    Bad sequences confuse the algorithm. Workaround: unmark them.

     

    NOTES

    None

     

    EXAMPLES

    None

     

    WARNINGS

    None

     

    BUGS

    No bugs known