source: trunk/HELP_SOURCE/source/primer.hlp

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UP      arb.hlp
UP      glossary.hlp

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#SUB    subtopic.hlp

# Hypertext links in helptext can be added like this: LINK{ref.hlp|http://add|bla@domain}

#************* Title of helpfile !! and start of real helpfile ********
TITLE           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.

SECTION         Field experience

                Bad sequences confuse the algorithm.
                Workaround: unmark them.

NOTES           None

EXAMPLES        None

WARNINGS        None

BUGS            No bugs known