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PRIMA(1e) EMBOSS Manual for Debian PRIMA(1e)

NAME

prima - Selects primers for PCR and DNA amplification.

SYNOPSIS

prima -sequence sequence -targetrange toggle -targetstart integer -targetend integer -mintmprimer float -maxtmprimer float -minplen integer -maxplen integer -minpgccont float -maxpgccont float [ -primer toggle] -minprimerlen integer -maxprimerlen  integer -minpmgccont  float -maxpmgccont float -overlap integer -saltconc float -dnaconc float -list boolean -outfile outfile
prima -help

DESCRIPTION

prima is a command line program from EMBOSS (“the European Molecular Biology Open Software Suite”). It is part of the "Nucleic:Primers" command group(s).

OPTIONS

Input section

-sequence sequence

Required section

Target options

-targetrange toggle
Default value: N
-targetstart integer
Default value: $(sequence.begin)
-targetend integer
Default value: $(sequence.length)
-mintmprimer float
Default value: 53
-maxtmprimer float
Default value: 58

Additional section

Product options

-minplen integer
Default value: 100
-maxplen integer
Default value: 300
-minpgccont float
Default value: .40
-maxpgccont float
Default value: .55

Primer options

-primer toggle
Specify primer properties Default value: Y
-minprimerlen integer
Default value: 18
-maxprimerlen integer
Default value: 22
-minpmgccont float
Default value: .40
-maxpmgccont float
Default value: .55

Advanced section

-overlap integer
Default value: 50
-saltconc float
Default value: 50
-dnaconc float
Default value: 50
-list boolean
Default value: N

Output section

-outfile outfile

BUGS

Bugs can be reported to the Debian Bug Tracking system (http://bugs.debian.org/emboss), or directly to the EMBOSS developers (http://sourceforge.net/tracker/?group_id=93650&atid=605031).

SEE ALSO

prima is fully documented via the tfm(1) system.

AUTHOR

Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Wrote the script used to autogenerate this manual page.

COPYRIGHT

This manual page was autogenerated from an Ajax Control Definition of the EMBOSS package. It can be redistributed under the same terms as EMBOSS itself.
 
05/11/2012 EMBOSS 6.4.0