transeq - Translate nucleic acid sequences

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

       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).

       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.

EMBOSS 6.4.0                                       05/11/2012                                        TRANSEQ(1e)

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

       transeq - Translate nucleic acid sequences

Inputsection-sequenceseqallAdditionalsection-framelist
           Default value: 1

       -tablelist-regionsrange
           Regions to translate. If this is left blank, then the complete sequence is translated. A set of
           regions is specified by a set of pairs of positions. The positions are integers. They are separated
           by any non-digit, non-alpha character. Examples of region specifications are: 24-45, 56-78 1:45,
           67=99;765..888 1,5,8,10,23,45,57,99 Note: you should not try to use this option with any other frame
           than the default, -frame=1

       -trimboolean
           This removes all 'X' and '*' characters from the right end of the translation. The trimming process
           starts at the end and continues until the next character is not a 'X' or a '*' Default value: N

       -cleanboolean
           This changes all STOP codon positions from the '*' character to 'X' (an unknown residue). This is
           useful because some programs will not accept protein sequences with '*' characters in them. Default
           value: N

   Advancedsection-alternativeboolean
           The default definition of frame '-1' is the reverse-complement of the set of codons used in frame 1.
           (Frame -2 is the set of codons used by frame 2, similarly frames -3 and 3). This is a common
           standard, used by the Staden package and other programs. If you prefer to define frame '-1' as using
           the set of codons starting with the last codon of the sequence, then set this to be true. Default
           value: N

   Outputsection-outseqseqoutall

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

transeq-sequenceseqall [-framelist] [-tablelist] [-regionsrange] [-trimboolean] [-cleanboolean]
               -alternativeboolean-outseqseqoutalltranseq-help