sixpack - Display a DNA sequence with 6-frame translation and ORFs

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

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

       sixpack - Display a DNA sequence with 6-frame translation and ORFs

Inputsection-sequencesequenceAdditionalsection-tablelist
           Genetics code used for the translation

       -firstorfboolean
           Count the beginning of a sequence as a possible ORF, even if it's inferior to the minimal ORF size.
           Default value: Y

       -lastorfboolean
           Count the end of a sequence as a possible ORF, even if it's not finishing with a STOP, or inferior to
           the minimal ORF size. Default value: Y

       -mstartboolean
           Displays only ORFs starting with an M. Default value: N

   Outputsection-outfileoutfile-outseqseqoutall
           ORF sequence output

       -reverseboolean
           Display also the translation of the DNA sequence in the 3 reverse frames Default value: Y

       -orfminsizeinteger
           Minimum size of Open Reading Frames (ORFs) to display in the translations. Default value: 1

       -uppercaserange
           Regions to put in uppercase. If this is left blank, then the sequence case is left alone. 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

       -highlightrange
           Regions to colour if formatting for HTML. If this is left blank, then the sequence is left alone. A
           set of regions is specified by a set of pairs of positions. The positions are integers. They are
           followed by any valid HTML font colour. Examples of region specifications are: 24-45 blue 56-78
           orange 1-100 green 120-156 red A file of ranges to colour (one range per line) can be specified as
           '@filename'.

       -numberboolean
           Number the sequence at the beginning and the end of each line. Default value: Y

       -widthinteger
           Number of nucleotides displayed on each line Default value: 60

       -lengthinteger-margininteger
           Default value: 10

       -nameboolean
           Set this to be false if you do not wish to display the ID name of the sequence. Default value: Y

       -descriptionboolean
           Set this to be false if you do not wish to display the description of the sequence. Default value: Y

       -offsetinteger
           Number from which you want the DNA sequence to be numbered. Default value: 1

       -htmlboolean
           Default value: N

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

sixpack-sequencesequence [-tablelist] [-firstorfboolean] [-lastorfboolean] [-mstartboolean]
               -outfileoutfile-outseqseqoutall-reverseboolean-orfminsizeinteger-uppercaserange-highlightrange-numberboolean-widthinteger-lengthinteger-margininteger-nameboolean-descriptionboolean-offsetinteger-htmlbooleansixpack-help