NAME

       6ft - 6-frame translation of a DNA sequence into protein

SYNOPSIS

       6ft       [ -h ] [ -r | -s ] [ -W width ] < sequence_library

DESCRIPTION

       6ft  translates  all  six reading frames of a double-stranded DNA sequence into individual
       protein sequences.  Stop codons are represented by character "O".  The program  6ft  reads
       input fasta formatted DNA sequences from standard input. If the sequences are contained in
       a file, the input can be redirected from this file using the shell's input redirector  '<'
       as  shown in the synopsis section.  The sequence_library contains one or several sequences
       in Pearson/Fasta format.

       This program may be used for searching genomic or EST sequence databases  with  a  protein
       profile.  Better results are usually obtained by first converting the protein profile into
       a frame-search profile, and then searching a  2-frame  translation  of  the  DNA  sequence
       database  generated  with  pftools  program  2ft(1),  see manual pages of pftools programs
       ptof(1) and 2ft(1).

OPTIONS

       -h     Display usage help text.

       -r     Translate only reverse (antisense) strand.
              This option is mutualy exclusive with option -s.
              Default: translate both strands

       -s     Translate only sense strand.
              This option is mutualy exclusive with option -r.
              Default: translate both strands

       -W width
              Set sequence output width.
              The value of 'width' specifies how many residues will be output on one line.
              Type: integer
              Default: 60

EXAMPLES

       See manual pages of pftools program ptof(1).

SEE ALSO

       ptof(1), pfsearch(1), pfscan(1)

AUTHOR

       The pftools package was developed by Philipp Bucher.
       Any comments or suggestions should be addressed to <pftools@sib.swiss>.