stranslate - translate a nucleic acid sequence to protein ORFs
stranslate [-options] <seqfile>
This manual page documents briefly the
stranslate command.
stranslate is a program that creates a file of all possible protein ORFs,
given an input nucleic acid sequence.
Available options:
- -a
- Translate in full, with stops; no individual ORFs.
- -h
- Help; show brief usage and version info.
- -l <minlen>
- Report only ORFs greater than minlen (default 20).
- -m
- Require ORFs to start with AUG/Met.
- -o <outfile>
- Save results in output file.
- -q
- Quiet; silence banner, for piping or redirection.
- -s <stopchar>
- With -a, set stop character to
<stopchar>.
- --tetrahymena
- Use the Tetrahymena/Oxytricha genetic code.
- --watson
- Only do the top strand (frames 0/1/2).
- --crick
- Only do the bottom strand (frames 3/4/5).
The original program name is
translate. It was renamed to
stranslate to avoid conflict with another program of the same name.
afetch(1),
alistat(1),
compalign(1),
compstruct(1),
revcomp(1),
seqsplit(1),
seqstat(1),
sfetch(1),
shuffle(1),
sindex(1),
sreformat(1),
weight(1).
Sean Eddy
HHMI/Department of Genetics
Washington University School of Medicine
4444 Forest Park Blvd., Box 8510
St Louis, MO 63108 USA
Phone: 1-314-362-7666
FAX : 1-314-362-2157
Email: [email protected]
This manual page was written by Nelson A. de Oliveira <[email protected]>,
for the Debian project (but may be used by others).