stranslate1
Translate a nucleic acid sequence to protein orfs
Usage
stranslate [-options]
<seqfile>
Overview
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.
Options
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).
Note to debian users
The original program name is translate. It was renamed to stranslate to avoid conflict with another program of the same name.
Releases
11 releases since Debian 3.0 (Woody); the text changed 1 time.
--crick since Debian 4.0 (Etch);
--tetrahymena since Debian 4.0 (Etch);
--watson since Debian 4.0 (Etch);
-a since Debian 4.0 (Etch);
-h since Debian 4.0 (Etch);
-l since Debian 4.0 (Etch);
-m since Debian 4.0 (Etch);
-o since Debian 4.0 (Etch);
-q since Debian 4.0 (Etch);
-s since Debian 4.0 (Etch).
-browser until Debian 3.0 (Woody);
-elvi until Debian 3.0 (Woody);
-escape-url-args until Debian 3.0 (Woody);
-help until Debian 3.0 (Woody);
-p0rn until Debian 3.0 (Woody);
-qquote until Debian 3.0 (Woody);
-quiet until Debian 3.0 (Woody);
-version until Debian 3.0 (Woody).