syco
Function
Description
syco is a frame-specific gene finder that tries to recognize
protein coding sequences by virtue of the similarity of their codon
usage to a codon frequency table.
syco finds regions of each forward reading frame of a nucleic
acid sequence that show strong codon preference. syco is useful
for locating protein coding regions, determining their reading frames,
estimating the level of expression of a gene, and locating nucleic
acid sequencing errors.
It is essential to use the correct codon usage file for the species.
Usage
Command line arguments
Input file format
syco reads a nucleic acid sequence USA.
Output file format
Data files
Codon usage table files are read in.
Notes
None.
References
None.
Warnings
The default codon usage table file is the human Ehum.cut
- caution: this may well not be the correct species.
Diagnostic Error Messages
None.
Exit status
It always exits with status 0.
Known bugs
None.
wobble does the analysis of the third base.
Author(s)
History
Target users
Comments