---
name: "checktrans"
section: "1e"
platform: "linux"
package: "emboss"
version: "6.6.0+dfsg-15"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/checktrans"
---

# checktrans(1e)

Reports STOP codons and ORF statistics of a protein

## NAME

checktrans - Reports STOP codons and ORF statistics of a protein

## SYNOPSIS

**checktrans** **-sequence** *seqall* **-orfml** *integer* \[**-addlast** *boolean*\] **-outfile** *outfile* **-outseq** *seqoutall* **-outfeat** *featout*

**checktrans** **-help**

## DESCRIPTION

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

## OPTIONS

### Input section

- **-sequence** *seqall*

  ### Required section

- **-orfml** *integer*

  Default value: 100

### Additional section

- **-addlast** *boolean*

  An asterisk in the protein sequence indicates the position of a STOP codon. Checktrans assumes that all ORFs end in a STOP codon. Forcing the sequence to end with an asterisk, if there is not one there already, makes checktrans treat the end as a potential ORF. If an asterisk is added, it is not included in the reported count of STOPs. Default value: Y

### Output section

- **-outfile** *outfile*

  - **-outseq** *seqoutall*

  Sequence file to hold output ORF sequences

- **-outfeat** *featout*

  File for output features

## BUGS

Bugs can be reported to the Debian Bug Tracking system (http://bugs.debian.org/emboss), or directly to the EMBOSS developers (http://sourceforge.net/tracker/?group\_id=93650&atid=605031).

## SEE ALSO

checktrans is fully documented via the **tfm**(1) system.

## AUTHOR

**Debian Med Packaging Team** \<debian-med-packaging@lists.alioth.debian.org\>

Wrote the script used to autogenerate this manual page.

## COPYRIGHT

This manual page was autogenerated from an Ajax Control Definition of the EMBOSS package. It can be redistributed under the same terms as EMBOSS itself.