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

# trimseq(1e)

Remove unwanted characters from start and end of sequence(s)

## NAME

trimseq - Remove unwanted characters from start and end of sequence(s)

## SYNOPSIS

**trimseq** **-sequence** *seqall* \[**-window** *integer*\] \[**-percent** *float*\] \[**-strict** *boolean*\] \[**-star** *boolean*\] **-left** *boolean* **-right** *boolean* **-outseq** *seqoutall*

**trimseq** **-help**

## DESCRIPTION

**trimseq** is a command line program from EMBOSS (“the European Molecular Biology Open Software Suite”). It is part of the "Edit" command group(s).

## OPTIONS

### Input section

- **-sequence** *seqall*

  ### Additional section

- **-window** *integer*

  This determines the size of the region that is considered when deciding whether the percentage of ambiguity is greater than the threshold. A value of 5 means that a region of 5 letters in the sequence is shifted along the sequence from the ends and trimming is done only if there is a greater or equal percentage of ambiguity than the threshold percentage. Default value: 1

- **-percent** *float*

  This is the threshold of the percentage ambiguity in the window required in order to trim a sequence. Default value: 100.0

- **-strict** *boolean*

  In nucleic sequences, trim off not only N's and X's, but also the nucleotide IUPAC ambiguity codes M, R, W, S, Y, K, V, H, D and B. In protein sequences, trim off not only X's but also B and Z. Default value: N

- **-star** *boolean*

  In protein sequences, trim off not only X's, but also the \*'s Default value: N

### Advanced section

- **-left** *boolean*

  Default value: Y

- **-right** *boolean*

  Default value: Y

### Output section

- **-outseq** *seqoutall*

  ## 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

trimseq 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.