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

# fuzztran(1e)

Search for patterns in protein sequences (translated)

## NAME

fuzztran - Search for patterns in protein sequences (translated)

## SYNOPSIS

**fuzztran** **-sequence** *seqall* **-pattern** *pattern* \[**-frame** *list*\] \[**-table** *list*\] **-outfile** *report*

**fuzztran** **-help**

## DESCRIPTION

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

## OPTIONS

### Input section

- **-sequence** *seqall*

  - **-pattern** *pattern*

  The standard IUPAC one-letter codes for the amino acids are used. The symbol 'x' is used for a position where any amino acid is accepted. Ambiguities are indicated by listing the acceptable amino acids for a given position, between square parentheses '\[ \]'. For example: \[ALT\] stands for Ala or Leu or Thr. Ambiguities are also indicated by listing between a pair of curly brackets '{ }' the amino acids that are not accepted at a gven position. For example: {AM} stands for any amino acid except Ala and Met. Each element in a pattern is separated from its neighbor by a '-'. (Optional in fuzztran) Repetition of an element of the pattern can be indicated by following that element with a numerical value or a numerical range between parenthesis. Examples: x(3) corresponds to x-x-x, x(2,4) corresponds to x-x or x-x-x or x-x-x-x. When a pattern is restricted to either the N- or C-terminal of a sequence, that pattern either starts with a '\<' symbol or respectively ends with a '\>' symbol. A period ends the pattern. (Optional in fuzztran). For example, \[DE\](2)HS{P}X(2)PX(2,4)C

### Additional section

- **-frame** *list*

  Default value: 1

- **-table** *list*

  ### Output section

- **-outfile** *report*

  ## 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

fuzztran 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.