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

# prophecy(1e)

Create frequency matrix or profile from a multiple alignment

## NAME

prophecy - Create frequency matrix or profile from a multiple alignment

## SYNOPSIS

**prophecy** **-sequence** *seqset* **-type** *list* **-datafile** *matrixf* **-name** *string* **-threshold** *integer* **-open** *float* **-extension** *float* **-outfile** *outfile*

**prophecy** **-help**

## DESCRIPTION

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

## OPTIONS

### Input section

- **-sequence** *seqset*

  - **-type** *list*

  Default value: F

- **-datafile** *matrixf*

  Default value: @($(type) = G: Epprofile H: EBLOSUM62 F: EBLOSUM62)

### Required section

- **-name** *string*

  Default value: mymatrix

### Profile type specific options

- **-threshold** *integer*

  Default value: 75

### Gap options

- **-open** *float*

  Default value: 3.0

- **-extension** *float*

  Default value: 0.3

### Output section

- **-outfile** *outfile*

  ## 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

prophecy 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.