## RSAT - Help about random-motif

## Author

2008 by Matthieu Defrance

## Description

Random motif generator.Motifs are described as position-specific scoring matrix (PSSM), where each column represents a position within the motif, and each ro a residue (A, C, G or T). The cells contain relative or absolute frequencies depending on the selected options.

The motifs are generated by selecting at random, for each column, one "conserved" residue (the degree of conservation (

c) is a value between 0 and 1 specified by the user). The remaining frequencies are equaly distributed between the three remaining residues (f)._{i}=(1-c)/3All cell values can be multiplied by a user-specific value (

m) and rounded in order to obtain count matrices (with occurrences rather than relative frequencies).## Options

Conservation (: relative frequency of the "conserved" conserved residue of each column.c)

Multiplier (. A number by which each cell value is multiplied.m)

Round (Boolean). If true, absolute frequencies are rounded to return integer values.

Motif number (. Number of motifs (matrices) to be generated.m)

## For information, contact Matthieu Defrance