MotifDetector

Introduction

MotifDetector is designed to find motifs in multiple DNA sequences. It is written in Java.

The button "Generate input" will generate a set of random sequences as input. This will update the original contents in the input box.
The button "Find motif" will start the motif detector. The buttons will turn to gray during the computation; And the result will appear in the output box.
When "Find single motif" is checked, the program will stop as soon as it finds a specified (l,d) motif. Otherwise, it will keep running until completeing the specified trials, and will report at most 10 motifs.
You can input your own sequences. Copy and paste your sequences into the input box. (To copy, try to highlight the data and press ctrl-c. To paste, move the cursor to the input area and press ctrl-v.) Note that the sequences should be in FASTA format.

ACTIN, CYTOPLASMIC BETA, PROMOTER AND FIRST INTRON contains a (17,0) motif.
ACTIN, CYTOPLASMIC BETA, 3'UTR AND 3'FLANK contains a (13,0) motif, 2 (13,1) motifs, a (13,2) motif and a (12,1) motif.
C-FOS ONCOGENE, FIRST INTRON contains a (13,1) motif.
HEDGEHOG MORPHOGEN PROTEIN 5'UTR contains a (11,2) motif.