McPromoter 006 -- The Markov Chain Promoter Prediction Server
Duke University, Institute for Genome Sciences and Policy

A statistical tool for the prediction of transcription start sites in eukaryotic DNA

NEW This is the McPromoter site at Duke. This is the 2006 fly version of McPromoter.
The 2002 versions, including human, are accessible here . NEW

McPromoter is a program aiming at the exact localization of eukaryotic RNA polymerase II transcription start sites. We currently actively develop specific models designed for D. melanogaster DNA. This service is free for non-commercial use and restricted to sequences up to 20 kb. The results will be mailed to you, so providing an email address is *mandatory*. We are always thankful for feedback -- especially if you obtain useful results...

Read the Q & A site first for information about the recent changes and instructions how to use McPromoter!
(Also contains links to the McPromoter papers and Uwe's thesis.)

Hint: If you don't get a prediction, have a look at the graphics that comes with the email to find optima that might have been missed by the pre-specified sensitivity level.

Submission by pasting a single sequence:

How to process your sequence ? forward only (default) forward & reverse

>
Sensitivity level ? Drosophila threshold
highest (65%)
 0.03
high (50%)
 0.035
medium (35%)
 0.0425
low (20%) 0.05

Email address

Sequence name

Upload:


... or Cut & Paste:
You should submit a single plain sequence using single letter nucleotides (A,C,G,T).
Warning: Long stretches of ambiguous symbols (> 50 bp) will be skipped; short stretches will be replaced randomly.

McPromoter was initially developed by Uwe Ohler while at the University of Erlangen-Nuremberg, with help from Georg Stemmer, Andreas Kulicke. The software is copyright © 1999--2001 by Uwe Ohler, University of Erlangen-Nuremberg (Chair for Pattern Recognition). All rights are reserved.
Problems, Comments? email to Uwe Ohler

Our favourite user comment:
"I'll have a McPromoter, a pack of enhancers and a TATA box, to go!"

Last update: 05.15.06