Step 1: Input your job name help

Step 2: Input your sequence help

Limits: 150 bases for random stacking folding, 500 bases for helical distribution folding.

Step 3: Select the prediction method   help

Step 4: Input the minimum length of Helices   help

Step 5: Terminal GU pair of helices permitted or not?   help

Step 6: Input the number of RNA structures (between 1 and 1000)   help

Step 7: Select the free energy system   help
Step 8: Select processing for email address help

If your sequence is longer than 100 bases, please select batch processing, and a valid email address should be provided together. The results will be sent to you by email.
If your sequence is shorter than 100 bases, you can select either. The results will be returned to you immediately or via email. For immediate processing, email address is not required.

Notice! Users are requested to cite:

Li, W.J. and Wu, J.J.
Prediction of RNA secondary structure based on helical regions distribution.
Bioinformatics. 14: 700-706, 1998.

The free energy systems are based on:

Mathews, D.H., Sabina, J., Zuker, M. and Turner, D.H.
Expanded Sequence Dependence of Thermodynamic Parameters Improves Prediction of RNA Secondary Structure
J. Mol. Biol. 288: 911-940, 1999.

Turner, D.H., Sugimoto, N., Jaeger, J.A., Longfellow, C.E., Freier, S.M. and Kierzek, R.
Improved Parameters for Prediction of RNA Structure.
Cold Spring Harbor Symp. Quant. Biol. 52: 123-133, 1987.