Please click on the appropriate interface below to get detailed help.

Interfaces Running Secondary Structure Prediction:

• Predict a Secondary Structure
• Predict a Secondary Structure Common to Two Sequences
• Predict a Secondary Structure Common to Three or More Sequences
• Predict a Bimolecular Secondary Structure

Interfaces Running a Specific Algorithm:

• AllSub
• bifold
• bipartition
• CircleCompare
• ct2dot
• dot2ct
• draw
• DuplexFold
• Dynalign
• efn2
• EnsembleEnergy
• Fold
• MaxExpect
• Multilign
• oligoscreen
• OligoWalk
• partition
• PARTS
• ProbablePair
• ProbKnot
• RemovePseudoknots
• scorer
• stochastic
• TurboFold

Interface Limitations

Some interfaces have limitations on the size of the data that is allowed for input. For details on these limitations, please see the Limitations page.

Security

Please note that input data and results on the servers are not encrypted or secured by sessions. Anyone with the URL may view a particular set of results. Also note that a given set of results only persists on the server for 30 days. As directory names are randomly generated, the chance of randomly guessing the name of any particular results folder is relatively small. All programs can be downloaded and run locally if greater security is required.

Contacting Us

To ask questions, make comments, report bugs, or offer suggestions on the RNAstructure Web Servers, please email David H. Mathews.

Referencing the Server

Please cite use of the RNAstructure Web Server with:

Reuter, J. S., & Mathews, D. H. (2010). RNAstructure: software for RNA secondary structure prediction and analysis. BMC Bioinformatics. 11,129.