News: based on ViennaRNA-1.5 Try the new SVG plot if your browser supports it! You can now submit sequences up to 4000 as batch jobs.
http://beck2.med.harvard.edu/var/www/html/RNAfold/RNAfold_input_form.html http://beck2.med.harvard.edu/cgi-bin/RNAfold/RNAfold.cgi for the cgi Type in your sequence Ts will be automatically replaced by Us. Any symbols except AUCGTXKI will be interpreted as nonbonding bases. Any non-alphabetic characters will be removed. Maximum sequence length for immediate jobs is 300. Sequences up to 4000 (mfe only) or 3000 (pair probabilities) will be queued as batch jobs
Choose Fold Algorithm minimum free energy only partition function and pair probabilities use RNA parameters old RNA parameters use DNA parameters
no special tetraloopsno dangling end energiesno GU pairs at the end of helicesavoid isolated base pairs Should we produce a mountain plot of the structure? plot View a plot of the mfe structure inline using an SVG image (may require plugin) SVG or using the SStructView java applet? SSview Email address. For batch jobs (over 300) this is mandatory, so we can notify you when the job has completed.
SStructView