What is the most convenient tool to predict the secondary structure for RNA and also for visualizing tools for the structure?

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MD MOE RMSD

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fatal error

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fatal error

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Jean-Christophe Paillart

Hi. You may use Mfold, RNA structure ... or a soft developed by a friend of mine "assemble" at IBMC (http://bioinformatics.org/assemble/). You may even interact with him if you have any questions ...

have fun. JC

Leszek Blaszczyk

RNAstructure for prediction and varna for visualization.

Juan Diego Gaitán-Espitia

Hi Shahed, I would suggest You try with ARWEN, tRNA detection in metazoan mitochondrial sequences,,, or with tRNAscan-SE Search Server http://lowelab.ucsc.edu/tRNAscan-SE/

Stefan Janssen

You might find our RNA Studio helpful http://bibiserv.cebitec.uni-bielefeld.de/bibi/Tools_RNA_Studio.html for predicting secondary structures (even with pseudoknots) via a web submission. For visualization, I'd like to second Leszek and recommend http://varna.lri.fr/