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RNA draw 1.1 b2 an integrated program for RNA secondary structure calculation and analysis under 32-bit Microsoft Windows
RNAstructure 5.7 a Windows program for the prediction and analysis of RNA secondary structure.
RnaViz 2.0.3 a user-friendly, portable, GUI program for producing publication-quality secondary structure drawings of RNA molecules.
loopDloop 2.07b a tool for drawing RNA secondary structures in molecular biology.
Circles 0.1.1 program for inferring RNA secondary structure using the comparative method.
SStructView 1.2.2 a Java applet for viewing RNA secondary structures and linking to multiple computational backends.
Vienna RNA Package 2.1.9 programs for the prediction and comparison of RNA secondary structures.
XRNA 1.2.0b a Java based suite of tools for the creation, annotation and display of RNA secondary structure diagrams.
PseudoViewer 3.0 a new XML web service and web application program for visualizing RNA secondary structures with pseudoknots.
OligoEngine 2.0 Researchers use the OligoEngine platform to design sequences and purchase oligos,
pknotsRG 1.3 a tool for folding RNA secondary structures, including the class of simple recursive pseudoknots.
RNAshapes 2.1.6 abstraction maps structures to a tree-like domain of shapes
miRanda 201008 an algorithm for finding genomic targets for microRNAs
RNAz 2.1 program for predicting structurally conserved and thermodynamically stable RNA secondary structures in multiple sequence alignments.
RnaFamily a simple software tools that enables to display all secondary structures of a family of RNA molecules.
RNApasta 1.01 A utility for collecting statistics from aligned and structurally annotated RNA sequences.
RnaDv 1_0 A Design and Visualization Tool for RNA Secondary Structure.
Assemble2 1.2 A graphical tool to construct and study RNA architectures
VARNA 3-93 Visualization Applet for RNA.
nocoRNAc 1.23 Software for non-coding RNA characterization.
RnallViewer 1.0.1 RNA Analysis Visualization Tool
Online Tools  
siDirect 2.0 highly effective, target specific siRNA online design site.
tRNAscan-SE 1.21 a program for improved detection of transfer RNA genes in genomic sequence.



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