Rnall (RNA Local secondary structure prediction by Local symmetric mapping) predicts local RNA secondary structures for multiple sequences in the Fasta format or scans local secondary structure of a single genomic sequence in the Fasta format. Rnall scans the RNA sequence with a sliding window and extracts all LSS with sizes no longer than a window size using dynamic programming. Rnall has various potential applications, such as local secondary structure prediction in RNA molecules and RNA motif prediction (such as rho-independent/intrinsic terminator, riboswitch, siRNA, and viral RNA motifs).
Rnall is written in C/C++, and is available for both GNU/Linux and windows at the present time.
Rnall was written by Xiu-Feng (Henry) Wan. The software Rnall is freely available for academic or non-commercial purpose HERE.
Current versions of Rnall are available for both Windows and GNU/Linux system. If you need the versions for different operating systems, please contact Xiu-Feng (Henry) Wan by wanx@missouri.edu.
If you have bug reports, questions, comments or suggestions, please contact Xiu-Feng (Henry) Wan by e-mail: wanx@missouri.edu.
If you wish to acknowledge the use of Rnall in a publication, you should cite: