Murlet is a practical alignment tool for structural RNA sequences. It is based on the Sankoff algorithm and uses an efficient scoring system that considerably reduces the time and space requirements without degrading alignment quality.
Murlet: a practical multiple alignment tool for structural RNA sequences.
Hisanori Kiryu, Yasuo Tabei, Taishin Kin, and Kiyoshi Asai
Supplementary Text: murlet_suppl.pdf (76 KB)
Dataset (tar gz format)
C++ Source Code
A summary of experimental results presented in our paper.
For more details, see the above reference.