RNAdistance
Input format
RNAdistance requires one input file with the following structure: 1st line: can be a comment line like in Fasta, begins with '>' 2nd line: sequence 3rd line: first secondary structure in dot-bracket notation 4th line: second secondary structure in dot-bracket notation ... nth line: another sequence ...
Several different RNA secondary structures can be specified. The input has a Fasta-like structure but with secondary structure information.
Outputs