RNAsubopt

RNAsubopt 2.1.8: calculate suboptimal secondary structures of RNAs. reads RNA sequences from stdin and (in the default −e mode) calculates all suboptimal secondary structures within a user defined energy range above the minimum free energy (mfe). It prints the suboptimal structures in dot−bracket notation followed by the energy in kcal/mol to stdout. Be careful, the number of structures returned grows exponentially with both sequence length and energy range. ...