Detailed definitions of all features (free energy of the tiRNA monomer (EA), free energy of the tiRNA-tiRNA dimer (EAA), free energy of the tiRNA-UTR dimer (EAB), formation energy of the tiRNA-tiRNA dimer (FAA), formation energy of the tiRNA-UTR dimer (FAB), total seed energy (ETS), intermolecular binding seed energy (EIS), probability availability of UTR (PAU), RBS coverage of length 5 (RBS5), RBS coverage of length 11 (RBS11), paired termini (PT), and the length of the translation inhibiting RNA (tiRNA) (L)) used in the initial <i>in silico</i> screening of the tiRNA library for repression of a target untranslated region (UTR).

This UTR contains a ribosome binding site (RBS) and controls the coding DNA sequence (CDS) of the reporter protein. All binding probabilities of monomers and dimers are respectively derived from base pairing probability matrices estimated by RNAfold [45] and RNAcofold [46].