- Human AU-rich element-containing mRNA database
- TransTerm - a database to aid the analysis of regulatory sequences in mRNAs
- ACUTS - compilation of Ancient Conserved UnTranslated Sequences
- UNAFold - Unified Nucleic Acid Folding and hybridization package
- FoldAlign - RNA Structure and Sequence alignment
- paRNAss - Prediction of Alternating RNA Secondary Structures
- Nucleic sequence analysis
- The RNA World Web Site
- RSAT - Regulatory Sequence Analysis Tools
- caRNAc - RNA structure inference
- Riboswitch Finder
- Prediction of RNA secondary structures with pseudoknot
- Pfold