The CIMS (Cyanobacterial ITS motif slicer) for molecular systematics

The 16S-23S rRNA Internal Transcribed Spacer (ITS) is a commonly employed taxonomic marker in cyanobacterial systematics. Due to numerous challenges articulating phylogenetic relationships within this ubiquitous, ancient lineage, polyphasic approach including 16S sequence data, ecology, morphology, and ITS secondary structure analysis has become the standard. In particular, motifs are being utilized erection of novel cryptic taxa. However, challenging as researchers must manually mine parse data visually find identify structures. This painstaking process deters from using motifs, may lead inconsistencies, rather dry, tedious enterprise. Thus, we present simple, user-friendly web-based application for help finding preparing most common (e.g., Box-B, D1-D1´, tRNAs, etc.). After extensive testing, note that recovered at ca. 97%. These can then be easily exported into Mfold or other similar folding packages. We hope will both provide valuable tool but also facilitate new discoveries allow greater consistency publishing comparisons. accessed www.phylo.dev.