COGNATE: Comparative Gene Annotation characterizatorCOGNATE is a tool to simultaneously analyze a given protein-coding gene annotation and the corresponding assembled sequences of a genome. It allows a quick and easy extraction of basic genome feature and gene repertoire data.
AliGROOVE determines and visualizes the content of potentially randomized sequence similarities and alignment ambiguities in multiple sequence alignments. In addition, AliGROOVE can tag potentially unreliable branches of given topologies (Kück et al. submitted).