Consistency of annotated gene structures in several species pan-genomes as reported by Mugsy-Annotator. Each row provides the fraction of aligned gene sets in each class of anomaly and groups with no identified inconsistencies (blue). The number of genomes compared and their average MUMi similarity  distance is also provided, ranging from zero for most similar to 1, least similar. The bottom three rows describe three versions of annotations from the case study of Neisseria meningitidis (Nmen) . The last version (Nmen verC) demonstrates improvements in consistency using alternative annotations suggested by Mugsy-Annotator.