I noticed MEGAN was misreading some genbank names, annotating them as ‘root’ instead of the species name (Girella sp.). The funny thing is it seems to work for some IDs that contain similar key words but there’s obviously something in a couple of these names that is causing it to be thrown off. Perhaps it’s the term ‘mitochondrial’? We didn’t have this error with this same sequence on a previous version of MEGAN.
Version MEGAN Community Edition (version 6.12.1, built 17 Jul 2018)