eggNOG mapping files do not separate prokaryotic and eukaryotic NOGs

Hi Daniel,
I am using acc2eggnog-Oct2016X.abin mapping files. I need COGs corresponding to bacterial reads only but MEGAN provides COGs for all. I have also downloaded the files from EGGNOG server and tried to match but IDs are quite different. I am not able to compare as well. Please help me out.
Thank you.