Are there any RepBase alternatives for genome-wide repeat element annotations?
Dfam has recently launched a sister resource, Dfam_consensus, whose stated aim is to replace RepBase. From the annoucement:


  Dfam_consensus provides an open framework for the community to store both seed alignments (multiple alignments of instances for a given family) and the corresponding consensus sequence model.


Both RepeatMasker and RepeatModeler have been updated to support Dfam_consensus.

I haven’t tried it yet but it looks promising.