And isn't some of it evolutionary leftovers that no longer does what it was originally useful for but has been commandeered by the genome to do something else? I.e., repurposed junk? Or am I confusing two different things?
“Junk,” by definition, must be non-coding, non-regulating and non-conserved. That still covers a lot of DNA.
If it has been repurposed, it can’t be considered junk.