They were her subordinates.
Their fair comeuppence started off with being her nicely treated crew, to being slave labour a couple inches form being lodged into a stasis tube for the next 50 years.
By the way, it wasn't that Sisko did a bad thing, it's that he owned it. He did a bad thing he could live with. Janeway never did a bad thing and never had to worry about repentance or redemption because no matter what she did, how ####ed up she got, by the end credits or the next episode, everything morally ambiguous was upside down and back to front until she was lily white because her soul was made of teflon.