Now this isn't a very clear video but I least I found it.. is it my imagination or when Janeway says, "you know the way to my ready room" to Kashyk does Chakotay look a little.. perturbed? He glances at her as she leaves and I wonder if he's thinking, "she never talks to ME like that.."
Video starts just before this scene.. I think it's a lot clearer on dvd though.
(When I embed it it doesn't take you to this point but starts at the beginning.. so here it is as a link)