They also use string similarity algorithms to determine morphological order, so we don't strictly know the order at the most precise level.
Of course, this is all very controversial, some people think we're always changing gradually and some people think we always change rapidly. I think they're both wrong--sometimes organisms change rapidly, and sometimes they change rapidly, depending on environmental factors.
disclaimer: I'm no expert, I've just looked at it from an algorithmic view and read some taxonomical texts as I had the same question as you.