Mourinho said: "I would prefer to beat Wigan than Liverpool, because to be first or second (in the Champions League group) has no consequences.
"Beating Wigan (on Saturday) means three more points in the direction of the Premiership.
"In the Premiership the best team wins. In the Champions League, you need luck so not always the best team wins."
Mourinho added: "Liverpool had luck against Chelsea by scoring that goal in the semi-final last year.
"In the group phases, the best team goes through because if you make a mistake in the six matches, you don't die - you have a chance to get points in the other matches.
"Knockout stage is more difficult to control your destiny. I cannot say Chelsea are the best team in Europe at the moment and I can't say any other team is either.
"There is a group of six, seven, eight strong teams with the conditions to win the competition. But I would not swap my squad."