Two of Cristiano Ronaldo's three goals were clearly off side, adding to Bayern's frustration and anger with the referee's decisions after being eliminated by a Spanish team for the fourth consecutive time in the competition.
Ancelotti made the case for video technology immediately after the game, saying the mistakes were unacceptable for the Champions League quarterfinals.
Bayern's head coach Carlo Ancelotti walks off the pitch after losing the Champions League quarterfinal second leg soccer match between Real Madrid and Bayern Munich with a 4-2 score at Santiago Bernabeu stadium in Madrid, Spain, Tuesday April 18, 2017.
"To score six goals against a team like Bayern Munich isn't easy, so we deserved to go through", added Ronaldo.
However, the loss of midfielder Arturo Vidal to a harsh red card in the 84th minute gave Madrid the advantage, which they ruthlessly pressed home during the additional 30 minutes, scoring three times without reply.
Their joint retirements signal the end of an era at Bayern, with time also running out for veteran wingers Franck Ribery, 34, and Arjen Robben, 33, who both have contracts until June 2018.
"Arturo's card was not a card and then two goals for Cristiano were offside", said the Italian.
Lewandowski's Bayern were beaten 2:4 away by Real Madrid on Tuesday after extra time, and were eliminated from the Champion's League.
Barcelona's hopes of staging another sensational Champions League comeback fell flat against a hardened Juventus side who held the Catalans to a 0-0 draw at the Nou Camp on Wednesday to reach the semi-finals 3-0 on aggregate.
"I'm not so sure about it, I have to be honest with you", Keane stated, as he was asked for his views on the VAR referral system that is now being tested ahead of its introduction to the game. "He should rewind and look back to the PSG game and see if he thinks the same about the referees". "There are decisions that have penalized us a lot".
"FC Bayern felt the action of the Spanish police [to be] completely misplaced and immeasurable. There are few players who can do what Ronaldo has done and we all know that".