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With a ninth-straight league title already sewn up, the focus for Bayern was all about Lewandowski's pursuit of a notable milestone that was set back in the 1971-72 season.
Lewandowski had closed in on the magical number with a hat-trick against Borussia Monchengladbach last time out, helping Hansi Flick's side celebrate being crowned champions in style with a 6-0 win at the Allianz Arena.
The Poland international matched the legendary Muller's haul thanks to a first-half penalty awarded following the involvement of the video assistant referee.
On-field official Florian Badstubner deemed Lukas Kubler had pulled down Thomas Muller at a corner after receiving a recommendation to review the incident, allowing Bayern's number nine to reach 40 from the spot.