Australia, who beat Wales 32-8 in Cardiff last weekend, made light of being a man down in the dramatic final minutes after replacement forward Will Skelton was sin-binned for dangerous play.
Two tries by exciting young centre Huw Jones in his first test start had raised the hopes of Scotland, who lost 35-34 to the Australians in last year's World Cup quarter-final.
Scotland led 17-10 at halftime.
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(Reporting by Rex Gowar, editing by Ed Osmond)
