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Pakistan manager Yawar Saeed said that Afridi had undergone MRI scans and the reports were awaited.
"But he is in pain and it seems unlikely he will be able to play. He has strained his calf muscle during the fourth one-dayer against Australia on Friday," he said.
Pakistan, who have already lost the series against Australia, desperately need a win to at least ensure a respectable scoreline of 2-3 in the five-match series.
Afridi has been Pakistan's best player in the series averaging 27 with the bat and having taken 10 wickets, the highest by any bowler in the series.
The Pakistan all-rounder claimed career-best figures of six for 38 as Australia could only manage a paltry 168 in an innings that lasted just 38.5 overs in their opening one-day international.
The world champions again lost their way in the middle overs, losing eight for 27 at one stage as they wilted against Afridi's spin.