Defending champions Atletico Madrid could face Chelsea or Liverpool in the Europa League last 32 after finishing runners-up in Group B to Plzen.
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Atletico were beaten 1-0 by the Czechs, who as group winners join the two English clubs among the 16 seeds.
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Five places in the knockout stage were available from the final group games.
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Tottenham and Liverpool progressed while Steaua Bucharest and Stuttgart advanced from Group E and Basel earned the point needed at Genk to join them.
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The 12 Europa League group winners are seeded for the knockout stage draw which will take place on 20 December.
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Eight teams drop into the
Europa League from the Champions League, all of whom finished third in that competition's group stage.
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Uefa's website states that the
"four best third-ranked teams in the Champions League group stage" will be seeded.