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| 1st(1st leg) | Spartak Moskva | - | Fenerbahçe | 2:1 (0:0) | ||
| 2nd (2nd leg) | Fenerbahçe | - | Spartak Moskva | 1:1 (0:1) | ||
| 1st(1st leg): 21/08/2012 17:00 | 2nd (2nd leg): 29/08/2012 19:45 | Winner: Spartak Moskva | ||||
| 1st(1st leg) | FC Basel 1893 | - | CFR Cluj | 1:2 (1:0) | ||
| 2nd (2nd leg) | CFR Cluj | - | FC Basel 1893 | 1:0 (1:0) | ||
| 1st(1st leg): 21/08/2012 19:45 | 2nd (2nd leg): 29/08/2012 19:45 | Winner: CFR Cluj | ||||
| 1st(1st leg) | Helsingborgs IF | - | Celtic FC | 0:2 (0:1) | ||
| 2nd (2nd leg) | Celtic FC | - | Helsingborgs IF | 2:0 (1:0) | ||
| 1st(1st leg): 21/08/2012 19:45 | 2nd (2nd leg): 29/08/2012 19:45 | Winner: Celtic FC | ||||
| 1st(1st leg) | Bor. Mönchengladbach | - | Dinamo Kiev | 1:3 (1:2) | ||
| 2nd (2nd leg) | Dinamo Kiev | - | Bor. Mönchengladbach | 1:2 (0:0) | ||
| 1st(1st leg): 21/08/2012 19:45 | 2nd (2nd leg): 29/08/2012 19:45 | Winner: Dinamo Kiev | ||||
| 1st(1st leg) | FC København | - | Lille OSC | 1:0 (1:0) | ||
| 2nd (2nd leg) | Lille OSC | - | FC København | 2:0 (1:0, 1:0) aet | ||
| 1st(1st leg): 21/08/2012 19:45 | 2nd (2nd leg): 29/08/2012 19:45 | Winner: Lille OSC | ||||
| 1st(1st leg) | BATE Borisov | - | Ironi Kiryat Shmona | 2:0 (1:0) | ||
| 2nd (2nd leg) | Ironi Kiryat Shmona | - | BATE Borisov | 1:1 (0:0) | ||
| 1st(1st leg): 22/08/2012 19:45 | 2nd (2nd leg): 28/08/2012 19:45 | Winner: BATE Borisov | ||||
| 1st(1st leg) | AEL Limassol | - | RSC Anderlecht | 2:1 (1:0) | ||
| 2nd (2nd leg) | RSC Anderlecht | - | AEL Limassol | 2:0 (0:0) | ||
| 1st(1st leg): 22/08/2012 19:45 | 2nd (2nd leg): 28/08/2012 19:45 | Winner: RSC Anderlecht | ||||
| 1st(1st leg) | Dinamo Zagreb | - | NK Maribor | 2:1 (1:1) | ||
| 2nd (2nd leg) | NK Maribor | - | Dinamo Zagreb | 0:1 (0:1) | ||
| 1st(1st leg): 22/08/2012 19:45 | 2nd (2nd leg): 28/08/2012 19:45 | Winner: Dinamo Zagreb | ||||
| 1st(1st leg) | Sporting Braga | - | Udinese Calcio | 1:1 (0:1) | ||
| 2nd (2nd leg) | Udinese Calcio | - | Sporting Braga | 4:5 (1:0, 1:1, 1:1) pso | ||
| 1st(1st leg): 22/08/2012 19:45 | 2nd (2nd leg): 28/08/2012 19:45 | Winner: Sporting Braga | ||||
| 1st(1st leg) | Málaga CF | - | Panathinaikos | 2:0 (2:0) | ||
| 2nd (2nd leg) | Panathinaikos | - | Málaga CF | 0:0 (0:0) | ||
| 1st(1st leg): 22/08/2012 19:45 | 2nd (2nd leg): 28/08/2012 19:45 | Winner: Málaga CF | ||||
