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| 1st(1st leg) | Pyunik FC | - | FC Sheriff | 0:0 (0:0) | ||
| 2nd (2nd leg) | FC Sheriff | - | Pyunik FC | 2:0 (1:0) | ||
| 1st(1st leg): 11/07/2006 15:00 | 2nd (2nd leg): 18/07/2006 18:00 | Winner: FC Sheriff | ||||
| 1st(1st leg) | FC TVMK | - | FH Hafnarfjörður | 2:3 (0:1) | ||
| 2nd (2nd leg) | FH Hafnarfjörður | - | FC TVMK | 1:1 (0:0) | ||
| 1st(1st leg): 11/07/2006 16:00 | 2nd (2nd leg): 19/07/2006 20:15 | Winner: FH Hafnarfjörður | ||||
| 1st(1st leg) | Sioni Bolnisi | - | FK Baku | 2:0 (0:0) | ||
| 2nd (2nd leg) | FK Baku | - | Sioni Bolnisi | 1:0 (0:0) | ||
| 1st(1st leg): 11/07/2006 16:00 | 2nd (2nd leg): 18/07/2006 15:00 | Winner: Sioni Bolnisi | ||||
| 1st(1st leg) | KF Elbasani | - | FK Ekranas | 1:0 (0:0) | ||
| 2nd (2nd leg) | FK Ekranas | - | KF Elbasani | 3:0 (1:0) | ||
| 1st(1st leg): 11/07/2006 16:30 | 2nd (2nd leg): 18/07/2006 16:00 | Winner: FK Ekranas | ||||
| 1st(1st leg) | Birkirkara FC | - | B36 Tórshavn | 0:3 (0:2) | ||
| 2nd (2nd leg) | B36 Tórshavn | - | Birkirkara FC | 2:2 (1:0) | ||
| 1st(1st leg): 11/07/2006 17:30 | 2nd (2nd leg): 19/07/2006 19:00 | Winner: B36 Tórshavn | ||||
| 1st(1st leg) | F91 Dudelange | - | FK Rabotnički | 0:1 (0:0) | ||
| 2nd (2nd leg) | FK Rabotnički | - | F91 Dudelange | 0:0 (0:0) | ||
| 1st(1st leg): 11/07/2006 18:00 | 2nd (2nd leg): 18/07/2006 19:00 | Winner: FK Rabotnički | ||||
| 1st(1st leg) | Linfield FC | - | ND Gorica | 1:3 (0:2) | ||
| 2nd (2nd leg) | ND Gorica | - | Linfield FC | 2:2 (1:1) | ||
| 1st(1st leg): 11/07/2006 18:00 | 2nd (2nd leg): 19/07/2006 19:05 | Winner: ND Gorica | ||||
| 1st(1st leg) | MyPa Anjalankoski | - | The New Saints | 1:0 (0:0) | ||
| 2nd (2nd leg) | The New Saints | - | MyPa Anjalankoski | 0:1 (0:1) | ||
| 1st(1st leg): 12/07/2006 17:00 | 2nd (2nd leg): 19/07/2006 19:30 | Winner: MyPa Anjalankoski | ||||
| 1st(1st leg) | FK Liepājas Metalurgs | - | FK Aktobe | 1:0 (1:0) | ||
| 2nd (2nd leg) | FK Aktobe | - | FK Liepājas Metalurgs | 1:1 (1:0) | ||
| 1st(1st leg): 12/07/2006 18:00 | 2nd (2nd leg): 19/07/2006 16:00 | Winner: FK Liepājas Metalurgs | ||||
| 1st(1st leg) | Shakhter Soligorsk | - | Široki Brijeg | 0:1 (0:1) | ||
| 2nd (2nd leg) | Široki Brijeg | - | Shakhter Soligorsk | 1:0 (1:0) | ||
| 1st(1st leg): 12/07/2006 18:00 | 2nd (2nd leg): 19/07/2006 19:30 | Winner: Široki Brijeg | ||||
| 1st(1st leg) | Cork City | - | Apollon Limassol | 1:0 (0:0) | ||
| 2nd (2nd leg) | Apollon Limassol | - | Cork City | 1:1 (0:0) | ||
| 1st(1st leg): 12/07/2006 19:30 | 2nd (2nd leg): 19/07/2006 19:00 | Winner: Cork City | ||||
