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| I | Mika FC | - | BSC Young Boys | 1:3 (0:1) | ||
| V | BSC Young Boys | - | Mika FC | 1:0 (0:0) | ||
| I: 13.07.2006 17:00 | V: 27.07.2006 19:30 | Campeones: BSC Young Boys | ||||
| I | FK Karvan | - | Spartak Trnava | 1:0 (0:0) | ||
| V | Spartak Trnava | - | FK Karvan | 0:1 (0:1) | ||
| I: 13.07.2006 17:00 | V: 27.07.2006 19:00 | Campeones: FK Karvan | ||||
| I | HNK Orašje | - | NK Domžale | 0:2 (0:2) | ||
| V | NK Domžale | - | HNK Orašje | 5:0 (3:0) | ||
| I: 13.07.2006 17:00 | V: 27.07.2006 20:15 | Campeones: NK Domžale | ||||
| I | FK Ventspils | - | GÍ Gøta | 2:1 (1:1) | ||
| V | GÍ Gøta | - | FK Ventspils | 0:2 (0:0) | ||
| I: 13.07.2006 17:30 | V: 27.07.2006 19:00 | Campeones: FK Ventspils | ||||
| I | FC Levadia | - | Haka Valkeakoski | 2:0 (2:0) | ||
| V | Haka Valkeakoski | - | FC Levadia | 1:0 (1:0) | ||
| I: 13.07.2006 17:30 | V: 27.07.2006 18:00 | Campeones: FC Levadia | ||||
| I | Zagłębie Lubin | - | Dinamo Minsk | 1:1 (0:0) | ||
| V | Dinamo Minsk | - | Zagłębie Lubin | 0:0 (0:0) | ||
| I: 13.07.2006 17:30 | V: 27.07.2006 17:30 | Campeones: Dinamo Minsk | ||||
| I | Dinamo Tiranë | - | CSKA Sofia | 0:1 (0:0) | ||
| V | CSKA Sofia | - | Dinamo Tiranë | 4:1 (1:1) | ||
| I: 13.07.2006 17:30 | V: 27.07.2006 19:00 | Campeones: CSKA Sofia | ||||
| I | HJK Helsinki | - | Drogheda United | 1:1 (0:1) | ||
| V | Drogheda United | - | HJK Helsinki | 3:1 (0:1, 1:1) pró. | ||
| I: 13.07.2006 18:00 | V: 27.07.2006 20:45 | Campeones: Drogheda United | ||||
| I | Jeunesse Esch | - | Skonto FC | 0:2 (0:0) | ||
| V | Skonto FC | - | Jeunesse Esch | 3:0 (2:0) | ||
| I: 13.07.2006 18:00 | V: 27.07.2006 17:00 | Campeones: Skonto FC | ||||
| I | FC Ameri | - | FC Banants | 0:1 (0:1) | ||
| V | FC Banants | - | FC Ameri | 1:2 (1:0) | ||
| I: 13.07.2006 18:00 | V: 27.07.2006 16:00 | Campeones: FC Ameri | ||||
| I | BATE Borisov | - | Nistru Otaci | 2:0 (0:0) | ||
| V | Nistru Otaci | - | BATE Borisov | 0:1 (0:1) | ||
| I: 13.07.2006 18:00 | V: 27.07.2006 18:00 | Campeones: BATE Borisov | ||||
| I | FC Artmedia Bratislava | - | WIT Georgia | 2:0 (1:0) | ||
| V | WIT Georgia | - | FC Artmedia Bratislava | 2:1 (1:0) | ||
| I: 13.07.2006 18:00 | V: 27.07.2006 16:00 | Campeones: FC Artmedia Bratislava | ||||
| I | NK Varteks | - | KF Tiranë | 1:1 (0:1) | ||
| V | KF Tiranë | - | NK Varteks | 2:0 (1:0) | ||
| I: 13.07.2006 18:00 | V: 27.07.2006 17:00 | Campeones: KF Tiranë | ||||
| I | FK Sarajevo | - | FC Rànger's | 3:0 (3:0) | ||
| V | FC Rànger's | - | FK Sarajevo | 0:2 (0:2) | ||
| I: 13.07.2006 18:00 | V: 27.07.2006 18:00 | Campeones: FK Sarajevo | ||||
| I | Vardar Skopje | - | KSV Roeselare | 1:2 (1:2) | ||
| V | KSV Roeselare | - | Vardar Skopje | 5:1 (3:0) | ||
| I: 13.07.2006 18:00 | V: 27.07.2006 20:00 | Campeones: KSV Roeselare | ||||
| I | Gefle IF | - | Llanelli AFC | 1:2 (1:0) | ||
| V | Llanelli AFC | - | Gefle IF | 0:0 (0:0) | ||
| I: 13.07.2006 19:00 | V: 27.07.2006 20:30 | Campeones: Llanelli AFC | ||||
| I | Randers FC | - | ÍA Akranes | 1:0 (0:0) | ||
| V | ÍA Akranes | - | Randers FC | 2:1 (1:1) | ||
| I: 13.07.2006 19:00 | V: 27.07.2006 20:00 | Campeones: Randers FC | ||||
| I | Lyn Oslo | - | FC Flora | 1:1 (1:0) | ||
| V | FC Flora | - | Lyn Oslo | 0:0 (0:0) | ||
| I: 13.07.2006 19:00 | V: 27.07.2006 17:45 | Campeones: FC Flora | ||||
| I | IFK Göteborg | - | Derry City | 0:1 (0:0) | ||
| V | Derry City | - | IFK Göteborg | 1:0 (1:0) | ||
| I: 13.07.2006 19:00 | V: 27.07.2006 20:30 | Campeones: Derry City | ||||
| I | Újpest FC | - | FC Vaduz | 0:4 (0:2) | ||
| V | FC Vaduz | - | Újpest FC | 0:1 (0:0) | ||
| I: 13.07.2006 19:00 | V: 27.07.2006 19:30 | Campeones: FC Vaduz | ||||
| I | FC Zimbru | - | Qarabağ FK | 1:1 (0:0) | ||
| V | Qarabağ FK | - | FC Zimbru | 1:2 (1:0, 1:1) pró. | ||
| I: 13.07.2006 19:00 | V: 27.07.2006 17:00 | Campeones: FC Zimbru | ||||
| I | APOEL Nikosia | - | SS Murata | 3:1 (1:0) | ||
| V | SS Murata | - | APOEL Nikosia | 0:4 (0:3) | ||
| I: 13.07.2006 19:00 | V: 27.07.2006 21:00 | Campeones: APOEL Nikosia | ||||
| I | Lokomotiv Sofia | - | Makedonija GP | 2:0 (0:0) | ||
| V | Makedonija GP | - | Lokomotiv Sofia | 1:1 (1:0) | ||
| I: 13.07.2006 19:30 | V: 27.07.2006 19:30 | Campeones: Lokomotiv Sofia | ||||
| I | Rapid Bucureşti | - | Sliema Wanderers | 5:0 (5:0) | ||
| V | Sliema Wanderers | - | Rapid Bucureşti | 0:1 (0:1) | ||
| I: 13.07.2006 19:30 | V: 27.07.2006 18:00 | Campeones: Rapid Bucureşti | ||||
| I | Åtvidabergs FF | - | Etzella Ettelbruck | 4:0 (2:0) | ||
| V | Etzella Ettelbruck | - | Åtvidabergs FF | 0:3 (0:0) | ||
| I: 13.07.2006 20:00 | V: 27.07.2006 18:00 | Campeones: Åtvidabergs FF | ||||
| I | Skála ÍF | - | IK Start | 0:1 (0:1) | ||
| V | IK Start | - | Skála ÍF | 3:0 (1:0) | ||
| I: 13.07.2006 20:00 | V: 27.07.2006 19:00 | Campeones: IK Start | ||||
| I | FC Fehérvár | - | FK Kairat | 1:0 (1:0) | ||
| V | FK Kairat | - | FC Fehérvár | 2:1 (0:1) | ||
| I: 13.07.2006 20:00 | V: 27.07.2006 15:30 | Campeones: FC Fehérvár | ||||
| I | Basilea | - | Tobyl Kostanay | 3:1 (1:0) | ||
| V | Tobyl Kostanay | - | Basilea | 0:0 (0:0) | ||
| I: 13.07.2006 20:00 | V: 27.07.2006 15:00 | Campeones: Basilea | ||||
| I | FC Anet Koper | - | PFC Litex Lovech | 0:1 (0:1) | ||
| V | PFC Litex Lovech | - | FC Anet Koper | 5:0 (1:0) | ||
| I: 13.07.2006 20:00 | V: 27.07.2006 19:45 | Campeones: PFC Litex Lovech | ||||
| I | Glentoran FC | - | SK Brann | 0:1 (0:0) | ||
| V | SK Brann | - | Glentoran FC | 1:0 (0:0) | ||
| I: 13.07.2006 20:30 | V: 27.07.2006 19:30 | Campeones: SK Brann | ||||
| I | Portadown FC | - | FBK Kaunas | 1:3 (0:2) | ||
| V | FBK Kaunas | - | Portadown FC | 1:0 (1:0) | ||
| I: 13.07.2006 20:30 | V: 27.07.2006 19:00 | Campeones: FBK Kaunas | ||||
| I | Rhyl FC | - | FK Sūduva | 0:0 (0:0) | ||
| V | FK Sūduva | - | Rhyl FC | 2:1 (2:0) | ||
| I: 13.07.2006 20:30 | V: 27.07.2006 17:00 | Campeones: FK Sūduva | ||||
| I | Brøndby IF | - | Valur Reykjavík | 3:1 (3:0) | ||
| V | Valur Reykjavík | - | Brøndby IF | 0:0 (0:0) | ||
| I: 13.07.2006 20:45 | V: 27.07.2006 20:45 | Campeones: Brøndby IF | ||||
| I | HNK Rijeka | - | Omonia Nikosia | 2:2 (1:1) | ||
| V | Omonia Nikosia | - | HNK Rijeka | 2:1 (0:0) | ||
| I: 13.07.2006 20:45 | V: 27.07.2006 19:00 | Campeones: Omonia Nikosia | ||||
| I | Hibernians FC | - | Dinamo Bucureşti | 0:4 (0:1) | ||
| V | Dinamo Bucureşti | - | Hibernians FC | 5:1 (0:0) | ||
| I: 13.07.2006 21:00 | V: 27.07.2006 20:00 | Campeones: Dinamo Bucureşti | ||||
