| ROUND | Q1 | Q2 | R1 | R2 | R3 | R4 | QF | SF | F | |||||||||||
| l1 | l2 | l1 | l2 | l1 | l2 | r1 | r2 | r3 | r4 | r5 | l1 | l2 | l1 | l2 | l1 | l2 | l1 | l2 | ||
| Season archive |
| Thursday, 13 July 2006 | ||||||
| q1l1 |  IFK Göteborg | 0-1 | Derry City | |||
| q1l1 |  Újpest | 0-4 | Vaduz | |||
| q1l1 |  Brøndby | 3-1 | Valur | |||
| q1l1 |  Lyn 1896 | 1-1 | Flora | |||
| q1l1 |  Rapid București | 5-0 | Sliema Wanderers | |||
| q1l1 |  HJK | 1-1 | Drogheda United | |||
| q1l1 | MOL Fehérvár | 1-0 | Kairat | |||
| q1l1 |  Varaždin | 1-1 | Tirana | |||
| q1l1 | Rijeka | 2-2 | Omonia | |||
| q1l1 |  Vardar | 1-2 | Roeselare | |||
| q1l1 |  Portadown | 1-3 | Kaunas | |||
| q1l1 |  Jeunesse Esch | 0-2 | Skonto | |||
| q1l1 | APOEL | 3-1 | Murata | |||
| q1l1 |  Lokomotiv Sofia | 2-0 | Makedonija Gjorče Petrov | |||
| q1l1 | FC Basel | 3-1 | Tobol | |||
| q1l1 | Glentoran | 0-1 | Brann | |||
| q1l1 |  FC Petrzalka 1898 | 2-0 | WIT Georgia | |||
| q1l1 | Åtvidaberg | 4-0 | Etzella | |||
| q1l1 | Gefle | 1-2 | Llanelli Town | |||
| q1l1 |  Zimbru | 1-1 | Qarabag | |||
| q1l1 |  Zagłębie Lubin | 1-1 | Dinamo Minsk | |||
| q1l1 | Dinamo | 0-1 | CSKA | |||
| q1l1 | BATE | 2-0 | Nistru | |||
| q1l1 |  Sarajevo | 3-0 | Rangers | |||
| q1l1 | JFK Ventspils | 2-1 | GÍ | |||
| q1l1 | Hibernians | 0-4 | Dinamo București | |||
| q1l1 |  Koper | 0-1 | Litex | |||
| q1l1 | Randers | 1-0 | ÍA | |||
| q1l1 | Rhyl | 0-0 | Sūduva | |||
| q1l1 |  Mika | 1-3 | Young Boys | |||
| q1l1 | Levadia Tallinn | 2-0 | FC Haka | |||
| q1l1 | Skála | 0-1 | Start | |||
| q1l1 | Karvan | 1-0 | Spartak Trnava | |||
| q1l1 | Ameri Tbilisi | 0-1 | Urartu | |||
| q1l1 | Orašje | 0-2 | Domžale | |||
| Thursday, 27 July 2006 | ||||||
| q1l2 | CSKA | 4-1 | Dinamo | 5-1 | ||
| q1l2 | Omonia | 2-1 | Rijeka | 4-3 | ||
| q1l2 | Start | 3-0 | Skála | 4-0 | ||
| q1l2 | Dinamo București | 5-1 | Hibernians | 9-1 | ||
| q1l2 | Young Boys | 1-0 | Mika | 4-1 | ||
| q1l2 | Brann | 1-0 | Glentoran | 2-0 | ||
| q1l2 | Valur | 0-0 | Brøndby | 1-3 | ||
| q1l2 | ÍA | 2-1 | Randers | 2-2 | ||
| q1l2 | Skonto | 3-0 | Jeunesse Esch | 5-0 | ||
| q1l2 | Dinamo Minsk | 0-0 | Zagłębie Lubin | 1-1 | ||
| q1l2 | Tirana | 2-0 | Varaždin | 3-1 | ||
| q1l2 | FC Haka | 1-0 | Levadia Tallinn | 1-2 | ||
| q1l2 | Litex | 5-0 | Koper | 6-0 | ||
| q1l2 | Sliema Wanderers | 0-1 | Rapid București | 0-6 | ||
| q1l2 | Spartak Trnava | 0-1 | Karvan | 0-2 | ||
| q1l2 | Flora | 0-0 | Lyn 1896 | 1-1 | ||
| q1l2 | Roeselare | 5-1 | Vardar | 7-2 | ||
| q1l2 | WIT Georgia | 2-1 | FC Petrzalka 1898 | 2-3 | ||
| q1l2 | Nistru | 0-1 | BATE | 0-3 | ||
| q1l2 | GÍ | 0-2 | JFK Ventspils | 1-4 | ||
| q1l2 | Vaduz | 0-1 | Újpest | 4-1 | ||
| q1l2 | Qarabag | 1-2 | Zimbru | 2-3, aet | ||
| q1l2 | Domžale | 5-0 | Orašje | 7-0 | ||
| q1l2 | Derry City | 1-0 | IFK Göteborg | 2-0 | ||
| q1l2 | Llanelli Town | 0-0 | Gefle | 2-1 | ||
| q1l2 | Makedonija Gjorče Petrov | 1-1 | Lokomotiv Sofia | 1-3 | ||
| q1l2 | Kaunas | 1-0 | Portadown | 4-1 | ||
| q1l2 | Drogheda United | 3-1 | HJK | 4-2, aet | ||
| q1l2 | Sūduva | 2-1 | Rhyl | 2-1 | ||
| q1l2 | Kairat | 2-1 | MOL Fehérvár | 2-2 | ||
| q1l2 | Etzella | 0-3 | Åtvidaberg | 0-7 | ||
| q1l2 | Urartu | 1-2 | Ameri Tbilisi | 2-2 | ||
| q1l2 | Rangers | 0-2 | Sarajevo | 0-5 | ||
| q1l2 | Tobol | 0-0 | FC Basel | 1-3 | ||
| q1l2 | Murata | 0-4 | APOEL | 1-7 | ||
