| # | Group A | MP | W | D | L | G | GD | Pts | Form |
|---|---|---|---|---|---|---|---|---|---|
| 1. | St. Gallen | 3 | 2 | 0 | 1 | 5:3 | 2 | 6 | |
| 2. | Kuban | 3 | 1 | 1 | 1 | 5:3 | 2 | 4 | |
| 3. | Valencia | 3 | 1 | 1 | 1 | 6:5 | 1 | 4 | |
| 4. | Swansea | 3 | 1 | 1 | 1 | 2:2 | 0 | 4 | |
| # | Group B | MP | W | D | L | G | GD | Pts | Form |
| 1. | Ludogorets | 3 | 2 | 1 | 0 | 6:1 | 5 | 7 | |
| 2. | PSV | 3 | 1 | 0 | 2 | 2:3 | -1 | 3 | |
| 3. | Ch. Odessa | 3 | 1 | 0 | 2 | 2:4 | -2 | 3 | |
| 4. | D. Zagreb | 3 | 0 | 1 | 2 | 2:4 | -2 | 1 | |
| # | Group C | MP | W | D | L | G | GD | Pts | Form |
| 1. | Salzburg | 3 | 3 | 0 | 0 | 9:1 | 8 | 9 | |
| 2. | Esbjerg | 3 | 2 | 0 | 1 | 4:3 | 1 | 6 | |
| 3. | Elfsborg | 3 | 0 | 1 | 2 | 2:4 | -2 | 1 | |
| 4. | St. Liege | 3 | 0 | 0 | 3 | 3:8 | -5 | 0 | |
| # | Group D | MP | W | D | L | G | GD | Pts | Form |
| 1. | Rubin Kazan | 3 | 2 | 1 | 0 | 6:1 | 5 | 7 | |
| 2. | Wigan | 3 | 1 | 1 | 1 | 5:4 | 1 | 4 | |
| 3. | Maribor | 3 | 1 | 0 | 2 | 4:7 | -3 | 3 | |
| 4. | Waregem | 3 | 0 | 1 | 2 | 1:5 | -4 | 1 | |
| # | Group E | MP | W | D | L | G | GD | Pts | Form |
| 1. | Fiorentina | 3 | 3 | 0 | 0 | 8:1 | 7 | 9 | |
| 2. | Dnipro | 3 | 2 | 0 | 1 | 7:3 | 4 | 6 | |
| 3. | Pacos Ferreira | 3 | 0 | 2 | 1 | 1:3 | -2 | 2 | |
| 4. | Pandurii | 3 | 0 | 1 | 2 | 1:3 | -2 | 1 | |
| # | Group F | MP | W | D | L | G | GD | Pts | Form |
| 1. | Eintracht Frankfurt | 3 | 3 | 0 | 0 | 7:0 | 7 | 9 | |
| 2. | Maccabi Tel Aviv | 3 | 2 | 1 | 0 | 5:2 | 3 | 7 | |
| 3. | APOEL | 3 | 1 | 1 | 1 | 2:4 | -2 | 4 | |
| 4. | Bordeaux | 3 | 1 | 0 | 2 | 3:4 | -1 | 3 | |
| # | Group G | MP | W | D | L | G | GD | Pts | Form |
| 1. | Genk | 3 | 2 | 1 | 0 | 6:3 | 3 | 7 | |
| 2. | Dyn. Kyiv | 3 | 2 | 0 | 1 | 6:2 | 4 | 6 | |
| 3. | SK Rapid | 3 | 1 | 2 | 0 | 6:5 | 1 | 5 | |
| 4. | Thun | 3 | 1 | 0 | 2 | 1:3 | -2 | 3 | |
| # | Group H | MP | W | D | L | G | GD | Pts | Form |
| 1. | Sevilla | 3 | 1 | 2 | 0 | 4:2 | 2 | 5 | |
| 2. | Liberec | 3 | 1 | 1 | 1 | 4:4 | 0 | 4 | |
| 3. | Freiburg | 3 | 0 | 2 | 1 | 3:5 | -2 | 2 | |
| 4. | Estoril | 3 | 0 | 1 | 2 | 2:4 | -2 | 1 | |
| # | Group I | MP | W | D | L | G | GD | Pts | Form |
| 1. | Lyon | 3 | 2 | 1 | 0 | 3:1 | 2 | 7 | |
| 2. | Betis | 3 | 1 | 2 | 0 | 1:0 | 1 | 5 | |
| 3. | Vitoria Guimaraes | 3 | 1 | 0 | 2 | 5:3 | 2 | 3 | |
| 4. | Rijeka | 3 | 0 | 3 | 0 | 2:2 | 0 | 3 | |
| # | Group J | MP | W | D | L | G | GD | Pts | Form |
| 1. | Trabzonspor | 3 | 2 | 1 | 0 | 9:5 | 4 | 7 | |
| 2. | Lazio | 3 | 2 | 1 | 0 | 3:1 | 2 | 7 | |
| 3. | Apollon | 3 | 0 | 1 | 2 | 1:4 | -3 | 1 | |
| 4. | Legia | 3 | 0 | 0 | 3 | 0:5 | -5 | 0 | |
| # | Group K | MP | W | D | L | G | GD | Pts | Form |
| 1. | Tottenham | 3 | 3 | 0 | 0 | 9:2 | 7 | 9 | |
| 2. | Sheriff Tiraspol | 3 | 1 | 1 | 1 | 2:2 | 0 | 4 | |
| 3. | FK Anzi Makhackala | 3 | 1 | 1 | 1 | 2:3 | -1 | 4 | |
| 4. | Tromso | 3 | 0 | 1 | 2 | 1:4 | -3 | 1 | |
| # | Group L | MP | W | D | L | G | GD | Pts | Form |
| 1. | AZ Alkmaar | 3 | 2 | 1 | 0 | 4:1 | 3 | 7 | |
| 2. | PAOK | 3 | 2 | 1 | 0 | 7:5 | 2 | 7 | |
| 3. | Maccabi Haifa | 3 | 1 | 1 | 1 | 2:2 | 0 | 4 | |
| 4. | Shakhter Karagandy | 3 | 0 | 2 | 1 | 3:5 | -2 | 2 |