| Group A | Games | Win | Draw | Loss | Balls | Diff. | Points | ||
| 1 | Arsenal | 6 | 5 | 0 | 1 | 8 | 3 | 5 | 15 |
| 2 | PSV Eindhoven | 6 | 4 | 1 | 1 | 15 | 4 | 11 | 13 |
| 3 | Bodo/Glimt | 6 | 1 | 1 | 4 | 5 | 10 | -5 | 4 |
| 4 | FC Zurich | 6 | 1 | 0 | 5 | 5 | 16 | -11 | 3 |
| Group B | Games | Win | Draw | Loss | Balls | Diff. | Points | ||
| 1 | Arsenal | 6 | 6 | 0 | 0 | 20 | 5 | 15 | 18 |
| 2 | Molde | 6 | 3 | 1 | 2 | 9 | 11 | -2 | 10 |
| 3 | Rapid Wien | 6 | 2 | 1 | 3 | 11 | 13 | -2 | 7 |
| 4 | Dundalk | 6 | 0 | 0 | 6 | 8 | 19 | -11 | 0 |
| Group C | Games | Win | Draw | Loss | Balls | Diff. | Points | ||
| 1 | Real Betis | 6 | 5 | 1 | 0 | 12 | 4 | 8 | 16 |
| 2 | Roma | 6 | 3 | 1 | 2 | 11 | 7 | 4 | 10 |
| 3 | Ludogorets Razgrad | 6 | 2 | 1 | 3 | 8 | 9 | -1 | 7 |
| 4 | HJK Helsinki | 6 | 0 | 1 | 5 | 2 | 13 | -11 | 1 |
| Group D | Games | Win | Draw | Loss | Balls | Diff. | Points | ||
| 1 | Union St.Gilloise | 6 | 4 | 1 | 1 | 11 | 7 | 4 | 13 |
| 2 | Union Berlin | 6 | 4 | 0 | 2 | 4 | 2 | 2 | 12 |
| 3 | SC Braga | 6 | 3 | 1 | 2 | 9 | 7 | 2 | 10 |
| 4 | Malmo FF | 6 | 0 | 0 | 6 | 3 | 11 | -8 | 0 |
| Group E | Games | Win | Draw | Loss | Balls | Diff. | Points | ||
| 1 | Real Sociedad | 6 | 5 | 0 | 1 | 10 | 2 | 8 | 15 |
| 2 | Manchester United | 6 | 5 | 0 | 1 | 10 | 3 | 7 | 15 |
| 3 | FC Sheriff | 6 | 2 | 0 | 4 | 4 | 10 | -6 | 6 |
| 4 | Omonia Nicosia | 6 | 0 | 0 | 6 | 3 | 12 | -9 | 0 |
| Group F | Games | Win | Draw | Loss | Balls | Diff. | Points | ||
| 1 | Feyenoord | 6 | 2 | 2 | 2 | 13 | 9 | 4 | 8 |
| 2 | FC Midtjylland | 6 | 2 | 2 | 2 | 12 | 8 | 4 | 8 |
| 3 | Lazio | 6 | 2 | 2 | 2 | 9 | 11 | -2 | 8 |
| 4 | Sturm Graz | 6 | 2 | 2 | 2 | 4 | 10 | -6 | 8 |
| Group G | Games | Win | Draw | Loss | Balls | Diff. | Points | ||
| 1 | Freiburg | 6 | 4 | 2 | 0 | 13 | 3 | 10 | 14 |
| 2 | Nantes | 6 | 3 | 0 | 3 | 6 | 11 | -5 | 9 |
| 3 | Qarabag FK | 6 | 2 | 2 | 2 | 9 | 5 | 4 | 8 |
| 4 | Olympiacos | 6 | 0 | 2 | 4 | 2 | 11 | -9 | 2 |
| Group H | Games | Win | Draw | Loss | Balls | Diff. | Points | ||
| 1 | Ferencvaros | 6 | 3 | 1 | 2 | 8 | 9 | -1 | 10 |
| 2 | Monaco | 6 | 3 | 1 | 2 | 9 | 8 | 1 | 10 |
| 3 | Trabzonspor | 6 | 3 | 0 | 3 | 11 | 9 | 2 | 9 |
| 4 | FK Crvena Zvezda | 6 | 2 | 0 | 4 | 9 | 11 | -2 | 6 |
| Group I | Games | Win | Draw | Loss | Balls | Diff. | Points | ||
| 1 | Villarreal | 6 | 5 | 1 | 0 | 17 | 5 | 12 | 16 |
| 2 | Maccabi Tel Aviv | 6 | 3 | 2 | 1 | 6 | 7 | -1 | 11 |
| 3 | Sivasspor | 6 | 2 | 0 | 4 | 9 | 11 | -2 | 6 |
| 4 | Qarabag FK | 6 | 0 | 1 | 5 | 4 | 13 | -9 | 1 |
| Group J | Games | Win | Draw | Loss | Balls | Diff. | Points | ||
| 1 | Tottenham Hotspur | 6 | 4 | 1 | 1 | 15 | 5 | 10 | 13 |
| 2 | Royal Antwerp | 6 | 4 | 0 | 2 | 8 | 5 | 3 | 12 |
| 3 | LASK | 6 | 3 | 1 | 2 | 11 | 12 | -1 | 10 |
| 4 | Ludogorets Razgrad | 6 | 0 | 0 | 6 | 7 | 19 | -12 | 0 |
| Group K | Games | Win | Draw | Loss | Balls | Diff. | Points | ||
| 1 | Dinamo Zagreb | 6 | 4 | 2 | 0 | 9 | 1 | 8 | 14 |
| 2 | Wolfsberger AC | 6 | 3 | 1 | 2 | 7 | 6 | 1 | 10 |
| 3 | Feyenoord | 6 | 1 | 2 | 3 | 4 | 8 | -4 | 5 |
| 4 | CSKA Moscow | 6 | 0 | 3 | 3 | 3 | 8 | -5 | 3 |
| Group L | Games | Win | Draw | Loss | Balls | Diff. | Points | ||
| 1 | Hoffenheim | 6 | 5 | 1 | 0 | 17 | 2 | 15 | 16 |
| 2 | FK Crvena Zvezda | 6 | 3 | 2 | 1 | 9 | 4 | 5 | 11 |
| 3 | Slovan Liberec | 6 | 2 | 1 | 3 | 4 | 13 | -9 | 7 |
| 4 | Gent | 6 | 0 | 0 | 6 | 4 | 15 | -11 | 0 |