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| 20.10.2006 | 19:30 | Fortuna Düsseldorf | - | 1. FC Union Berlin | 2:1 (1:0) | |
| 19:30 | VfL Osnabrück | - | SV Wilhelmshaven | 2:0 (1:0) | ||
| 21.10.2006 | 14:00 | Holstein Kiel | - | FC St. Pauli | 1:2 (0:1) | |
| 14:00 | 1. FC Magdeburg | - | VfB Lübeck | 0:2 (0:1) | ||
| 14:00 | Bor. Mönchengladbach II | - | Kickers Emden | 2:3 (1:1) | ||
| 14:00 | Wuppertaler SV | - | Borussia Dortmund II | 2:1 (2:1) | ||
| 14:00 | Rot Weiss Ahlen | - | Bayer Leverkusen II | 1:1 (1:0) | ||
| 14:00 | Dynamo Dresden | - | Werder Bremen II | 1:4 (1:3) | ||
| 14:00 | Rot-Weiß Erfurt | - | Hertha II | 2:1 (1:0) |
| » Clasificación | En casa | Fuera de casa | 1.ª vuelta | 2.ª vuelta |
| # | Equipo | P | V | E | D | Goles | DG | Pun. | |
|---|---|---|---|---|---|---|---|---|---|
| 1 |
|
1. FC Union Berlin | 11 | 6 | 3 | 2 | 17:6 | 11 | 21 |
| 2 |
|
Werder Bremen II | 12 | 6 | 3 | 3 | 24:17 | 7 | 21 |
| 3 |
|
Fortuna Düsseldorf | 11 | 6 | 3 | 2 | 20:14 | 6 | 21 |
| 4 |
|
VfL Osnabrück | 11 | 6 | 2 | 3 | 17:13 | 4 | 20 |
| 5 |
|
Hamburgo II | 11 | 6 | 2 | 3 | 15:12 | 3 | 20 |
| 6 |
|
VfB Lübeck | 12 | 6 | 2 | 4 | 14:12 | 2 | 20 |
| 7 |
|
Wuppertaler SV | 11 | 5 | 4 | 2 | 19:10 | 9 | 19 |
| 8 |
|
Dynamo Dresden | 11 | 6 | 1 | 4 | 17:16 | 1 | 19 |
| 9 |
|
Rot-Weiß Erfurt | 11 | 5 | 2 | 4 | 12:11 | 1 | 17 |
| 10 |
|
FC St. Pauli | 11 | 4 | 4 | 3 | 13:14 | -1 | 16 |
| 11 |
|
1. FC Magdeburg | 11 | 5 | 1 | 5 | 13:15 | -2 | 16 |
| 12 |
|
Rot Weiss Ahlen | 12 | 4 | 2 | 6 | 16:18 | -2 | 14 |
| 13 |
|
Holstein Kiel | 12 | 3 | 4 | 5 | 17:21 | -4 | 13 |
| 14 |
|
Hertha II | 12 | 4 | 1 | 7 | 13:18 | -5 | 13 |
| 15 |
|
Bayer Leverkusen II | 11 | 3 | 3 | 5 | 12:13 | -1 | 12 |
| 16 |
|
Kickers Emden | 11 | 3 | 3 | 5 | 8:11 | -3 | 12 |
| 17 |
|
SV Wilhelmshaven | 11 | 3 | 2 | 6 | 14:17 | -3 | 11 |
| 18 |
|
Borussia Dortmund II | 12 | 3 | 1 | 8 | 11:22 | -11 | 10 |
| 19 |
|
Bor. Mönchengladbach II | 12 | 1 | 3 | 8 | 9:21 | -12 | 6 |
