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1/32-finals
1/16-finals
1/8-finals
Quarter-finals
Semi-finals
Final
2006/07
1/32-finals
| 1 | Panserraikos | Bye | |
| 2 | Bye | PAOK | |
| 3 | Aiolikos | Kastoria | 2 : 1 |
| 4 | Bye | Ergotelis | |
| 5 | Thrasivoulos | Bye | |
| 6 | Bye | Panathinaikos | |
| 7 | Levadiakos | Bye | |
| 8 | Bye | Apollon Pontou | |
| 9 | Niki Volos | Bye | |
| 10 | Bye | Aris | |
| 11 | AO Ilisiakos | Bye | |
| 12 | Bye | Atromitos | |
| 13 | AO Paniliakos | Bye | |
| 14 | Bye | Panionios | |
| 15 | Asteras Tripolis | Bye | |
| 16 | Bye | Xanthi FC | |
| 17 | Pierikos | Bye | |
| 18 | Bye | Kerkyra | |
| 19 | A. Asteras | Bye | |
| 20 | Bye | Ionikos | |
| 21 | Panetolikos | Bye | |
| 22 | Bye | OFI Crete | |
| 23 | Panthrakikos | Bye | |
| 24 | Bye | AEL Larissa | |
| 25 | O. Volos | Athens Kallithea | 2 : 0 |
| 26 | Bye | Iraklis 1908 | |
| 27 | Giannina | Bye | |
| 28 | Bye | PAE Egaleo | |
| 29 | Chaidari | Bye | |
| 30 | Bye | AEK Athens FC | |
| 31 | Atsalenios | Bye | |
| 32 | Bye | Olympiacos Piraeus |
1/16-finals
| 1 | Panserraikos | PAOK | 0 : 1 |
| 2 | Aiolikos | Ergotelis | 2 : 3 |
| 3 | Thrasivoulos | Panathinaikos | 0 : 1 |
| 4 | Levadiakos | Apollon Pontou | 0 : 1 |
| 5 | Niki Volos | Aris | 2 : 0 |
| 6 | AO Ilisiakos | Atromitos | 2 : 1 |
| 7 | AO Paniliakos | Panionios | 1 : 2 |
| 8 | Asteras Tripolis | Xanthi FC | 0 : 1 |
| 9 | Pierikos | Kerkyra | 2 : 3 |
| 10 | A. Asteras | Ionikos | 2 : 3 |
| 11 | Panetolikos | OFI Crete | 1 : 2 |
| 12 | Panthrakikos | AEL Larissa | 1 : 3 |
| 13 | O. Volos | Iraklis 1908 | 0 : 1 |
| 14 | Giannina | PAE Egaleo | 2 : 0 |
| 15 | Chaidari | AEK Athens FC | 1 : 0 |
| 16 | Atsalenios | Olympiacos Piraeus | 0 : 2 |
1/8-finals
| 1 | PAOK | Ergotelis | 0 : 0, 1 : 0 |
| 2 | Panathinaikos | Apollon Pontou | 2 : 1, 0 : 0 |
| 3 | Niki Volos | AO Ilisiakos | 0 : 0, 0 : 1 |
| 4 | Panionios | Xanthi FC | 0 : 0, 0 : 1 |
| 5 | Kerkyra | Ionikos | 2 : 1, 0 : 0 |
| 6 | OFI Crete | AEL Larissa | 1 : 3, 1 : 1 |
| 7 | Iraklis 1908 | Giannina | 0 : 2, 1 : 1 |
| 8 | Chaidari | Olympiacos Piraeus | 0 : 0, 1 : 3 |
Quarter-finals
| 1 | PAOK | Panathinaikos | 1 : 3, 2 : 1 |
| 2 | AO Ilisiakos | Xanthi FC | 0 : 1, 0 : 2 |
| 3 | Kerkyra | AEL Larissa | 0 : 2, 0 : 0 |
| 4 | Giannina | Olympiacos Piraeus | 1 : 2, 2 : 0 |
Semi-finals
| 1 | Panathinaikos | Xanthi FC | 1 : 0, 0 : 0 |
| 2 | AEL Larissa | Giannina | 2 : 0, 2 : 0 |
Final
| 1 | Panathinaikos | AEL Larissa | 1 : 2 |
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