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| 12.04.2013 | 18:00 | FC Fastav Zlín | - | FK Varnsdorf | 3:0 (1:0) | |
| 13.04.2013 | 10:15 | FK Pardubice | - | FK MAS Táborsko | 0:1 (0:0) | |
| 10:15 | Bohemians Praha | - | Viktoria Žižkov | 2:0 (1:0) | ||
| 10:15 | FK Baník Sokolov | - | FK Baník Most | 2:0 (1:0) | ||
| 16:30 | 1. HFK Olomouc | - | FK Ústí nad Labem | 1:3 (0:1) | ||
| 14.04.2013 | 16:30 | MFK Karviná | - | SFC Opava | 5:2 (4:1) | |
| 16:30 | 1. SC Znojmo | - | FC Graffin Vlašim | 6:1 (5:1) | ||
| 17:00 | Bohemians 1905 | - | FK Čáslav | 3:0 (2:0) |
| # | Mannschaft | Sp. | S. | U. | N. | Tore | Dif. | Pk. | |
|---|---|---|---|---|---|---|---|---|---|
| 1 |
|
Bohemians 1905 | 23 | 13 | 6 | 4 | 37:17 | 20 | 45 |
| 2 |
|
1. SC Znojmo | 23 | 13 | 5 | 5 | 35:20 | 15 | 44 |
| 3 |
|
FK Baník Sokolov | 23 | 11 | 7 | 5 | 30:19 | 11 | 40 |
| 4 |
|
FC Fastav Zlín | 23 | 11 | 4 | 8 | 38:28 | 10 | 37 |
| 5 |
|
1. HFK Olomouc | 23 | 11 | 4 | 8 | 31:30 | 1 | 37 |
| 6 |
|
FK Varnsdorf | 23 | 11 | 3 | 9 | 37:28 | 9 | 36 |
| 7 |
|
FK Ústí nad Labem | 23 | 10 | 6 | 7 | 27:30 | -3 | 36 |
| 8 |
|
FK Pardubice | 23 | 10 | 3 | 10 | 34:25 | 9 | 33 |
| 9 |
|
Viktoria Žižkov | 23 | 9 | 6 | 8 | 26:22 | 4 | 33 |
| 10 |
|
MFK Karviná | 23 | 7 | 8 | 8 | 29:35 | -6 | 29 |
| 11 |
|
Bohemians Praha | 23 | 4 | 14 | 5 | 20:20 | 0 | 26 |
| 12 |
|
FK Baník Most | 23 | 6 | 6 | 11 | 24:38 | -14 | 24 |
| 13 |
|
FK MAS Táborsko | 23 | 5 | 8 | 10 | 21:31 | -10 | 23 |
| 14 |
|
FC Graffin Vlašim | 23 | 6 | 5 | 12 | 29:45 | -16 | 23 |
| 15 |
|
FK Čáslav | 23 | 4 | 7 | 12 | 16:28 | -12 | 19 |
| 16 |
|
SFC Opava | 23 | 4 | 6 | 13 | 22:40 | -18 | 18 |
| Aufstieg | |
| Abstieg |
