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| 25.05.2013 | 17:00 | FK MAS Táborsko | - | Viktoria Žižkov | 3:1 (2:1) | |
| 17:00 | 1. SC Znojmo | - | FK Baník Most | 3:0 (0:0) | ||
| 17:00 | FC Graffin Vlašim | - | Bohemians Praha | 2:2 (1:1) | ||
| 17:00 | MFK Karviná | - | FK Baník Sokolov | 1:0 (1:0) | ||
| 18:00 | SFC Opava | - | FK Ústí nad Labem | 1:2 (0:1) | ||
| 18:00 | FC Fastav Zlín | - | FK Pardubice | 2:1 (2:0) | ||
| 26.05.2013 | 17:00 | FK Varnsdorf | - | FK Čáslav | 3:1 (1:1) | |
| 17:00 | Bohemians 1905 | - | 1. HFK Olomouc | 5:1 (3:0) |
| # | Mannschaft | Sp. | S. | U. | N. | Tore | Dif. | Pk. | |
|---|---|---|---|---|---|---|---|---|---|
| 1 |
|
1. SC Znojmo | 29 | 17 | 7 | 5 | 45:22 | 23 | 58 |
| 2 |
|
Bohemians 1905 | 29 | 16 | 8 | 5 | 48:22 | 26 | 56 |
| 3 |
|
FC Fastav Zlín | 29 | 14 | 6 | 9 | 48:35 | 13 | 48 |
| 4 |
|
FK Baník Sokolov | 29 | 13 | 8 | 8 | 34:25 | 9 | 47 |
| 5 |
|
1. HFK Olomouc | 29 | 14 | 5 | 10 | 39:44 | -5 | 47 |
| 6 |
|
FK Varnsdorf | 29 | 14 | 4 | 11 | 47:36 | 11 | 46 |
| 7 |
|
FK Pardubice | 29 | 14 | 3 | 12 | 46:30 | 16 | 45 |
| 8 |
|
Viktoria Žižkov | 29 | 11 | 9 | 9 | 35:29 | 6 | 42 |
| 9 |
|
MFK Karviná | 29 | 11 | 8 | 10 | 42:42 | 0 | 41 |
| 10 |
|
FK Ústí nad Labem | 29 | 11 | 6 | 12 | 31:40 | -9 | 39 |
| 11 |
|
FK MAS Táborsko | 29 | 8 | 10 | 11 | 34:40 | -6 | 34 |
| 12 |
|
Bohemians Praha | 29 | 5 | 17 | 7 | 27:31 | -4 | 32 |
| 13 |
|
FC Graffin Vlašim | 29 | 8 | 7 | 14 | 36:55 | -19 | 31 |
| 14 |
|
FK Baník Most | 29 | 7 | 7 | 15 | 28:47 | -19 | 28 |
| 15 |
|
FK Čáslav | 29 | 5 | 7 | 17 | 22:42 | -20 | 22 |
| 16 |
|
SFC Opava | 29 | 5 | 6 | 18 | 33:55 | -22 | 21 |
| Aufstieg | |
| Abstieg |
