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| 02.04.2013 | 16:00 | 1. FC Tatran Prešov | - | FK Senica | 0:1 (0:1) | |
| 16:00 | MFK Košice | - | Slovan Bratislava | 1:1 (1:0) | ||
| 17:30 | FC Nitra | - | MFK Ružomberok | 3:0 (0:0) | ||
| 17:30 | FK Dukla Banská Bystrica | - | AS Trenčín | 0:0 (0:0) | ||
| 17:30 | MŠK Žilina | - | Spartak Trnava | 1:1 (1:1) | ||
| 07.05.2013 | 18:30 | Spartak Myjava | - | Zlaté Moravce | 2:1 (0:1) |
| # | Mannschaft | Sp. | S. | U. | N. | Tore | Dif. | Pk. | |
|---|---|---|---|---|---|---|---|---|---|
| 1 |
|
Slovan Bratislava | 24 | 14 | 7 | 3 | 44:21 | 23 | 49 |
| 2 |
|
AS Trenčín | 24 | 10 | 9 | 5 | 37:26 | 11 | 39 |
| 3 |
|
MFK Košice | 24 | 11 | 6 | 7 | 34:26 | 8 | 39 |
| 4 |
|
FK Senica | 24 | 11 | 6 | 7 | 30:23 | 7 | 39 |
| 5 |
|
MFK Ružomberok | 24 | 9 | 7 | 8 | 25:28 | -3 | 34 |
| 6 |
|
MŠK Žilina | 24 | 6 | 13 | 5 | 25:17 | 8 | 31 |
| 7 |
|
Zlaté Moravce | 24 | 8 | 7 | 9 | 33:33 | 0 | 31 |
| 8 |
|
Spartak Myjava | 24 | 8 | 6 | 10 | 32:32 | 0 | 30 |
| 9 |
|
FK Dukla Banská Bystrica | 24 | 6 | 10 | 8 | 20:21 | -1 | 28 |
| 10 |
|
Spartak Trnava | 24 | 5 | 8 | 11 | 22:40 | -18 | 23 |
| 11 |
|
1. FC Tatran Prešov | 24 | 6 | 5 | 13 | 16:35 | -19 | 23 |
| 12 |
|
FC Nitra | 24 | 6 | 4 | 14 | 27:43 | -16 | 22 |
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| Europa League Quali. | |
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