| # | Group A | MP | W | D | L | G | GD | Pts | Form |
|---|---|---|---|---|---|---|---|---|---|
| 1. | Garudayaksa | 18 | 9 | 7 | 2 | 34:14 | 20 | 34 | |
| 2. | Adhyaksa | 18 | 9 | 6 | 3 | 45:21 | 24 | 33 | |
| 3. | Sumsel United | 18 | 9 | 4 | 5 | 28:20 | 8 | 31 | |
| 4. | Bekasi City | 18 | 7 | 6 | 5 | 28:14 | 14 | 27 | |
| 5. | Persiraja Aceh | 18 | 7 | 6 | 5 | 27:19 | 8 | 27 | |
| 6. | PSMS Medan | 18 | 7 | 5 | 6 | 23:20 | 3 | 26 | |
| 7. | Persikad Depok | 18 | 6 | 5 | 7 | 22:27 | -5 | 23 | |
| 8. | PSPS Riau | 18 | 5 | 6 | 7 | 29:35 | -6 | 21 | |
| 9. | Persekat | 18 | 4 | 7 | 7 | 11:21 | -10 | 19 | |
| 10. | Sriwijaya | 18 | 0 | 2 | 16 | 13:69 | -56 | 2 | |
| # | Group B | MP | W | D | L | G | GD | Pts | Form |
| 1. | Persipura Jayapura | 18 | 11 | 4 | 3 | 25:11 | 14 | 37 | |
| 2. | Barito Putera | 18 | 11 | 4 | 3 | 23:6 | 17 | 37 | |
| 3. | PSS Sleman | 18 | 10 | 6 | 2 | 33:14 | 19 | 36 | |
| 4. | Deltras Sidoarjo | 18 | 10 | 3 | 5 | 29:16 | 13 | 33 | |
| 5. | Tornado Pekanbaru | 18 | 10 | 3 | 5 | 30:17 | 13 | 33 | |
| 6. | Persela Lamongan | 18 | 8 | 5 | 5 | 21:15 | 6 | 29 | |
| 7. | Persiku Kudus | 18 | 4 | 3 | 11 | 23:30 | -7 | 15 | |
| 8. | Balikpapan | 18 | 4 | 2 | 12 | 17:29 | -12 | 14 | |
| 9. | PSIS Semarang | 18 | 3 | 2 | 13 | 9:38 | -29 | 11 | |
| 10. | Persipal BU | 18 | 0 | 6 | 12 | 10:44 | -34 | 6 |