| # | Group 1 | MP | W | D | L | G | GD | Pts | Form |
|---|---|---|---|---|---|---|---|---|---|
| 1. | PSPS Riau | 12 | 7 | 4 | 1 | 21:8 | 13 | 25 | |
| 2. | PSMS Medan | 12 | 7 | 2 | 3 | 17:6 | 11 | 23 | |
| 3. | Persiraja Aceh | 12 | 6 | 4 | 2 | 20:9 | 11 | 22 | |
| 4. | Bangka | 12 | 6 | 1 | 5 | 17:17 | 0 | 19 | |
| 5. | Kepri Jaya | 12 | 5 | 3 | 4 | 19:12 | 7 | 18 | |
| 6. | Langsa | 12 | 3 | 2 | 7 | 15:16 | -1 | 11 | |
| 7. | Persih Tembilahan | 12 | 0 | 0 | 12 | 4:45 | -41 | -6 | |
| 8. | Pro Duta | 0 | 0 | 0 | 0 | 0:0 | 0 | 0 | |
| # | Group 2 | MP | W | D | L | G | GD | Pts | Form |
| 1. | Persita | 14 | 9 | 3 | 2 | 18:7 | 11 | 30 | |
| 2. | RANS Nusantara | 14 | 8 | 3 | 3 | 17:10 | 7 | 27 | |
| 3. | Perserang Serang | 14 | 8 | 0 | 6 | 21:18 | 3 | 24 | |
| 4. | Persika Karawang | 14 | 5 | 4 | 5 | 14:16 | -2 | 19 | |
| 5. | Persikad | 14 | 5 | 3 | 6 | 14:15 | -1 | 18 | |
| 6. | PS Bengkulu | 14 | 5 | 2 | 7 | 12:13 | -1 | 17 | |
| 7. | Lampung Sakti | 14 | 5 | 1 | 8 | 15:17 | -2 | 16 | |
| 8. | Persikabo 1973 | 14 | 2 | 2 | 10 | 13:28 | -15 | 8 | |
| # | Group 3 | MP | W | D | L | G | GD | Pts | Form |
| 1. | PSS Sleman | 14 | 11 | 1 | 2 | 27:6 | 21 | 34 | |
| 2. | Persibat Batang | 14 | 7 | 3 | 4 | 15:7 | 8 | 24 | |
| 3. | PSCS Cilacap | 14 | 7 | 3 | 4 | 15:9 | 6 | 24 | |
| 4. | PSGC Ciamis | 14 | 7 | 2 | 5 | 18:17 | 1 | 23 | |
| 5. | Persibas Banyumas | 14 | 7 | 2 | 5 | 19:17 | 2 | 23 | |
| 6. | Persip P. | 14 | 3 | 4 | 7 | 7:19 | -12 | 13 | |
| 7. | Persijap Jepara | 14 | 4 | 0 | 10 | 9:20 | -11 | 12 | |
| 8. | Purbalingga | 14 | 2 | 1 | 11 | 8:23 | -15 | 7 | |
| # | Group 4 | MP | W | D | L | G | GD | Pts | Form |
| 1. | PSIS Semarang | 14 | 11 | 2 | 1 | 26:7 | 19 | 35 | |
| 2. | Persis Solo | 14 | 9 | 4 | 1 | 21:7 | 14 | 31 | |
| 3. | Rembang | 14 | 6 | 6 | 2 | 18:8 | 10 | 24 | |
| 4. | Persipur P. | 14 | 5 | 3 | 6 | 15:15 | 0 | 18 | |
| 5. | Sragen | 14 | 5 | 2 | 7 | 11:13 | -2 | 17 | |
| 6. | PPSM Magelang | 14 | 3 | 4 | 7 | 10:20 | -10 | 13 | |
| 7. | Pontianak | 14 | 2 | 5 | 7 | 9:22 | -13 | 11 | |
| 8. | Persiba Bantul | 14 | 0 | 4 | 10 | 4:22 | -18 | 4 | |
| # | Group 5 | MP | W | D | L | G | GD | Pts | Form |
| 1. | Persebaya | 14 | 8 | 5 | 1 | 27:11 | 16 | 29 | |
| 2. | Dewa United | 14 | 9 | 1 | 4 | 35:22 | 13 | 28 | |
| 3. | PSIM Yogyakarta | 14 | 6 | 3 | 5 | 21:18 | 3 | 21 | |
| 4. | Persepam Madura | 14 | 5 | 3 | 6 | 25:23 | 2 | 18 | |
| 5. | Persatu Tuban | 14 | 5 | 3 | 6 | 21:20 | 1 | 18 | |
| 6. | Pesinga Ngawi | 14 | 4 | 4 | 6 | 16:24 | -8 | 16 | |
| 7. | Madiun Putra | 14 | 4 | 3 | 7 | 16:25 | -9 | 15 | |
| 8. | PSBI Blitar | 14 | 3 | 2 | 9 | 8:26 | -18 | 11 | |
| # | Group 6 | MP | W | D | L | G | GD | Pts | Form |
| 1. | PSMP Mojokerto | 12 | 7 | 1 | 4 | 25:18 | 7 | 22 | |
| 2. | Kalteng Putra | 12 | 6 | 3 | 3 | 23:13 | 10 | 21 | |
| 3. | Persik Kediri | 12 | 6 | 2 | 4 | 18:15 | 3 | 20 | |
| 4. | PSBK Blitar | 12 | 5 | 3 | 4 | 25:25 | 0 | 18 | |
| 5. | Persewangi Banyuwangi | 12 | 5 | 3 | 4 | 17:16 | 1 | 18 | |
| 6. | Perssu Madura United | 12 | 3 | 2 | 7 | 14:25 | -11 | 11 | |
| 7. | Sidoarjo United | 12 | 1 | 4 | 7 | 10:20 | -10 | 7 | |
| # | Group 7 | MP | W | D | L | G | GD | Pts | Form |
| 1. | PS Hizbul Wathan | 12 | 8 | 2 | 2 | 20:9 | 11 | 26 | |
| 2. | Madura FC | 12 | 6 | 4 | 2 | 19:8 | 11 | 22 | |
| 3. | Celebest | 12 | 5 | 4 | 3 | 12:7 | 5 | 19 | |
| 4. | Persekam Metro | 12 | 3 | 6 | 3 | 12:11 | 1 | 15 | |
| 5. | PS Badung | 12 | 4 | 3 | 5 | 9:14 | -5 | 15 | |
| 6. | PS Sumbawa Barat | 12 | 3 | 1 | 8 | 7:24 | -17 | 10 | |
| 7. | Persekap Kota Pasuruan | 12 | 2 | 2 | 8 | 13:19 | -6 | 8 | |
| # | Group 8 | MP | W | D | L | G | GD | Pts | Form |
| 1. | Persiwa Wamena | 10 | 6 | 2 | 2 | 14:8 | 6 | 20 | |
| 2. | PSBS Biak Numfor | 10 | 5 | 3 | 2 | 17:9 | 8 | 18 | |
| 3. | Yahukimo | 10 | 5 | 3 | 2 | 12:8 | 4 | 18 | |
| 4. | Persigubin Gunung | 10 | 3 | 5 | 2 | 14:8 | 6 | 14 | |
| 5. | Perseka Kaimana | 10 | 3 | 3 | 4 | 8:8 | 0 | 12 | |
| 6. | Persbul Buol | 10 | 0 | 0 | 10 | 5:29 | -24 | 0 |