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| # | Team | P | W | D | L | Goals | Pts |
|---|---|---|---|---|---|---|---|
| 1 | Shimizu S-pulse | 38 | 26 | 4 | 8 | 68:38 | 82 |
| 2 | Yokohama FC | 38 | 22 | 10 | 6 | 60:27 | 76 |
| 3 | V-varen Nagasaki | 38 | 21 | 12 | 5 | 74:39 | 75 |
| 4 | Montedio Yamagata | 38 | 20 | 6 | 12 | 55:36 | 66 |
| 5 | Fagiano Okayama | 38 | 17 | 14 | 7 | 48:29 | 65 |
| 6 | Vegalta Sendai | 38 | 18 | 10 | 10 | 50:44 | 64 |
| 7 | JEF United Chiba | 38 | 19 | 4 | 15 | 67:48 | 61 |
| 8 | Tokushima Vortis | 38 | 16 | 7 | 15 | 42:44 | 55 |
| 9 | Iwaki | 38 | 15 | 9 | 14 | 53:41 | 54 |
| 10 | Blaublitz Akita | 38 | 15 | 9 | 14 | 36:35 | 54 |
| 11 | Renofa Yamaguchi | 38 | 15 | 8 | 15 | 43:44 | 53 |
| 12 | Roasso Kumamoto | 38 | 13 | 7 | 18 | 53:62 | 46 |
| 13 | Fujieda MYFC | 38 | 14 | 4 | 20 | 38:57 | 46 |
| 14 | Ventforet Kofu | 38 | 12 | 9 | 17 | 54:57 | 45 |
| 15 | Mito Hollyhock | 38 | 11 | 11 | 16 | 39:51 | 44 |
| 16 | Oita Trinita | 38 | 10 | 13 | 15 | 33:47 | 43 |
| 17 | Ehime FC | 38 | 10 | 10 | 18 | 41:69 | 40 |
| 18 | Tochigi SC | 38 | 7 | 13 | 18 | 33:57 | 34 |
| 19 | Kagoshima United | 38 | 7 | 9 | 22 | 35:59 | 30 |
| 20 | Thespakusatsu Gunma | 38 | 3 | 9 | 26 | 24:62 | 18 |