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Machida Zelvia finished 1st, Jubilo Iwata 2nd.
| # | Team | P | W | D | L | Goals | Pts |
|---|---|---|---|---|---|---|---|
| 1 | Machida Zelvia | 42 | 26 | 9 | 7 | 79:35 | 87 |
| 2 | Jubilo Iwata | 42 | 21 | 12 | 9 | 74:44 | 75 |
| 3 | Tokyo Verdy | 42 | 21 | 12 | 9 | 57:31 | 75 |
| 4 | Shimizu S-pulse | 42 | 20 | 14 | 8 | 78:34 | 74 |
| 5 | Montedio Yamagata | 42 | 21 | 4 | 17 | 64:54 | 67 |
| 6 | JEF United Chiba | 42 | 19 | 10 | 13 | 61:53 | 67 |
| 7 | V-varen Nagasaki | 42 | 18 | 11 | 13 | 70:56 | 65 |
| 8 | Ventforet Kofu | 42 | 18 | 10 | 14 | 60:50 | 64 |
| 9 | Oita Trinita | 42 | 17 | 11 | 14 | 54:56 | 62 |
| 10 | Fagiano Okayama | 42 | 13 | 19 | 10 | 49:49 | 58 |
| 11 | Thespakusatsu Gunma | 42 | 14 | 15 | 13 | 44:44 | 57 |
| 12 | Fujieda MYFC | 42 | 14 | 10 | 18 | 61:72 | 52 |
| 13 | Blaublitz Akita | 42 | 12 | 15 | 15 | 37:44 | 51 |
| 14 | Roasso Kumamoto | 42 | 13 | 10 | 19 | 52:53 | 49 |
| 15 | Tokushima Vortis | 42 | 10 | 19 | 13 | 43:53 | 49 |
| 16 | Vegalta Sendai | 42 | 12 | 12 | 18 | 48:61 | 48 |
| 17 | Mito Hollyhock | 42 | 11 | 14 | 17 | 49:66 | 47 |
| 18 | Iwaki | 42 | 12 | 11 | 19 | 45:69 | 47 |
| 19 | Tochigi SC | 42 | 10 | 14 | 18 | 39:47 | 44 |
| 20 | Renofa Yamaguchi | 42 | 10 | 14 | 18 | 37:67 | 44 |
| 21 | Omiya Ardija | 42 | 11 | 6 | 25 | 37:71 | 39 |
| 22 | Kanazawa | 42 | 9 | 8 | 25 | 41:70 | 35 |
| Player | Team | Goals |
|---|---|---|
| Juanma Delgado | V-varen Nagasaki | 26 |
| Erik | Machida Zelvia | 18 |
| Carlinhos Júnior | Shimizu S-pulse | 15 |
| H. Komori | JEF United Chiba | 14 |
| Tiago Alves | Montedio Yamagata | 13 |