| Standings | P | W | D | L | GD | PTS | |
|---|---|---|---|---|---|---|---|
| 1 | Mito Hollyhock | 25 | 15 | 6 | 4 | 19 | 51 |
| 2 | JEF United Chiba | 25 | 13 | 6 | 6 | 13 | 45 |
| 3 | Tokushima Vortis | 25 | 12 | 8 | 5 | 13 | 44 |
| 4 | V-Varen Nagasaki | 25 | 11 | 9 | 5 | 5 | 42 |
| 5 | Vegalta Sendai | 25 | 11 | 9 | 5 | 5 | 42 |
| 6 | Sagan Tosu | 25 | 12 | 6 | 7 | 4 | 42 |
| 7 | Omiya Ardija | 25 | 11 | 8 | 6 | 12 | 41 |
| 8 | Jubilo Iwata | 25 | 11 | 5 | 9 | 3 | 38 |
| 9 | Imabari | 25 | 9 | 10 | 6 | 6 | 37 |
| 10 | Ventforet Kofu | 25 | 9 | 8 | 8 | 2 | 35 |
| 11 | Hokkaido Consadole Sapporo | 25 | 10 | 4 | 11 | -9 | 34 |
| 12 | Iwaki SC | 25 | 7 | 9 | 9 | -2 | 30 |
| 13 | Fujieda MYFC | 25 | 7 | 8 | 10 | -4 | 29 |
| 14 | Oita Trinita | 25 | 6 | 10 | 9 | -4 | 28 |
| 15 | Blaublitz Akita | 25 | 8 | 4 | 13 | -11 | 28 |
| 16 | Montedio Yamagata | 25 | 7 | 5 | 13 | -3 | 26 |
| 17 | Roasso Kumamoto | 25 | 6 | 6 | 13 | -10 | 24 |
| 18 | Kataller Toyama | 25 | 5 | 8 | 12 | -10 | 23 |
| 19 | Renofa Yamaguchi | 25 | 3 | 11 | 11 | -10 | 20 |
| 20 | Ehime FC | 25 | 2 | 10 | 13 | -19 | 16 |
