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| Classement | Premier tour | » Second tour |
| # | Équipe | M. | G. | N. | P. | Buts | Diff. | Pts. | |
|---|---|---|---|---|---|---|---|---|---|
| 1 |
|
Avispa Fukuoka | 21 | 14 | 5 | 2 | 29:11 | 18 | 47 |
| 2 |
|
Tokushima Vortis | 21 | 12 | 5 | 4 | 32:16 | 16 | 41 |
| 3 |
|
V-Varen Nagasaki | 21 | 12 | 4 | 5 | 37:19 | 18 | 40 |
| 4 |
|
Montedio Yamagata | 21 | 12 | 3 | 6 | 39:20 | 19 | 39 |
| 5 |
|
Matsumoto Yamaga | 21 | 9 | 8 | 4 | 24:17 | 7 | 35 |
| 6 |
|
Júbilo Iwata | 21 | 9 | 6 | 6 | 26:23 | 3 | 33 |
| 7 |
|
Mito HollyHock | 21 | 9 | 4 | 8 | 34:30 | 4 | 31 |
| 8 |
|
Ventforet Kofu | 21 | 8 | 7 | 6 | 20:17 | 3 | 31 |
| 9 |
|
Thespakusatsu Gunma | 21 | 9 | 3 | 9 | 23:26 | -3 | 30 |
| 10 |
|
Tochigi SC | 21 | 7 | 7 | 7 | 21:19 | 2 | 28 |
| 11 |
|
FC Ryūkyū | 21 | 8 | 3 | 10 | 26:24 | 2 | 27 |
| 12 |
|
Omiya Ardija | 21 | 7 | 6 | 8 | 26:28 | -2 | 27 |
| 13 |
|
Albirex Niigata | 21 | 7 | 6 | 8 | 26:29 | -3 | 27 |
| 14 |
|
JEF United Chiba | 21 | 7 | 6 | 8 | 20:25 | -5 | 27 |
| 15 |
|
Tokyo Verdy | 21 | 6 | 8 | 7 | 23:26 | -3 | 26 |
| 16 |
|
Fagiano Okayama | 21 | 6 | 8 | 7 | 21:27 | -6 | 26 |
| 17 |
|
Kyoto Sanga FC | 21 | 7 | 4 | 10 | 21:25 | -4 | 25 |
| 18 |
|
Zweigen Kanazawa | 21 | 5 | 7 | 9 | 26:36 | -10 | 22 |
| 19 |
|
Giravanz Kitakyushu | 21 | 5 | 6 | 10 | 24:29 | -5 | 21 |
| 20 |
|
FC Machida Zelvia | 21 | 5 | 5 | 11 | 18:31 | -13 | 20 |
| 21 |
|
Ehime FC | 21 | 4 | 5 | 12 | 17:39 | -22 | 17 |
| 22 |
|
Renofa Yamaguchi | 21 | 4 | 2 | 15 | 21:37 | -16 | 14 |
| Promotion |
