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| 23.04.2016 | 06:00 | FC Machida Zelvia | - | V-Varen Nagasaki | 1:0 (0:0) | |
| 06:00 | Renofa Yamaguchi | - | JEF United Chiba | 4:2 (3:1) | ||
| 06:00 | Hokkaido Consadole Sapporo | - | Cerezo Osaka | 1:0 (0:0) | ||
| 07:00 | Tokyo Verdy | - | Mito HollyHock | 0:3 (0:1) | ||
| 09:00 | Ehime FC | - | Kamatamare Sanuki | 1:0 (0:0) | ||
| 09:00 | Giravanz Kitakyushu | - | Shimizu S-Pulse | 1:2 (1:0) | ||
| 09:00 | Zweigen Kanazawa | - | FC Gifu | 1:2 (0:2) | ||
| 09:00 | Kyoto Sanga FC | - | Tokushima Vortis | 0:1 (0:1) | ||
| 11:30 | Matsumoto Yamaga | - | Thespakusatsu Gunma | 2:1 (1:0) | ||
| 12:00 | Fagiano Okayama | - | Montedio Yamagata | 0:1 (0:0) | ||
| 07.09.2016 | 12:00 | Roasso Kumamoto | - | Yokohama FC | 0:1 (0:0) |
| » Classement | équipe recevante | à l'extérieur | Premier tour | Second tour |
| # | Équipe | M. | G. | N. | P. | Buts | Diff. | Pts. | |
|---|---|---|---|---|---|---|---|---|---|
| 1 |
|
FC Machida Zelvia | 9 | 6 | 2 | 1 | 11:4 | 7 | 20 |
| 2 |
|
Cerezo Osaka | 9 | 6 | 2 | 1 | 11:5 | 6 | 20 |
| 3 |
|
Hokkaido Consadole Sapporo | 9 | 5 | 2 | 2 | 13:6 | 7 | 17 |
| 4 |
|
Matsumoto Yamaga | 9 | 4 | 3 | 2 | 11:7 | 4 | 15 |
| 5 |
|
Fagiano Okayama | 9 | 4 | 3 | 2 | 12:9 | 3 | 15 |
| 6 |
|
Shimizu S-Pulse | 9 | 4 | 3 | 2 | 10:7 | 3 | 15 |
| 7 |
|
Renofa Yamaguchi | 9 | 4 | 3 | 2 | 13:12 | 1 | 15 |
| 8 |
|
FC Gifu | 9 | 5 | 0 | 4 | 12:15 | -3 | 15 |
| 9 |
|
Yokohama FC | 9 | 4 | 2 | 3 | 10:6 | 4 | 14 |
| 10 |
|
Kamatamare Sanuki | 9 | 4 | 2 | 3 | 13:12 | 1 | 14 |
| 11 |
|
Roasso Kumamoto | 9 | 4 | 2 | 3 | 8:7 | 1 | 14 |
| 12 |
|
JEF United Chiba | 9 | 4 | 2 | 3 | 10:10 | 0 | 14 |
| 13 |
|
Ehime FC | 9 | 3 | 4 | 2 | 8:9 | -1 | 13 |
| 14 |
|
Kyoto Sanga FC | 9 | 2 | 5 | 2 | 10:11 | -1 | 11 |
| 15 |
|
Mito HollyHock | 9 | 2 | 3 | 4 | 9:9 | 0 | 9 |
| 16 |
|
Tokyo Verdy | 9 | 2 | 3 | 4 | 5:9 | -4 | 9 |
| 17 |
|
Tokushima Vortis | 9 | 2 | 2 | 5 | 8:12 | -4 | 8 |
| 18 |
|
V-Varen Nagasaki | 9 | 1 | 5 | 3 | 6:11 | -5 | 8 |
| 19 |
|
Thespakusatsu Gunma | 9 | 2 | 1 | 6 | 8:9 | -1 | 7 |
| 20 |
|
Montedio Yamagata | 9 | 1 | 3 | 5 | 7:11 | -4 | 6 |
| 21 |
|
Zweigen Kanazawa | 9 | 1 | 2 | 6 | 9:14 | -5 | 5 |
| 22 |
|
Giravanz Kitakyushu | 9 | 1 | 2 | 6 | 5:14 | -9 | 5 |
| Promotion | |
| Play-off | |
| Relégation | |
| Relégation |
