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| 30/09/2006 | 07:00 | FC Tokyo | - | Albirex Niigata | 1:4 (1:2) | |
| 07:00 | Kawasaki Frontale | - | Sanfrecce Hiroshima | 3:3 (0:1) | ||
| 07:00 | Yokohama F. Marinos | - | Júbilo Iwata | 0:1 (0:0) | ||
| 09:00 | Kyoto Purple Sanga | - | Urawa Red Diamonds | 1:5 (1:3) | ||
| 10:30 | JEF United Chiba | - | Oita Trinita | 2:1 (0:0) | ||
| 11:00 | RB Omiya Ardija | - | Nagoya Grampus Eight | 1:4 (1:2) | ||
| 11:00 | Cerezo Osaka | - | Kashima Antlers | 2:2 (0:1) | ||
| 01/10/2006 | 07:00 | Ventforet Kofu | - | Gamba Osaka | 3:2 (1:0) | |
| 07:00 | Shimizu S-Pulse | - | Avispa Fukuoka | 4:0 (2:0) |
| » Tables | Home | Away | First round | Second round | First half | Second half |
| # | Team | M. | W | D | L | goals | Dif. | Pt. | |
|---|---|---|---|---|---|---|---|---|---|
| 1 |
|
Urawa Red Diamonds | 25 | 17 | 4 | 4 | 52:19 | 33 | 55 |
| 2 |
|
Gamba Osaka | 25 | 17 | 4 | 4 | 64:32 | 32 | 55 |
| 3 |
|
Kawasaki Frontale | 25 | 14 | 6 | 5 | 61:39 | 22 | 48 |
| 4 |
|
Shimizu S-Pulse | 25 | 15 | 2 | 8 | 46:28 | 18 | 47 |
| 5 |
|
Kashima Antlers | 25 | 14 | 4 | 7 | 44:38 | 6 | 46 |
| 6 |
|
Oita Trinita | 25 | 11 | 6 | 8 | 40:35 | 5 | 39 |
| 7 |
|
JEF United Chiba | 25 | 11 | 5 | 9 | 47:42 | 5 | 38 |
| 8 |
|
Júbilo Iwata | 25 | 10 | 7 | 8 | 48:37 | 11 | 37 |
| 9 |
|
Yokohama F. Marinos | 25 | 10 | 5 | 10 | 40:31 | 9 | 35 |
| 10 |
|
Albirex Niigata | 25 | 10 | 3 | 12 | 35:50 | -15 | 33 |
| 11 |
|
Nagoya Grampus Eight | 25 | 8 | 7 | 10 | 40:42 | -2 | 31 |
| 12 |
|
Ventforet Kofu | 25 | 9 | 4 | 12 | 33:52 | -19 | 31 |
| 13 |
|
RB Omiya Ardija | 25 | 9 | 3 | 13 | 31:44 | -13 | 30 |
| 14 |
|
FC Tokyo | 25 | 8 | 3 | 14 | 40:47 | -7 | 27 |
| 15 |
|
Sanfrecce Hiroshima | 25 | 7 | 6 | 12 | 34:45 | -11 | 27 |
| 16 |
|
Kyoto Purple Sanga | 25 | 4 | 6 | 15 | 31:60 | -29 | 18 |
| 17 |
|
Cerezo Osaka | 25 | 4 | 5 | 16 | 31:55 | -24 | 17 |
| 18 |
|
Avispa Fukuoka | 25 | 2 | 10 | 13 | 23:44 | -21 | 16 |
