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| RNK | School | Record | Conf Record | PF | PA |
| 1 |
Tulsa |
10-4 |
6-2 |
428 |
312 |
| 2 |
Tulane |
8-5 |
5-3 |
557 |
511 |
| 3 |
Marshall |
6-7 |
5-3 |
321 |
387 |
| 4 |
Central Florida |
9-4 |
5-3 |
422 |
324 |
| 5 |
SMU |
8-5 |
5-3 |
427 |
449 |
| 6 |
Southern Miss |
7-6 |
5-3 |
328 |
334 |
| 7 |
Memphis |
6-6 |
4-4 |
305 |
338 |
| 8 |
Houston |
6-6 |
4-4 |
357 |
340 |
| 9 |
UTEP |
6-7 |
3-5 |
316 |
328 |
| 10 |
Rice |
4-8 |
3-5 |
214 |
302 |
| 11 |
UAB |
4-8 |
2-6 |
287 |
321 |
| 12 |
East Carolina |
1-11 |
1-7 |
245 |
510 |
| 2006 Conference Winners |
|---|
| C-USA Winner |
|---|
| School | Record | Conf Record | PF | PA |
| Tulsa |
10-4 |
6-2 |
428 |
312 |
| Sun Belt Winner |
|---|
| School | Record | Conf Record | PF | PA |
| Florida Atlantic |
7-6 |
6-1 |
0 |
0 |
| IA Independents Winner |
|---|
| School | Record | Conf Record | PF | PA |
| Navy |
11-2 |
|
0 |
0 |
| WAC Winner |
|---|
| School | Record | Conf Record | PF | PA |
| Boise State |
13-0 |
8-0 |
0 |
0 |
| MAC Winner |
|---|
| School | Record | Conf Record | PF | PA |
| Northern Illinois |
11-2 |
8-0 |
0 |
0 |
| Mountain West Winner |
|---|
| School | Record | Conf Record | PF | PA |
| TCU |
12-1 |
8-0 |
0 |
0 |
| Pac-10 Winner |
|---|
| School | Record | Conf Record | PF | PA |
| USC |
10-3 |
7-2 |
0 |
0 |
| ACC Winner |
|---|
| School | Record | Conf Record | PF | PA |
| North Carolina State |
12-2 |
7-1 |
0 |
0 |
| Big East Winner |
|---|
| School | Record | Conf Record | PF | PA |
| West Virginia |
13-0 |
7-0 |
0 |
0 |
| Big 10 Winner |
|---|
| School | Record | Conf Record | PF | PA |
| Ohio State |
11-2 |
7-1 |
0 |
0 |
| SEC Winner |
|---|
| School | Record | Conf Record | PF | PA |
| Florida |
12-2 |
6-2 |
0 |
0 |
| Big 12 Winner |
|---|
| School | Record | Conf Record | PF | PA |
| Oklahoma State |
12-2 |
7-1 |
0 |
0 |
