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| 16.01.1999 | UE Lleida | - | Recreativo Huelva | 0:2 | ||
| Rayo Vallecano | - | CD Leganés | 1:0 | |||
| CD Logroñés | - | CP Mérida | 2:1 | |||
| 17.01.1999 | SD Eibar | - | Albacete | 0:1 | ||
| SD Compostela | - | Sevilla FC | 1:0 | |||
| UD Las Palmas | - | Hércules CF | 4:2 | |||
| Atlético Madrid B | - | CD Badajoz | 1:1 | |||
| CD Numancia | - | CD Ourense | 4:0 | |||
| Sporting Gijón | - | FC Barcelona B | 2:1 | |||
| Málaga CF | - | CD Toledo | 3:0 | |||
| RCD Mallorca B | - | CA Osasuna | 1:1 |
| » Classement | équipe recevante | à l'extérieur | Premier tour | Second tour |
| # | Équipe | M. | G. | N. | P. | Buts | Diff. | Pts. | |
|---|---|---|---|---|---|---|---|---|---|
| 1 |
|
CD Numancia | 20 | 12 | 4 | 4 | 37:15 | 22 | 40 |
| 2 |
|
Rayo Vallecano | 20 | 10 | 7 | 3 | 30:26 | 4 | 37 |
| 3 |
|
CA Osasuna | 20 | 10 | 6 | 4 | 27:14 | 13 | 36 |
| 4 |
|
Málaga CF | 20 | 10 | 6 | 4 | 31:22 | 9 | 36 |
| 5 |
|
CD Toledo | 20 | 10 | 6 | 4 | 27:20 | 7 | 36 |
| 6 |
|
UD Las Palmas | 20 | 9 | 8 | 3 | 32:17 | 15 | 35 |
| 7 |
|
UE Lleida | 20 | 8 | 8 | 4 | 25:19 | 6 | 32 |
| 8 |
|
Sevilla FC | 20 | 8 | 6 | 6 | 23:22 | 1 | 30 |
| 9 |
|
CD Logroñés | 20 | 8 | 6 | 6 | 29:29 | 0 | 30 |
| 10 |
|
Recreativo Huelva | 20 | 8 | 5 | 7 | 16:13 | 3 | 29 |
| 11 |
|
SD Compostela | 20 | 7 | 7 | 6 | 27:22 | 5 | 28 |
| 12 |
|
Atlético Madrid B | 20 | 7 | 7 | 6 | 30:26 | 4 | 28 |
| 13 |
|
CP Mérida | 20 | 7 | 6 | 7 | 22:18 | 4 | 27 |
| 14 |
|
RCD Mallorca B | 20 | 8 | 3 | 9 | 25:28 | -3 | 27 |
| 15 |
|
CD Badajoz | 20 | 6 | 5 | 9 | 15:16 | -1 | 23 |
| 16 |
|
Albacete | 20 | 6 | 5 | 9 | 16:21 | -5 | 23 |
| 17 |
|
CD Leganés | 20 | 5 | 6 | 9 | 18:26 | -8 | 21 |
| 18 |
|
Hércules CF | 20 | 5 | 4 | 11 | 18:31 | -13 | 19 |
| 19 |
|
Sporting Gijón | 20 | 4 | 6 | 10 | 14:26 | -12 | 18 |
| 20 |
|
SD Eibar | 20 | 4 | 3 | 13 | 13:30 | -17 | 15 |
| 21 |
|
CD Ourense | 20 | 4 | 3 | 13 | 17:37 | -20 | 15 |
| 22 |
|
FC Barcelona B | 20 | 3 | 5 | 12 | 21:35 | -14 | 14 |
