| 1. |  | SK Artis Brno | 14 | 2 | 2 | 10 | 12 | 32 | -20 | 8 |
| 2. |  | AFK Atl. Lázně Bohdaneč | 30 | 2 | 5 | 23 | 18 | 61 | -43 | 11 |
| 3. |  | FC JOKO Slovácká Slavia Uherské Hradiště | 30 | 3 | 8 | 19 | 19 | 65 | -46 | 17 |
| 4. |  | MFK Vítkovice | 30 | 3 | 7 | 20 | 22 | 64 | -42 | 13 |
| 5. |  | FK Ústí nad Labem | 30 | 4 | 7 | 19 | 22 | 67 | -45 | 19 |
| 6. |  | FK ŠVARC Benešov | 30 | 3 | 3 | 24 | 23 | 78 | -55 | 12 |
| 7. |  | 1.SC Znojmo FK | 30 | 6 | 9 | 15 | 32 | 49 | -17 | 27 |
| 8. |  | FC Karviná | 60 | 12 | 12 | 36 | 53 | 105 | -52 | 48 |
| 9. |  | FK Bohemians Praha | 60 | 14 | 8 | 38 | 60 | 111 | -51 | 50 |
| 10. |  | FC Union Cheb | 90 | 29 | 26 | 35 | 95 | 121 | -26 | 100 |
| 11. |  | FK SIAD Most | 90 | 19 | 30 | 41 | 96 | 140 | -44 | 87 |
| 12. |  | SK Kladno | 120 | 28 | 30 | 62 | 99 | 173 | -74 | 114 |
| 13. |  | FC Vysočina Jihlava | 210 | 55 | 61 | 94 | 221 | 315 | -94 | 226 |
| 14. |  | FK Chmel Blšany | 240 | 67 | 63 | 110 | 255 | 350 | -95 | 264 |
| 15. |  | FK Drnovice | 300 | 114 | 67 | 119 | 392 | 398 | -6 | 396 |
| 16. |  | Slezský FC Opava | 440 | 105 | 114 | 221 | 427 | 686 | -259 | 429 |
| 17. |  | FK Viktoria Žižkov | 420 | 144 | 106 | 170 | 478 | 539 | -61 | 526 |
| 18. |  | FK Dukla Praha | 510 | 117 | 145 | 248 | 512 | 793 | -281 | 495 |
| 19. |  | FK Pardubice | 542 | 148 | 118 | 276 | 577 | 896 | -319 | 562 |
| 20. |  | MFK Karviná | 652 | 160 | 157 | 335 | 726 | 1078 | -352 | 637 |
| 21. |  | FK VIAGEM Příbram | 770 | 213 | 192 | 365 | 780 | 1168 | -388 | 831 |
| 22. |  | FC Hradec Králové | 930 | 297 | 249 | 384 | 996 | 1224 | -228 | 1131 |
| 23. |  | FC Zbrojovka Brno | 868 | 279 | 224 | 365 | 1015 | 1207 | -192 | 1051 |
| 24. |  | FC Zlín | 1002 | 262 | 263 | 477 | 1057 | 1555 | -498 | 1039 |
| 25. |  | SK Dynamo České Budějovice | 1056 | 278 | 257 | 521 | 1121 | 1760 | -639 | 1080 |
| 26. |  | Bohemians Praha 1905 | 1186 | 353 | 330 | 503 | 1283 | 1666 | -383 | 1381 |
| 27. |  | 1.FC Slovácko | 1192 | 405 | 310 | 477 | 1374 | 1566 | -192 | 1525 |
| 28. |  | FK Teplice | 1366 | 452 | 377 | 537 | 1622 | 1849 | -227 | 1733 |
| 29. |  | FK Mladá Boleslav | 1165 | 437 | 307 | 421 | 1743 | 1658 | +85 | 1618 |
| 30. |  | SK Sigma Olomouc | 1388 | 513 | 386 | 489 | 1809 | 1705 | +104 | 1911 |
| 31. |  | FK Jablonec | 1438 | 554 | 403 | 481 | 1942 | 1776 | +166 | 2065 |
| 32. |  | FC Baník Ostrava | 1475 | 538 | 391 | 546 | 1977 | 1881 | +96 | 1991 |
| 33. |  | FC Slovan Liberec | 1485 | 604 | 398 | 483 | 2007 | 1713 | +294 | 2199 |
| 34. |  | FC Viktoria Plzeň | 1348 | 724 | 303 | 321 | 2258 | 1407 | +851 | 2463 |
| 35. |  | SK Slavia Praha | 1468 | 904 | 333 | 231 | 2823 | 1198 | +1625 | 3029 |
| 36. |  | AC Sparta Praha | 1468 | 917 | 301 | 250 | 2847 | 1347 | +1500 | 3034 |
