FNL 
| P | W | D | L | GF | - | GA | Pts | GD | ||
| 1. | FK Baník Most | 446 | 158 | 127 | 161 | 539 | - | 560 | 601 | (-21) |
| 2. | Fotbal Třinec | 482 | 154 | 119 | 209 | 536 | - | 695 | 581 | (-159) |
| 3. | FK Ústí nad Labem | 392 | 157 | 90 | 145 | 518 | - | 525 | 561 | (-7) |
| 4. | FC Vítkovice | 450 | 143 | 139 | 168 | 501 | - | 566 | 559 | (-65) |
| 5. | FC Fastav Zlín | 358 | 150 | 101 | 107 | 522 | - | 388 | 551 | (+134) |
| 6. | FC Vysočina Jihlava | 328 | 149 | 85 | 94 | 492 | - | 356 | 532 | (+136) |
| 7. | SFC Opava | 334 | 147 | 85 | 102 | 500 | - | 358 | 526 | (+142) |
| 8. | FK Pardubice | 392 | 135 | 97 | 160 | 468 | - | 512 | 502 | (-44) |
| 9. | MFK Karviná | 328 | 132 | 74 | 122 | 446 | - | 407 | 470 | (+39) |
| 10. | FC Hradec Králové | 268 | 119 | 88 | 61 | 362 | - | 259 | 445 | (+103) |
| 11. | FK Baník Sokolov | 270 | 109 | 78 | 83 | 364 | - | 321 | 405 | (+43) |
| 12. | Bohemians 1905 | 208 | 116 | 56 | 36 | 329 | - | 147 | 404 | (+182) |
| 13. | FK Viktoria Žižkov | 238 | 116 | 56 | 66 | 352 | - | 247 | 392 | (+105) |
| 14. | 1. HFK Olomouc | 270 | 92 | 79 | 99 | 307 | - | 341 | 355 | (-34) |
| 15. | Frýdek-Místek | 272 | 81 | 71 | 120 | 287 | - | 355 | 314 | (-68) |
| 16. | SC Xaverov | 244 | 82 | 58 | 104 | 313 | - | 366 | 304 | (-53) |
| 17. | AC Sparta Praha B | 238 | 72 | 69 | 97 | 267 | - | 295 | 285 | (-28) |
| 18. | 1. FC Slovácko | 148 | 80 | 36 | 32 | 247 | - | 145 | 276 | (+102) |
| 19. | Chmel Blšany | 182 | 76 | 47 | 59 | 248 | - | 193 | 275 | (+55) |
| 20. | FK Mladá Boleslav | 180 | 68 | 52 | 60 | 223 | - | 202 | 256 | (+21) |
| 21. | SK Dynamo České B. | 120 | 78 | 21 | 21 | 235 | - | 84 | 255 | (+151) |
| 22. | FC Zenit Čáslav | 210 | 67 | 54 | 89 | 229 | - | 298 | 255 | (-69) |
| 23. | SK Kladno | 182 | 66 | 46 | 70 | 231 | - | 214 | 244 | (+17) |
| 24. | FK Varnsdorf | 150 | 65 | 39 | 46 | 205 | - | 168 | 234 | (+37) |
| 25. | LeRK Prostějov | 208 | 56 | 63 | 89 | 220 | - | 285 | 231 | (-65) |
| 26. | FC Graffin Vlašim | 180 | 62 | 37 | 81 | 216 | - | 266 | 223 | (-50) |
| 27. | FC Viktoria Plzeň | 118 | 63 | 28 | 27 | 194 | - | 110 | 217 | (+84) |
| 28. | 1. FK Příbram | 124 | 61 | 33 | 30 | 173 | - | 104 | 216 | (+69) |
| 29. | FK MAS Táborsko | 150 | 59 | 37 | 54 | 215 | - | 202 | 214 | (+13) |
| 30. | SK Sigma Olomouc B | 178 | 52 | 44 | 82 | 203 | - | 267 | 200 | (-64) |
| 31. | FK Dukla Praha | 120 | 51 | 33 | 36 | 173 | - | 128 | 186 | (+45) |
| 32. | 1. SC Znojmo | 150 | 49 | 38 | 63 | 166 | - | 189 | 185 | (-23) |
| 33. | Tatran Poštorná | 148 | 50 | 35 | 63 | 180 | - | 213 | 185 | (-33) |
| 34. | FK Bohemians Praha | 120 | 41 | 35 | 44 | 149 | - | 168 | 158 | (-19) |
| 35. | FK Teplice | 94 | 42 | 22 | 30 | 133 | - | 106 | 148 | (+27) |
| 36. | Baník Havířov | 124 | 35 | 41 | 48 | 139 | - | 177 | 146 | (-38) |
| 37. | SK Chrudim | 118 | 39 | 28 | 51 | 138 | - | 154 | 145 | (-16) |
| 38. | FC Hlučín | 150 | 35 | 40 | 75 | 144 | - | 225 | 145 | (-81) |
| 39. | Kunovice | 118 | 36 | 35 | 47 | 124 | - | 160 | 143 | (-36) |
| 40. | SK LeRK Brno | 94 | 39 | 24 | 31 | 153 | - | 123 | 141 | (+30) |
| 41. | SK Neratovice | 120 | 35 | 33 | 52 | 140 | - | 164 | 138 | (-24) |
| 42. | Lázně Bohdaneč | 90 | 34 | 30 | 26 | 100 | - | 86 | 132 | (+14) |
| 43. | Ratíškovice | 90 | 34 | 21 | 35 | 111 | - | 114 | 123 | (-3) |
| 44. | Uherské Hradiště | 92 | 33 | 18 | 41 | 119 | - | 150 | 117 | (-31) |
| 45. | FK Turnov | 94 | 28 | 24 | 42 | 85 | - | 135 | 108 | (-50) |
| 46. | FC Zbrojovka Brno B | 88 | 28 | 20 | 40 | 93 | - | 103 | 104 | (-10) |
| 47. | FC Přerov | 88 | 28 | 19 | 41 | 110 | - | 140 | 103 | (-30) |
| 48. | FC Chomutov | 90 | 26 | 17 | 47 | 110 | - | 165 | 95 | (-55) |
| 49. | Drnovice | 60 | 22 | 22 | 16 | 58 | - | 62 | 88 | (-4) |
| 50. | FK Česká Lípa | 88 | 23 | 19 | 46 | 78 | - | 133 | 88 | (-55) |
| 51. | NH Ostrava | 60 | 21 | 20 | 19 | 74 | - | 67 | 83 | (+7) |
| 52. | Švarc Benešov | 60 | 22 | 16 | 22 | 93 | - | 88 | 82 | (+5) |
| 53. | FK Baumit Jablonec | 30 | 22 | 7 | 1 | 62 | - | 17 | 73 | (+45) |
| 54. | FK Bohumín | 64 | 20 | 10 | 34 | 68 | - | 112 | 70 | (-44) |
| 55. | Kroměříž | 58 | 16 | 19 | 23 | 61 | - | 81 | 67 | (-20) |
| 56. | SK Sigma Olomouc | 30 | 19 | 6 | 5 | 64 | - | 25 | 63 | (+39) |
| 57. | Tatr. Prachatice | 58 | 15 | 15 | 28 | 59 | - | 88 | 60 | (-29) |
| 58. | Fulnek | 60 | 13 | 17 | 30 | 52 | - | 106 | 56 | (-54) |
| 59. | FC Zbrojovka Brno | 30 | 14 | 9 | 7 | 38 | - | 29 | 51 | (+9) |
| 60. | Brandýs n.Labem | 64 | 10 | 14 | 40 | 50 | - | 121 | 44 | (-71) |
| 61. | FC Slušovice | 30 | 11 | 9 | 10 | 44 | - | 38 | 42 | (+6) |
| 62. | Uherský Brod | 34 | 12 | 5 | 17 | 29 | - | 46 | 41 | (-17) |
| 63. | Jakubčovice | 30 | 10 | 7 | 13 | 35 | - | 44 | 37 | (-9) |
| 64. | FK Kolín | 60 | 8 | 12 | 40 | 48 | - | 130 | 36 | (-82) |
| 65. | Bystrc | 30 | 7 | 4 | 19 | 22 | - | 46 | 25 | (-24) |
| 66. | Sparta Krč | 30 | 4 | 12 | 14 | 27 | - | 40 | 24 | (-13) |
| 67. | Dolní Kounice | 30 | 5 | 7 | 18 | 26 | - | 59 | 22 | (-33) |
| 68. | FK Loko Vltavín Praha | 30 | 4 | 8 | 18 | 25 | - | 54 | 20 | (-29) |
Point changes:
| 1999-00 | FC Vítkovice | -9 |
| 2006-07 | FK Viktoria Žižkov | -12 |
If you like eternal table:
