2006 LFF Lyga
Final tables of the Lithuanian Championship in 2006 are presented below. The Lithuanian Football Federation (LFF) organized three football leagues: A Lyga (the highest), 1 Lyga (second-tier), and 2 Lyga (third-tier), which comprised three regional zones.
A Lyga
| Position | Club | Games played | Wins | Draws | Loses | Goals scored | Goals conceded | Points | Notes |
| 1 | FBK Kaunas | 36 | 28 | 4 | 4 | 85 | 30 | 88 | Qualification games in UEFA Champions League |
| 2 | Ekranas Panevėžys | 36 | 20 | 7 | 9 | 63 | 39 | 67 | Qualification games in UEFA Cup |
| 3 | Vėtra Vilnius | 36 | 17 | 10 | 9 | 49 | 35 | 61 | Qualification games in Intertoto Cup |
| 4 | Žalgiris Vilnius | 36 | 14 | 12 | 10 | 52 | 39 | 54 | |
| 5 | Sūduva Marijampolė | 36 | 15 | 8 | 13 | 48 | 44 | 53 | |
| 6 | Atlantas Klaipėda | 36 | 14 | 10 | 12 | 46 | 41 | 52 | |
| 7 | FC Vilnius | 36 | 11 | 14 | 11 | 46 | 40 | 47 | |
| 8 | KFK Šiauliai | 36 | 10 | 11 | 15 | 42 | 46 | 41 | |
| 9 | FK Šilutė | 36 | 5 | 3 | 28 | 25 | 77 | 18 | |
| 10 | Nevėžis Kėdainiai | 36 | 4 | 5 | 27 | 35 | 100 | 17 | |
Top scorers
1 Lyga
| Position | Club | Games played | Wins | Draws | Loses | Goals scored | Goals conceded | Points |
| 1 | Kauno Jėgeriai | 34 | 23 | 7 | 4 | 75 | 28 | 76 |
| 2 | Alytis Alytus | 34 | 22 | 7 | 5 | 69 | 23 | 73 |
| 3 | Atlantas-2 Klaipėda | 34 | 19 | 8 | 7 | 70 | 35 | 65 |
| 4 | Kruoja Pakruojis | 34 | 17 | 9 | 8 | 71 | 36 | 60 |
| 5 | Rodiklis Kaunas | 34 | 17 | 7 | 10 | 70 | 44 | 58 |
| 6 | Vėtra-2 Vilnius | 34 | 15 | 7 | 12 | 64 | 40 | 52 |
| 7 | Interas Visaginas | 34 | 15 | 7 | 12 | 59 | 47 | 52 |
| 8 | LKKA ir Teledema Kaunas | 34 | 15 | 7 | 12 | 50 | 53 | 52 |
| 9 | Žalgiris-2 Vilnius | 34 | 13 | 7 | 14 | 42 | 42 | 46 |
| 10 | FC Vilnius-2 | 34 | 10 | 12 | 12 | 51 | 51 | 42 |
| 11 | Sūduva-2 Marijampolė | 34 | 12 | 5 | 17 | 44 | 65 | 41 |
| 12 | Banga Gargždai | 34 | 9 | 12 | 13 | 44 | 49 | 39 |
| 13 | KFK Šiauliai-2 | 34 | 11 | 6 | 17 | 51 | 69 | 39 |
| 14 | Vilkmergė Ukmergė | 34 | 10 | 8 | 16 | 40 | 51 | 38 |
| 15 | Lietava Jonava | 34 | 9 | 11 | 14 | 43 | 56 | 38 |
| 16 | Atletas Kaunas | 34 | 8 | 10 | 16 | 39 | 47 | 34 |
| 17 | Geležinis Vilkas Vilnius | 34 | 7 | 10 | 17 | 37 | 55 | 31 |
| 18 | Babrungas Plungė | 34 | 3 | 2 | 29 | 24 | 152 | 11 |
2 Lyga
2 Lyga zone South
| Position | Club | Games played | Wins | Draws | Loses | Goals scored | Goals conceded | Points |
| 1 | FSK Anykšǒiai | 18 | 12 | 1 | 5 | 37 | 23 | 37 |
| 2 | Vidzgiris Alytus | 18 | 11 | 2 | 5 | 47 | 19 | 35 |
| 3 | Sveikata Kybartai | 18 | 11 | 2 | 5 | 37 | 24 | 35 |
| 4 | Spyris Kaunas | 18 | 10 | 4 | 4 | 35 | 26 | 31 |
| 5 | Utenis Utena | 18 | 7 | 4 | 7 | 29 | 30 | 25 |
| 6 | FK Prienai | 18 | 6 | 3 | 9 | 38 | 41 | 21 |
| 7 | Nevėžis-2 Kėdainiai | 18 | 6 | 3 | 9 | 28 | 35 | 21 |
| 8 | SC-Savingė Kaišiadorys | 18 | 5 | 6 | 7 | 21 | 33 | 21 |
| 9 | LVDK Kaunas | 17 | 4 | 2 | 11 | 28 | 35 | 14 |
| 10 | FK Kalvarija | 17 | 3 | 1 | 13 | 12 | 46 | 10 |
2 Lyga zone West
| Position | Club | Games played | Wins | Draws | Loses | Goals scored | Goals conceded | Points |
| 1 | SM Šilutė-2 | 20 | 16 | 3 | 1 | 88 | 12 | 51 |
| 2 | Sakuona Plikiai | 20 | 17 | 0 | 3 | 96 | 23 | 51 |
| 3 | Tauras ir ERRA Tauragė | 20 | 13 | 3 | 4 | 71 | 28 | 42 |
| 4 | Švyturys Klaipėda | 20 | 12 | 3 | 5 | 55 | 23 | 39 |
| 5 | Glestum Klaipėda | 20 | 12 | 3 | 5 | 48 | 22 | 39 |
| 6 | Minija Kretinga | 20 | 9 | 4 | 7 | 40 | 30 | 31 |
| 7 | Bangele Gargždai | 20 | 8 | 1 | 11 | 40 | 42 | 25 |
| 8 | Salantas Salantai | 20 | 5 | 1 | 14 | 23 | 66 | 16 |
| 9 | Piritas Klaipėda | 20 | 4 | 2 | 14 | 25 | 48 | 14 |
| 10 | FK Pagėgiai | 20 | 3 | 1 | 16 | 18 | 96 | 10 |
| 11 | FK Skuodas | 20 | 0 | 1 | 19 | 11 | 125 | 1 |
2 Lyga zone North
| Position | Club | Games played | Wins | Draws | Loses | Goals scored | Goals conceded | Points |
| 1 | Ekranas-2 Panevėžys | 21 | 15 | 4 | 2 | 42 | 16 | 49 |
| 2 | Kražantė Kelmė | 21 | 13 | 4 | 4 | 44 | 22 | 43 |
| 3 | FK Mažeikiai | 21 | 11 | 5 | 5 | 57 | 26 | 38 |
| 4 | Rinkuškiai Biržai | 21 | 8 | 3 | 10 | 27 | 28 | 27 |
| 5 | Juventa-99 Šiauliai | 21 | 7 | 6 | 8 | 25 | 22 | 27 |
| 6 | Venta Kuršėnai | 21 | 6 | 5 | 10 | 26 | 35 | 23 |
| 7 | Mastis Telšiai | 21 | 5 | 3 | 13 | 22 | 39 | 18 |
| 8 | SC Akmenė-Šiauliai-3 | 21 | 4 | 0 | 17 | 23 | 78 | 12 |
References
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| | UEFA competitions | |
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| | League cups | |
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| | UEFA competitions | |
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Serhiy Kuznetsov (Vėtra) - 18 goals
Mantas Savėnas (Ekranas) - 16 goals
Edin Pehlić (Kaunas) - 13 goals