First Round
| Team 1 | Agg. | Team 2 | 1st leg | 2nd leg |
|---|---|---|---|---|
| Southern-Mediterranean region | ||||
| FK Pobeda | 2–4 | Farul Constanţa | 2–2 | 0–2 |
| UE Sant Julià | 0–8 | NK Maribor | 0–3 | 0–5 |
| Ethnikos Achna FC | 5–4 | KF Partizani | 4–2 | 1–2 |
| NK Zrinjski | 4–1 | Marsaxlokk F.C. | 3–0 | 1–1 |
| Central-East region | ||||
| Kilikia FC | 1–8 | FC Dinamo Tbilisi | 1–5 | 0–3 |
| FC Shakhter | 4–6 | MTZ-RIPO Minsk | 1–5 | 3–1 |
| FC Nitra | 12–2 | CS Grevenmacher | 6–2 | 6–0 |
| FK MKT Araz Imisli | 1–2 | FC Tiraspol | 1–0 | 0–2 |
| Northern region | ||||
| Keflavik ÍF | 4–1 | Dungannon Swifts F.C. | 4–1 | 0–0 |
| Dinaburg FC | 2–1 | Havnar Bóltfelag | 1–1 | 1–0 |
| Tampere United | 8–1 | Carmarthen Town F.C. | 5–0 | 3–1 |
| Narva Trans | 1–8 | Kalmar FF | 1–6 | 0–2 |
| FK Vėtra | 0–5 | Shelbourne F.C. | 0–1 | 0–4 |
Read more about this topic: 2006 UEFA Intertoto Cup
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“Violence upon the roads: violence of horses;
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—William Butler Yeats (1865–1939)