First leg ---- ---- ---- ---- ---- ---- ---- ---- ---- ---- ---- ---- ---- ---- ----
The game was awarded to Levadia Tallinn with a score of 3–0 due to União de Leiria fielding an ineligible player Roudolphe Douala. ---- ---- ---- ----
Second leg ''3–3 on aggregate, St Patrick's Athletic won on away goals rule.'' ----
Lokeren won 5–4 on aggregate. ----
Santa Clara won 5–3 on aggregate. ----
BATE Borisov won 4–0 on aggregate. ----
Haka won 3–2 on aggregate. ----
Zürich won 8–2 on aggregate. ----
Gloria Bistrița won 2–0 on aggregate. ----
Slaven Belupo won 6–3 on aggregate. ----
Synot won 4–0 on aggregate. ----
Helsingborgs won 1–0 on aggregate. ----
Žalgiris won 1–0 on aggregate. ----
St. Gallen won 11–1 on aggregate. ----
Dinaburg won 2–1 on aggregate. ----
Ashdod won 6–1 on aggregate. ----
Bregenz won 5–1 on aggregate. ----
Levadia Tallinn won 4–2 on aggregate. ----
Teuta won 2–1 on aggregate. ----
Coleraine won 7–2 on aggregate. ----
Marek won 3–1 on aggregate. ----
FH won 4–3 on aggregate. ==Second round==