Jonas converted a penalty nine minutes from the interval as Valencia finished on 13 points, level with Bayern Munich but behind the German team because of a worse head-to-head record.
Lille finished bottom with three points, three adrift of Europa League-bound BATE Borisov.
Valencia were without new coach Ernesto Valverde who will effectively take over from the sacked Mauricio Pellegrino on Thursday.
(Writing by Julien Pretot; Editing by Ed Osmond)
- Sports & Recreation
- Bayern Munich