Water leak in cargo area

Over the last few days we have been getting some rain. I opened the lift gate this morning and opened up the storage area to find that my bungee cords had mold on them. I removed the tray and found that the entire tire well was soaking wet. Nothing in the main cargo area is damp but quite a bit of water came in and was funneled down to the floor. Has anyone else had problems with water leaks? I am currently at the dealer hoping they will dry it out and find the problem. Thanks!