I did the same thing on my first quilt. I just finished the area in the hoop, then took it out and started again in the middle, and hand quilted from there. I kept freaking out because I couldn't see the middle half of the time. It worked out finethough. The bunching up was mostly around the edge at the end when i couldn't fit it in a hoop anymore. But it worked out and looks fine now. I took out some of the quilting around the edge and redid it. You can always do that before you put on the binding.