Had a similar problem. The problem is caused by the fact that the image sequence changed attributes in the middle of the sequence. I rendered about 1000 frames of 3D as tiff, then in a subsequent render, re-rendered only 600 tiff frames, but the second time around i saved the newer images in a compressed format. AFX had dificulty transitioning between the compressed and uncompressed images in the sequence.
My Solution: re-render the remaining 400 frames in the same format as the first 600.