Extremely Bizarre Flicker (not interlacing)

i have footage that i'm trying to export as a quicktime movie but under different encoding. right now i'm trying to export using cinepack or mp4 and with both the product i get flickers on only the edit points. it's as if all the individual segments have been stretched out one frame and there is blank space causing the flicker.
any ideas at all?

Are you viewing this on an external monitor? What video codec are you editing?
Please provide more details on system, versions, etc.

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