Problem: Sequence has different length then clip

I have 2 clips in FCP that I have set in and out values such that they both have the same duration (00:03:11;12). They are 2 different angles of the same event.
When I create a new sequence and drop one of these clips into the timeline, the sequence duration is 6 frames more then the clip it was created from (00:03:11;18).
I can't understand why this is happening. I have done this exact same process with other 2 other clips and the timeline duration matched the clip duration, exactly.
I'm doing this so I can create a composite image from both clips such that one clip is playing in the background while a scaled down version of the other clip is playing in the foreground.
This duration change is a problem because the 2 original clips and the third composited clip are going to be brought in DVD Studio Pro to provide 3 camera angles. In order to create the 3 camera angles, all clips must have the exact same duration.
I don't just want to set an out on the sequence that is 6 frames shorter because 1) I should not have to do this and 2) it may mess-up the video sync between the different camera angles.
How do I fix this?

I converted these a bunch of clips to DV from other formats. It seems some of these clips use drop frame and some do not use drop frame. The video that was having problems was not drop-frame, but the sequence was using drop frame. When I changed my sequence settings not use drop frame, the timing was correct.
Not sure why there is a difference in the conversions, but at least I know what caused the timing difference.
Thanks.

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    I didn't post an update, but a couple days ago, I found the problem would go away sometimes. Restarting the computer, then relaunching PrPro CS4 would sometimes get me to where the yellow "media pending" problem on rendered segments would not occur.

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