Repeated and lost samples with NI-CAN

I am using LabVIEW 2009 SP1 with NI-CAN 2.7 and a series 2 CAN card on a PXI system running LabVIEW RT.
I sync'ed my DAQmx AI measurement with a NI-CAN task using the "CAN Sync Start with DAQmx". The Start is now sync'ed.
As for the samples, I created a test environment: A microcontroller sends a signal via CAN. The signal contains a value that is incremented by 1 with each new CAN message. My PXI measurement programm samples these CAN signal values alongside with DAQmx (5 KHz sample rate, reading 1000 CAN and DAQmx AI values in a while loop). The plot below shows, that sometimes the current value is not sampled, instead the last value is resampled up to 16 times, i. e. the value does stay the same as the last value where it should increment. I made sure, that the source of this effect is not the microcontroller using a third party CAN logging tool.
The picture below shows the CAN init procedure:
Does anyone know why I get these repeated CAN signal values?

I ran a new measurement for approx. 2 minutes and got 2 independent measurement data files:
the attached VI from above was slightly changed, so that the check loop now saves all received CAN data to a file
I started Vector CANalyzer on a separate Laptop that is also connected to the CAN wire, but only listening and logging in passive mode (i. e. no ACK is send so that there is no interference with the ongoing communication between PXI and the sending microcontroller)
I attached both measurement files in CSV format. You will see, that the timestamp dt from CANalyzer does not show any message holes. As for the PXI, I see ~5x repeating values.
Note: The CANalyzer timestamps are given in 10 us units. The PXI data just contains the incremented signal without timestamps.
Attachments:
testcan_measurement_data.zip ‏4167 KB

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Repeated and lost samples with NI-CAN

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