The Teensy 3.1 (http://www.pjrc.com/store/teensy31.html ~$20) has a Flex Timer 
Module that appears to allow a single counter to be captured into independent 
registers from independent inputs. Not sure, but PJRC tends to run the clock 
fast (96MHz) so relative timing resolution should be much better than 0.1 
microseconds.

Bob LaJeunesse

> Sent: Monday, September 21, 2015 at 1:45 PM
> From: "Can Altineller" <[email protected]>
> To: "Discussion of precise time and frequency measurement" 
> <[email protected]>
> Subject: [time-nuts] algorithms and hardware for comparing clock pulses
>
>    Dear Time-nuts,
> 
>  ...  
>    I probably need a hardware to measure the time pulses more precisely. 
>  ...
>    Are there any solutions to this problem? 
>  ...
>    Best Regards,
>    Can Altineller
> _______________________________________________
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