If you have cygwin installed, from it's bash shell, run your executable, say MyProgram, using the time utility, like so:
/usr/bin/time ./MyProgram
This will report how long the execution of your program took -- the output would look something like the following:
real 0m0.792s
user 0m0.046s
sys 0m0.218s
You could also manually modify your C program to instrument it using the clock() library function, like so:
#include <time.h>
int main(void) {
clock_t tStart = clock();
/* Do your stuff here */
printf("Time taken: %.2fs\n", (double)(clock() - tStart)/CLOCKS_PER_SEC);
return 0;
}