How can analog signals are measured every several counters from Quadrature Encoder using USB-6221

how can I sample analog signals every counters from quadrature encoder using usb-6621?

There is a well documented example of what you are trying to do at :
http://zone.ni.com/devzone/explprog.nsf/webmain/DD85F07A7CA99F8F862568690062DE54?opendocument
Don't be afraid because of the BNC-2120. It is just used in this example to simulate the pulses from a device. So it is not needed in your case. Obviously, you will need to change the number of increments/rev according to your encoder to get correct RPM values.

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