This is a tough one and it happens in our facility all the time. According to the CPT book, you could charge the physical code for the physical part and then an E/M for the vaginal discharge with a 25 modifier. In our office, however, we go back to what the chief complaint is, which in this case was for a female yearly physical. If the office notes talk more about the physical, I personally would code the visit with the physical code having V72.31 as primary and 616.10 as secondary. Then use the 616.10(or whatever your dr wants to use) for the tests that were run for the discharge.
Just my opinion though
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