The main problem, in most cases, is that you don't know the pinout diagram of a flyback transformer. So, I shall try to give you a simple method to find the primary coil input pins and also the 0 V output pin of the HV secondary coil.
-=I do not take full credit for this=-
Step 1: How to Find the 0 V Pin Connection of the Secundary Coil?
With a common digital ohmeter it is impossible to find the secondary coil pinout because its resistance is much too high. The main HV output is simple to find : this is the big red cable with the suction cup, but you need to find the 0 V pin of the secondary coil on the flyback transformer. So, I give you a simple method to find this 0v pin :
a) You need a 24 V DC power supply and a digital voltmeter set in 20 V range. Connect the + input of your voltmeter to the THT ouput plug ( in the suction cup ) and the (-) to the 0V of your power supply. Then, with the +24V output from your power supply, test each pin of your flyback transformer. When you measure a voltage between 5 and 10 V you have found the 0 V pin of your secondary coil. This is very simple... Look at the diagram and the photo below :