Your mobo has lots of customization options for the fans it controls, so in your case it is OK (actually, advisable) to disobey part of the instructions for how to connect the Hub and your fans. The background is this: the Hub MUST have a true PWM signal to function, and there are some mobos that do NOT do this even though they use 4-pin fan headers. Yous does do it properly.
So, unplug your Hub's single female fan connector from the CPU_FAN header, and plug it into one of the mobo CHA_FAN headers. Later I'll tell you how to configure that header. Now, unplug the H100i GTX unit's fan connector from Hub Port #1 and plug it into the CPU_FAN header. This way the CPU liquid cooler system will be connected properly to the CPU_FAN header so that its functions can be monitored by that header. Lastly, unplug ONE of your case ventilation fans from the Hub and re-connect it to that Hub's Port #1. That port is the only one that will relay the speed signal of its fan to the mobo CHA_FAN header; if it has no fan attached, the mobo will report failure of your chassis fans.
Now to configuring. Look in your mobo manual on p. 3-45 under "Chassis Fan 1 A/B Q-Fan Control...". For the specific header that you have plugged your Hub into, change its mode to PWM Mode so that it WILL send out to your Hub the required PWM signal. Next item down, "Chassis Fan 1 A/B Q-Fan Source...", for that same header, set to "MB". This will make sure the case fans connected to the Hub are guided by the temperature sensor built into the Motherboard, and not by the one inside the CPU chip. After making changes, make sure to SAVE and EXIT so your new settings become permanent.
This process will place only the H100i system that cools your CPU chip under the CPU_FAN control system (which is guided by a temperature sensor inside the CPU), and all your case fans (connected to your Hub) under control of a CHA_FAN header cooling control system guided by the temperature of a sensor in the mobo. That is the ideal way to arrange.
You may find that your case fans run slowly most of the time - you have lots of cooling there! IF you want to prove to yourself that the fans can run full speed when needed, look again at manual p. 3-45. You can temporarily change the setting for "Chassis Fan 1 A/B Profile" to "Manual" and the change the "Chassis Fan 1/2/3 Upper Temperature" setting to some much lower value like 30 so that the fans are forced to go fast even at a low case temperature. When you're finished testing that way, remember to re-set these two items to normal default: "Standard" Profile and 70 degrees, then SAVE and Exit again.