When in the extended memory range with all slots occupied, the DIMMs will run at 800MHz clock (PC3-8500R Quad Rank). I have a similar configuration in a 4,1 flashed to 5,1 FW on High Sierra with 128GB Kingston KTH-PL310Q/16G installed.
Note that dropping down to 96GB should allow for the full 1066MHz rated specification of the manufacturer but the capacity trade off may hinder your workload. There is an imperceptible difference when running VMs or other non-compute critical tasks where high frequency RAM paging is not required.
The answer, as it usually is, is depends. My general rule of thumb is more memory is better than faster memory when that additional memory is utilized. For example if your memory requirements are 102GB then 128GB of 800MHz memory is usually preferable to 96GB of 1333MHz memory. However if your memory requirements are 80GB then 96GB of 1333MHz is preferable. Though in the latter case it's unlikely you would really notice a difference between 800MHz and 1333MHz when using most applications. There are circumstances where the faster memory is necessary but for the major or work more memory capacity is preferable to higher memory speed (within reason).
If you're happy with the performance then that's all that's important. If you just purchased this memory I would ask the seller if you could exchange it for dual ranked modules and have the best of both worlds.