Ok, ok, my mistake.
This is your board's relevant part
3 x PCIe
2.0 x16 (dual x16 or x16, x8, x8)
2 x PCIe x1
1 x PCI
The 2 PCIe x1 are 1.0. So I'm still right.
Newegg.ca - SYBA SY-PEX40039 PCI-Express 2.0 SATA III (6.0Gb/s) Controller Card
Compliant with PCI-Express Specification V2.0 and Backward Compatible with PCI-Express 1.x
I think you are a bit confused between PCIe interface lenght (the number of lanes) and PCIe version.
The card linked has a x1 PCIe interface. x1 means that the interface length is short, and there is only one PCIe "lane" (one for up and one for down transfers).
The PCIe version (the 1.0 and 2.0) determines the speed of each of such "lanes". A 1.0 PCIe lane gives you at max 250 mb/s up AND down
per lane. A 2.0 PCIe lane gives you 500 MB/s up and down
per lane. A 3.0 PCIe gives you 1 GB/s up and down per lane (if both card and slot are PCIe 3.0).
This means that a PCIe 2.0 x1 card is equivalent in bandwith to a PCIe 1.0 x2 card, but the 1.0 card needs twice as much lanes.
"Backwards compatible" means that a PCIe 2.0 card can run at PCIe 1.0 speed if it is placed in a 1.0 slot (and it's actually logic, the faster interface is bottlenecked by the slower one).
So each of its 2.0 lanes will work at half bandwidth, and it will be as if you bought a PCIe 1.0 card.
To get more bandwidth and get decent score in that benchmark you must
place that card in a PCIe 2.0 slot (as you cannot really do anything else with the x1 slots on your mobo as they are too slow for a SSD), which in your board is one of the big x16 ones for additional graphic cards. This way even if the card will still have only one lane (as the card is still x1) each lane has 500 MB/s which will be enough to run the SSD.
It will waste 15 lanes, but at least the only lane it uses will be a PCIe 2.0 lane, so you get the full 500 MB/s you so desperately need for your SSD.
Can you please trust me a little and try it?

The benchmark will prove me right.