Tom's Hardware: Topic PCIe 2.0 slots running at different speeds?whats the difference?
Tom's Hardware > Forum > Motherboards & Memory > Chipsets & Bios > PCIe 2.0 slots running at different speeds?whats the difference?
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The difference is in the bandwidth. x16 constitues the number of lanes, with 2.0 the bandwidth is 500MB/S per lane, with 1.x it is 250MB/S.
The difference between PCI-E x16 2.0 and 1.x should be neglectible for that card, however putting it in a slot running in x4 will most likely result in a performance loss. How much you would loose depends on the rest of your computer.
Just remember that x1, x2, x4, x8, and x16 slots are all physically different, but due to the nature of your question I think you are already aware of that. 
G'luck!
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