Is there any limitation of the sample clock of SignaltapII

TimeQuest will analyze your design with SignalTap, so if it fails timing, you will know about it. (If you sample logic from another clock domain, and have cut timing between that domain and the one SignalTap is using, then it naturally won't be analyzed). It should be able to run 200Mhz without much difficulty. It's little more than shift-registers sampling data and sending it into memory. The logic levels are low, but the placement can be difficult.