(最常用的一个)直译:You have misunderstood me.
其它:Don't get me wrong.别误会(我)。 You just got me wrong.
There is a misunderstanding between us.
There appears to have been a misunderstanding(between us).
Maybe you have mistaken what I mean(or my meaning).
另外,misapprehend、misjudge也含有误会、误解之意。
You misunderstood me.
You are mistaken about me.
You have misunderstood me
you've misunderstood me
you've got me wrong