Some Christians persecute and harass Muslims.
Some Muslims persecute and harass Christians.
Some Jews persecute and harass Christians.
Some Christians persecute and harass Jews.
Some Jews persecute and harass Muslims.
Some Muslims persecute and harass Jews.
The key word is "some". Most do not.
Your point is?
Check out the Middle East some time.
Edit: To add -
It seems a lot of arguments on these forums are basically "X religion has fanatical followers, but I can point to a handful who are not and therefore this proves that not all religion is bad." The problem with this is while you may have, say, gay Muslims or Catholics, or Jews who support abortion and euthanasia, etc, etc...these people have to violate the teachings of their very own religion in order to arrive at these more moral alternatives.
Sure, I'll agree that there are moral theists. But whether they are a minority or majority isn't really the point when the teachings they claim to subscribe to actively prohibit non-crimes like homosexuality, for example. Or the institutions they follow have been at the hands of abuses or are currently at the hands of abuses. Yet, they claim that institution to be moral.
These moral theists should be lauded. Their actual position is irrational, but at least they do not subscribe themselves to ideologies that willingly or not devalue humanity. And if they do, they oppose these teachings, even if not explicitly. When people are willing to kill or persecute based on a position they cannot themselves prove against one they also cannot disprove, we must question underlying motives and objectively examine them. We must not be afraid to voice our opposition for fears of being labelled "intolerant".
The irrational beliefs are harmless until people feel justified to kill and do harm to each other based on them. Then we must oppose them.