Arab-Jew conflict like we have today is a relatively modern thing, starting around the turn of the 19th century and intensifying during WW2 for a variety of reasons, including oil politics for Hitler and increasing land / nationalism tensions.
An interesting book about this and Iraq in specific is Banking on Baghdad; published in 2008, it's aimed at an interested Western reader, and is a good read.
Looking at Wikipedia, https://en.wikipedia.org/wiki/History_of_the_Jews_in_the_Ott..., it seems like Jews were at the whim of the Sultan, but during the "classic" Ottoman Empire (1300-1600s), tended to prosper.
There may be counters to this, but first couple of sources I looked at indicate your initial comment either needs backing or is incorrect.