As long as you paid your Jizya tax, you were allowed to practice your religion (as long as they were of the Book, Judaism/Christianity as accordance with Islam, Otherwise you had to convert). The religious community under Catholics and Orthodox were essentially given some communal autonomy under the Millet system and very much tolerated. These religious groups would receive even more benefits, as European nations (Western Europe, Imperial Russia) began to become more powerful and influence Ottoman Empire.

I think this question would benefit from more specification. The Ottoman empire spanned over 500 years, stretched thousands of miles, had many minority groups (not just religious though that was the primary identifier), and had a couple restructurings. A time specified time period would make this question much easier to answer, pre-conquest of Constantinople, between the conquest of Constantinople and the sieges of Vienna, the 17th century, the Tanizmat era, the Young Turk era.

for the general period, /u/LETTERSAREMOVING's answer is a simplistic correct answer but what was Jizya tax payment was, how it was levied, who levied it, and what communal autonomy meant varied over the life of the Ottoman empire.