Does Prayer affect your combat lvl?

Yes, it does, but it doesn’t affect as much as hp, attack, strength, defence, magic, or ranged do.

Yup it does

yes it does, thats why zezima is only lvl 125 not 126 because his/her prayer is only 96 or so

Is that the only thing he doesnt have 99? And thank you

No, his slayer is 86