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if you use incest patch, then yes. 

The dad situation will be revealed in the future updates, but you can pretty much guess it at this point why they never talked about them, there's some subtle hints too (though probably still not enough to correctly guess it). 

There will be no NTR, as one of the main event imply. Any plot that looks like it's going to be an NTR is actually a fight against NTR, like how beast MC killed the bandits mercilessly. 

There will be impregnation (optional), but it will only go as far as dialogue change and insemination picture during sex animation, but no pregnancy. It's hard to implement optional pregnancy since the story will always going forward. 

Well this is a harem game, so all main character will get an equal focus on their story, but Mira is also a main character.

I hope that answer your questions :)