Depends on the job. If it requires a background check, if your medical notes have you as F (normally pre-hysto but varies by location) you're F, but I would go with Lordkat's suggestion and just miss out that one until further down the line though.
When I was applying for jobs in summer I just applied in old name even though I was out as Jack outside work and had short hair, wore a binder and dressed like a dude. Lol. No idea what people thought but the way I saw it I was better to get the job, sign a contract and then come out. If they figured me to be a butch lesbian in the process, meh!
If you pass and you already have a male name, you can give it a go. Sometimes you can get around it by being M for everything and if it comes to it and they have to do background checks or really just to keep you safe, you talk to HR and tell them your real or old name (if you haven't had a name change, or it's not been that long) and that you're actually F for records. If it's a decent place, it should end right there, and you can requests as such so that the HR person knows for hiring purposes but your bosses or people you work with would stay in the dark. People you work with don't need to know anything that doesn't affect your work and it should be treated the same as anyone with a disability that doesn't affect their work. HR would only need to know in order to process your records and get you set up for the job.
In all honestly though, I wouldn't even justify it with an answer today despite a male name, male voice, ID and so on. Once you're hired you often have to fill in more forms then but pre-hiring, why do they need to know if you're male or female on an application? The feminist side of me comes out at this point and if I see that I don't tick either box, nor any of the Mr. Mrs. Ms. Dr, etc boxes and put J as my first name. In the interview that's when they'll know but pre-interview, nah! Let them want to interview me for my talent, not based on gender.