With all due respect to the previous posters, I disagree with all of them.
First of all I do agree that you did not "need" to be in "manual". Manual is mainly useful for specific situations where
"auto" can lead to inconsistent/incorrect exposures when there is, (no "gray"), a lot of white/black subjects that can confuse the metering system, (ala wedding w/ bride in reflective-shiny white dress and groom is in absorbent-black tuxedo).
You must use EV when metering w/ anything different from a (18%) reflective (gray) subject.
But I have NO PROBLEM with you experimenting with it -- and now wondering why it didn't seem to work, (underexposed?).
And it was also true that you could/should have referred to the
metering bar. However the very point of "manual" is that you can't always trust the metering-bar in unusually lighting situations, (albeit it WOULD have been CORRECT in your situation).
NOTE that "Sunny-16" rule was first devised when cameras were all manual, (w/ no auto modes).
And called "Sunny"(-16) because only accurate from about 10:00am to about 2-3:00pm in.
So the answer could actually be VERY SIMPLE/obvious .... is the CLOCK correct ??? (it indicates 5:19 when approximately 1-2 stops darker)
You are only about 1-stop under-exposed, (maybe 1.5 but I don't think "2" stops). Note that it is even correctable in PP, (but will remain somewhat noisier than if initially exposed correctly).
IF the clock is wrong, and shot closer to noon, the "overcast" could have been thicker than normal. It also appears you were under a tree, and thus darker, (even with relatively even lighting from overcast).
I am shooting with an 180mm Nikkor/ D500
Longer than needed for this.
The distance between me and the subject is 20 meters maybe and there is heavy wind and heavy overcast
I am trying to get in to M mode shooting
Nothing "wrong" w/ shooting "M" but not needed for this type shot/situation.
The reason I choose 1/400 is because they say with long range lenses you have to double the focal length in speed. Well here we have 270 (180x1.5). Well it is not exactly double but near. I could have also done it 1/640 & iso 640
You are correct, but with stabilized lens, you can cheat on this. (2-3 stops)
The reason I chose F5.6 is because the sunny 16 rule says that for heavy overcast.
As already mentioned, only applies near "mid"-day and not under shade, (even if overcast)
And also, I want to see more details. More sharpness
OK, good choice for that ...
The reason for the iso 400 is because the rule says it need to be equivalent to the speed number.
YES ... (assuming you are near "mid"-day ...
I don't think that is active in "M" anyway, (and if it is, it ONLY applies to the "metering" offset -- it does NOT directly change exposure -- only indirectly via offset-"metering").
...
so, what would you have don. Please tell me in speed, aperture and iso
1-2 additional stops, (either via wider f/stop, higher ISO, or longer shutter-speed)
Note that "auto" would have probably exposed this scene properly, (and also "M" if you had referred to and "centered" the metering-bar which I suspect was indicating -1 or -2 stops).