Light Machinery
Senior Member
The red square AF indicators in the viewfinder are to indicate the AF sensor in use and the relative position of the AF sensor in the image.
Why is this so? You may ask?
Well the phase detect AF sensors reside in a module beneath the main reflex mirror and it views through the lens via semi reflective slot on the bottom of the main mirror and a sub mirror located behind the main mirror. AF sensors are not located in the viewfinder module.
The red sqaure AF indicators are projected via a LCD on to the viewfinder to indicate the AF sensor in use and its relative position in the image. Therefore the red square AF indicators may not 100% be in the position of where the real AF sensors are located in the image plane.
See here. These are the AF position indicators on my D4. Observe carefully how they are all skewed to the left.
All 51 AF sensor position

IMG_2396 by Light Machinery, on Flickr
The actual position of the AF sensors on my D4 are about 2/3 of a square to the right of the indicated red square. SO when I place the red square on the subjects eye, I shift the camera position by 2/3 of a square to the left.
Again you may ask if I have asked NSC about that? I did. If I insisted to have it to fixed they will strip up my D4 to work on the view finder. Anyway I left it as it for now and will have it fixed when it is due for a major service or shutter replacement.
You can also check if your D4 AF indicators are well centred by setting the AF to the AFC-S mode, use the centre sensor, find a subject with a sharp edge, press the shutter release halfway continuously and slowly swing your camera from the right of the frame to the indicated middle sensor and observe through the viewfinder when does the focus shifts and focuses on the sharp edge. Repeat from the test from the left, slowly swing the camera from the left and observe through the viewfinder when does the focus shifts and focuses on the sharp edge. You may notice that the camera will shift focus before the sharp edge even reaches the indicated red square or already in the red square halfway or more either from the right or left. So from this test it, will give you a rough position of where the actual AF sensor is positioned in the image plane of your D4.
Once you find out about this problem on your D4, don't despair. Even even you have unloaded a lot of $$$ for the D4, you are right to expect perfection but nothing is 100% perfect. Just use it to make beautiful pictures.
Some of my shots
Cockpit at the esplanade

DSC_0279 (147) by Light Machinery, on Flickr
Teochew opera

D4S_7630 by Light Machinery, on Flickr
Sunflower

D4S_6697 by Light Machinery, on Flickr
Seagull

D4K_2152 by Light Machinery, on Flickr
Why is this so? You may ask?
Well the phase detect AF sensors reside in a module beneath the main reflex mirror and it views through the lens via semi reflective slot on the bottom of the main mirror and a sub mirror located behind the main mirror. AF sensors are not located in the viewfinder module.
The red sqaure AF indicators are projected via a LCD on to the viewfinder to indicate the AF sensor in use and its relative position in the image. Therefore the red square AF indicators may not 100% be in the position of where the real AF sensors are located in the image plane.
See here. These are the AF position indicators on my D4. Observe carefully how they are all skewed to the left.
All 51 AF sensor position

IMG_2396 by Light Machinery, on Flickr
The actual position of the AF sensors on my D4 are about 2/3 of a square to the right of the indicated red square. SO when I place the red square on the subjects eye, I shift the camera position by 2/3 of a square to the left.
Again you may ask if I have asked NSC about that? I did. If I insisted to have it to fixed they will strip up my D4 to work on the view finder. Anyway I left it as it for now and will have it fixed when it is due for a major service or shutter replacement.
You can also check if your D4 AF indicators are well centred by setting the AF to the AFC-S mode, use the centre sensor, find a subject with a sharp edge, press the shutter release halfway continuously and slowly swing your camera from the right of the frame to the indicated middle sensor and observe through the viewfinder when does the focus shifts and focuses on the sharp edge. Repeat from the test from the left, slowly swing the camera from the left and observe through the viewfinder when does the focus shifts and focuses on the sharp edge. You may notice that the camera will shift focus before the sharp edge even reaches the indicated red square or already in the red square halfway or more either from the right or left. So from this test it, will give you a rough position of where the actual AF sensor is positioned in the image plane of your D4.
Once you find out about this problem on your D4, don't despair. Even even you have unloaded a lot of $$$ for the D4, you are right to expect perfection but nothing is 100% perfect. Just use it to make beautiful pictures.
Some of my shots
Cockpit at the esplanade

DSC_0279 (147) by Light Machinery, on Flickr
Teochew opera

D4S_7630 by Light Machinery, on Flickr
Sunflower

D4S_6697 by Light Machinery, on Flickr
Seagull

D4K_2152 by Light Machinery, on Flickr