My layers seem to be completely broken

Hi so I've been using ray-casts and layers fine for the past few months in a project of mine, but now they seem completely unpredictable and broken.

To make sure I wasn't going completely insane I created a new scene with just a cube in it, I gave the cube a different layer and tested the outcome multiple times.

So I made a script so that when I right click on the cube, I print out what layer I hit. Here is the result for the "Default" layer.

(the 12 results for "ray hit cube" is for layers that don't even have names yet I presume)

Also here is the script I'm using to test this, along with my layers

 public class LayerTest : MonoBehaviour
 {
     void Update()
     {
         if (Input.GetButtonDown("Fire1")) //user has just clicked LMB
         {
             Ray ray = Camera.main.ScreenPointToRay(Input.mousePosition);
             RaycastHit hit;
             for (int i = 0; i < 32; i++)
             {
                 if (Physics.Raycast(ray, out hit, Mathf.Infinity, i))
                 {
                     Debug.Log("ray hit " + hit.transform.name + LayerMask.LayerToName(i));    
                 }
             }
         }
     }
 
 }

I am using unity 5.4.1, also if needed I can post the results for the rest of the layers, however only the following layers would prompt a print

• Default

• Ignore Raycast

• TransparentFX

• Water

Thanks in advance for any help.