Is it normal for seat stays on new CAAD12 frame to be slightly warped/not straight? The seat stays on my brand new Cannondale CAAD12 frame are slightly warped (not straight and slightly different on both sides), especially around the welding spots for the rear brake mount. I could imagine this could be because of the heat treatment, but just want to make sure, is this normal? 



Full res picture: https://drive.google.com/open?id=0B9y6l6S7soQvLWtZVFg2RXdOMUk Thank you!
You are concerned that something is wrong with the frame.  You can check the alignment by getting the Park FAG-2 alignment tool or, and it comes to the same thing, measuring to see if the distance to the seat tube is the same on both sides using a string - a string test.  If you feel uncomfortable running a string from the rear dropouts around the head tube and measuring the distance from the string to the seat tube on both sides, then get the Park tool.  Otherwise, run a string and measure.   If the measurements are identical, then the seat stay "warping" is purely cosmetic - the frame is properly aligned.  If the frame is off, then you are warned not to try cold setting thin aluminum tubes.  I have to admit here that, if I got a really good deal on the frame and it was only off a little, I would be tempted to correct it.  See the Park FAG-2 link for other ways of dealing with it in case you find that the frame is off a little.