Saw your plywood square exactly in half, diagonally. Take one half and butt the triangle with one long end point in the corner and the short back end against the wall. This is the triangular shape you will cut off the countertop. Flip over the countertop and set the triangle on one end corner. The top of the triangle hits the top right of the countertop edge and the other angle point hits at the backsplash. Countinue the line out over the top of the backsplash and over the countertop edge at the other end of the triangle.
Flip over the plywood template and do the same to the other countertop on its rough side. When the angles are cut, the two sides, now cut at a 45-degree angle, will mesh together. Spring-clamp your sheet to the table securely. Measure the markings with a measuring tape to check that the angles are reproduced exactly by measuring down the edge side to see where the mark ends. Double-check one last time to ensure that you are taking off the correct angle from each countertop.
Put on your safety glasses, take the saw and make a full cut where you already made the preliminary marking. Go slowly and make sure you have a straight diagonal line. Do the same with the other countertop. Remove the clamps and set up your countertops to see how they mesh together. If all went well, they should fit cleanly. Sand your edges as they may be a bit roughed up from the saw blade. Now you will be ready to complete the installation.