No need to straighten them. There are two spots on the right of the engine block (looking at the RMS) that are sort of domed out. It looks a little like this: __n--n__ where the ___ is the curve of the block.
The pins point to the two corners of the area that is domed out.
I have a photo if that's confusing.

The pins might be used in manufacturing the flexplate or alignment, either way, there is no sensor that reads them, so don't worry about them being slightly bent. If they're loose, you might want to remove them so that they don't remove themselves at high speed.

Cheers!