I am new to autotools and I am working on a C project. I want to add my project to a git repository. Which files generated by the autotools I need to track in my version con
Note: I agree with ptomato'ss answer, and leave this answer as Community Wiki.
It makes sense for source code distributions, but your project may not be one.
For development purpose, ptomato's answer makes more sense.
All the C projects generally comes with a configure file able to generate the actual Makefile used for the compilation.
So when you consider the autotool chain, I would recommend versioning all files generated up to the configure file, as they are normally a one-time generation operation.

That means anyone with a checked out copy of your version project can immediately start:
./configure
make
make install
So, while it is generally true you shouldn't version any generated files, you could stored those ones especially if the other reader from that project can: