Confirmed.
atlas fails to build from source on i386. See 
http://launchpadlibrarian.net/16970147/buildlog_ubuntu-intrepid-i386.atlas_3.6.0-21.5ubuntu1_FAILEDTOBUILD.txt.gz.
 Therefore you get the old 3.6.0-21.1ubuntu3 libatlas-base-dev version, which 
does not depend on libgfortran3.

On amd64 atlas was correctly build and on amd64 libatlas-base-dev
correctly depends on libgfortran3. So when the FTBFS on i386 is fixed,
the dependency issue will be solved.

** Changed in: atlas (Ubuntu)
       Status: New => Confirmed

-- 
Atlas blas and lapack libraries unware of gfortran dependency
https://bugs.launchpad.net/bugs/261089
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