This was fixed with this upload:

mstflint (3.7.0+1.18.gcdb9f80-3.1ubuntu1) wily; urgency=medium

  * Enable building on all Linux architectures (LP: #1414818)
  * Update config.{sub,guess} correctly with dh_autotools-dev

 -- Adam Conrad <[email protected]>  Wed, 15 Jul 2015 08:28:32 -0600


** Changed in: mstflint (Ubuntu)
       Status: New => Fix Released

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https://bugs.launchpad.net/bugs/1470158

Title:
  mstflint package is missing for aarch64

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