WinAuth uses the same algorithm as the Mobile Authenticator for Android, and so generates the same codes when using the same serial number and secret key. One of the reasons to write it was to remove the dependency on having the phone available, but still use the same codes. However, you must be able to extract the key from the phone to be able to run it as a duplicate.
You can only run winauth as a backup to a rooted (hacked) Android phone, as you need to be able to read the Mobile Authenticator's private keys. You cannot read the private keys from non-rooted Android phones nor from iPhones.
WinAuth can load the record store from a Java enabled phone. Just retrieve the .rs or .rms file from your phone and use our "Load Authenticator...". You can also import key data directly using the "Import Key..." feature.
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