Find certificates that are put in the Trusted Root Certification Authorities store incorrectly on the local computer

You can use a Windows PowerShell command to find certificates that are put in the Trusted Root Certification Authorities store incorrectly on the local computer. The following command compares the "Issuer" property and the "Subject" property of each certificate in the store, and then outputs details of certificates that do not meet the criteria of a self-signed certificate:

Get-Childitem cert:LocalMachineroot -Recurse | Where-Object {$_.Issuer -ne $_.Subject} | Format-List * | Out-File "c:computer_filtered.txt"

Source: http://support.microsoft.com/kb/2795828

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