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Thank you for sending me an example of these index.php files you found throughout your site. As I mentioned in my direct reply, these new index.php files have nothing to do with my plugin. My Anti-Malware plugin does not create index.php files in every directory, but some other security plugins might do this to prevent directory browsing.

There is no malicious code in that file you sent me so it is not likely to be part of a known threat.