Most common method used by hackers is inserting arbitrary codes into your site. It may be a blog, forum or a simple html website.
Peter from theblog.ca has provided a php script which is capable of sending e-mail when file changes in your Linux hosting account. You can run this script as a Cron, hourly or frequently depending on your needs. I have personally tried this script and whenever I myself have made some changes, I would get an e-mail regarding the changes. So it is clear that if anyone upload or do changes to any files I will get a notification.
To get the script and for more info visit theblog.ca
I support Linux 100% but I feel that people should make their own decision after reading Truth about Linux.
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