I heard that these malware scripts are getting in to your webserver by hacking your ftp password. What you have to do is find that malware files or code and delete. Submit your website to re-evaluation through google webmaster tools.
Hackers might get your saved password in ftp. So delete history and change the password immediately.
Recent times I am not using ftp. I am uploading zipped files directly through cpanel to prevent from hackers.
We should not blame your host regarding this issue. Hackers getting in to web server through your PC. So clean your PC with any good antivirus.
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