It's always a wise choice to encrypt your data so your nosy ISP can't view exactly what you are doing as easily. Some simple steps can protect you!
This example is using FileZilla,
1) File > Site Manager
2) New Site > name it which ever, in my case it's "Seedbox"
3) fill in the information that applies to you then choose Protocol, FTP - File Transfer Protocol, Encryption, Require Explicit FTP over TLS
4) Hit ok and your done!
Simple and now data is encrypted, on slower machines it may slow down transfers slightly!
If it's not working please request the server administrator to enable these features and google if it is :)