After you file

I don't mind waiting.  I'm just not sure how it is going to work.  As said in a prior post - I no longer seem to have my original submission.  Turbo Tax allowed me to start an amend and then just deleted (?) the original file, not creating a new one.  I'd like to know in advance that this will work out.  Will it just all of a sudden know that this is an amendment?  There are no 1040X forms in my file.  It just looks like it is a first submission BUT it says that it was already file.  Very confusing.