In the track view, you see little dots if there is something else coming up later in a track. If all tracks are showing and you see no dots, then those are just the normal blank measures that are always there--they don't do anything and don't hurt anything.
You can change the project to stop at the end instead of continuing to scroll—similar to making a tape stop when the music stops instead of running the tape off the reel and continuing to spin.
Another option is just to turn the song into a concept album and fill up those blank bars,