Let's get your phone to shuffle all of your songs correctly. From what you've explained, the shuffle has been activated, but it also sounds like repeat has too. What does the repeat icon show? It's located next to the shuffle icon in the music app. If it's gray with the number 1 on it, tap it to disable it. You can find a visual on what the icon looks like in the User Manual for your phone here http://apple.co/1LGcNPi . Let us know if that fixes the issue.
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