In the Windows 7 version of Pattern Paint, the bottom 4 and a half pixels for the BlinkyTape aren't represented (the program's window is locked in place and can't be extended to see the last few pixels). I can make changes to them by using the larger paint brush tools, but that's certainly not optimal. After restarting then un/reinstalling, with a restart in between I'm fairly certain that it's the program and not my machine.
I've taken this still: http://imgur.com/eDcm3Bm
to show what I mean. The painting tool was set to a 5x5 footprint and I set each splotch next to one another. In the photo you can see that the first 55 pixels are easily modified and work fine with the BlinkyTape, then at 56 only half of the pixel is visible, and the following 4 are completely obscured. Thanks for any help!