Sorry, I don't quite follow what you're trying to describe? I downloaded a copy of your log for the past month, and it opened up in my spreadsheet program just fine, everything in its place.
Bear in mind that although the log downloads as a (zipped) text file, it really isn't intended to be viewed as raw plaintext. Rather, it's a tab-delimited plaintext data file suitable to be viewed/imported in a spreadsheet program like Excel or Gnumeric (the latter is free and what I use), or possibly imported to a database. This format only uses a single tab character as a delimiter between each field on a given line, which usually won't line up visually very well when viewed as raw plaintext.
If this doesn't seem to answer your concern, feel free to email a sample file you downloaded from Seller Admin that has the problem you're describing, and reference some particular Transaction IDs we should examine where the problem is apparent: