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Webalizer may be configured to ignore hits from some sites. This is useful to some people to prevent local testing of the web site from impacting the statistics. Having said this, my own webalizer seems to differ significantly from statistics gathered by my own code, but in the opposite direction; webalizer is reporting, at times, much more traffic than my analysis code that breaks down the log files. I am going to look into this a bit more closely. It will probably require inspecting the Webalizer source code, so don't hold your breath waiting for an explanation from that.
I am using a perl script that analyzes a daily Apache access log file, in one of the standard formats, the name of which I cannot recall. I know the format is different from the one you are using, since the style I am using has less than ten fields per record. Until now, I haven't looked too closely since Webalizer and my log files are about 4 hours out of sync, since the log rotation is occurring at 0400 each day. My own script does not count bytes over periods greater than one day.
For what its worth, here is my code that parses the logfile: