Hello,<br><br>I am curious if the line estimation shown in the history window for pileup generation is at all accurate.  I am using the pileup files to generate expression data from bwa mapping for looking at differential expression, but I am having some trouble understanding the line estimates.  For example, for one pileup file, when I cut the reference id column and the number of hits column (columns 1 and 4), the number of lines in the cut file is about 25% that of the pileup file, and for another file it will be 5000%.   How can the number of lines grow 50x when I am just cutting columns from the file?  Shouldnt the line estimate be the same? <br>
<br>Thanks,<br>Austin<br>