Figure 3

CcI3 gene deletions and IS clustering. (a) Genes that were deleted in strain CcI3 but were present in both EAN and ACN were plotted using a 250 kb sliding window (dark green line). (b) Transposase ORF positions (including those identified by PSI-BLAST analysis) were plotted using a 250 kb sliding window for each strain (dark blue line). Regions of each genome that corresponded to significant clusters of gene deletion in strain CcI3 are highlighted and lettered (red boxes). Confidence intervals determined from calculation of the probability mass function are listed on the right of the graphs, with points greater than 95% confidence in light gray boxes and points greater than 99% confidence in dark gray boxes.