Figure 3

Blast ring image of S. Virchow SVQ1 genome. The innermost rings show S. Virchow SVQ1 genome position (mbp = Megabases), GC content (black) and GC skew (purple/green) and read coverage (red). The contig boundaries for the S. Virchow SVQ1 genome are shown as alternating red and blue bars on the fifth innermost ring. The remaining rings show BLASTn comparison of the 27 other Salmonella genomes listed in Table 3, against S. Virchow SVQ1 (in some cases multiple genomes are grouped into a single ring). BLASTn matches with an identity between 90% and 100% are coloured, while non-matching regions appear as blank spaces in each ring. The outer ring contains annotations, coloured according to function: regions variable in other Salmonella genomes such as fimbrial usher/chaperone operons and a Type I restriction-modification system (black); prophage regions (blue); genomic islands in recognised integration sites (GI-argU, GI-pheV and GI-leuX) and other regions of difference (ROD1-4) (red). Green labels refer to the Salmonella Pathogenicity Islands present in S. Virchow. The image was prepared using BRIG [59].