Figure 1

Interactive graphical user interface for genome alignment. Genomes of Listeria monocytogenes (lower genome in the figure) and Listeria innocua (upper genome) are compared using inGeno. Orthologous genes in both genomes are colored with the same color. Linkage lines connect locus collinear blocks and indicate the degree of rearrangement between the genomes. The threshold can be adjusted by a slider in the lower-right corner of the control panel. Red blocks in each genome distinguish genes which are potential strain-specific and determined by a user-given threshold. In this comparison several strain-specific genome islands are detected, e.g., in the figure a red island beginning with lmo0200 is being investigated. It is part of the Lipi1 pathogenicity island. Clusters of green lines indicate genome rearrangement events, these can be caused e.g. by transposons. A large number of transposase genes are found and visualized in the L. monocytogenes genome.