Fig. 5

Analysis of IS6110 insertions in a diverse set of M. tuberculosis genomes. Analyses are based on ISMapper analysis of publicly available Illumina paired end data from 138 genomes. a Phylogenetic tree for M. tuberculosis based on genome-wide SNP calls, with midpoint rooting and collapsed to lineage level. Number of isolates analysed in each lineage (L) is indicated in brackets. b Heat map indicating the frequency of each IS6110 insertion site (columns) detected in each lineage (rows), according to inset legend (i.e., a black cell indicates that the IS insertion site was detected in all isolates of the given lineage, white cell indicates that the insertion site was not detected at all in that lineage). c Boxplots show number of IS6110 insertions detected per genome, for each lineage. Black line, median; boxes, interquartile range; whiskers, minimum and maximum values. d Histogram of IS6110 insertions in 1000 bp windows along the M. tuberculosis chromosome. Dashed line, threshold for defining insertion hotspots