Input reads mapped onto the M. avium subsp. paratuberculosis K-10 genome. The amplitude of each peak corresponds to the number of sequence reads at a specified insertion site. The circles represent (from outer to inner): CDS on plus strand (red); CDS on minus strand (blue); transposon insertion reads (yellow);% GC plot (light brown = above average, purple = below average), and MAP-specific genomic islands in centre (LSPP4, 11, 12, 14, 15, 16 in alternating black and green blocks clockwise). CDS: coding DNA sequence.