Figure 3

Repeat classifications and fragmentation of repeat sequences in bacteria. Panel A: Number of repeat sequences and copies found in the 67 genomes of the investigated bacteria. Notably, the majority of the discovered repeats are IS elements, while phages and unidentified repeats were low. Number of repeat sequences refers to the number of different repeat sequences found for each class of repeats. Number of copies found refers to the total number of repeat copies found for each class of repeat. ISfinder IS: Repeats listed in the ISfinder database. Putative IS: Repeats with blast similarities to Insertion Sequences. Phages: Repeats with blast similarities to phage genes. Putative MGE: Repeats with no decisive data on kind of replication mechanism, but which are nevertheless suspected to be self-replicating and/or mobile when their similarities to other kinds of Mobile Genetic Elements are considered. Highly repeated: Repeats with low similarities to known proteins, but which appear in high copy numbers in the investigated organisms. DNA interacting: Repeats which are similar to proteins interacting with DNA (e.g. nucleases, helicases), making mobility and/or self-replication feasible. Panel B: Repeat fragment size distribution. Distribution of fragment lengths in NoAz compared to the average distribution in all other 66 bacteria investigated. X-axis: Fragment size in per cent of full size. Y-axis: Frequency of fragment size, expressed as percentage of total number of copies.