Fig. 1
Complete genome of MmucT. a Circos plot showing the complete genome sequence of MmucT. The outer to inner circles represent: Red and blue dots represent genome wide distribution of tRNA and ncRNA genes, while the two black lines represent the rRNA operons. Green histogram represents the average sequencing read depth for MmucT, while the overlapping grey circle gives the read depth scale (the distance between the two circles is 50x). The blue and green blocks in the two subsequent circles represent genes that are predicted to be transcribed from the leading and lagging strands, respectively. Dark blue and brown blocks indicate core and unique genes comparing Mmuc- and Mneo-clade members. Next inner circle, black line marks the positioning of the IS-elements. The four blocks represent the phage sequences. The GC-content is represented by the blue and grey "spikes". It was calculated using a sliding window of 5000 bp and the grey circles give the scale, which oscillates between ±10% of the mean value 67.18%. Next track in red (positive) and green (negative) shows the GC skew using a sliding window of 5000 bp. The inner circle shows the size of the MmucT genome. Generation of circos plots, see http://circos.ca. b Whole-genome alignment for the five type strains MmucT, MphoT, MaubT, MneoT and McosT. Each horizontal block represents one genome and vertical lines between the genome correspond to homologous regions whereas diagonal lines correspond to genome rearrangements (blue lines genomic inversions and white gaps represent insertions/deletions). The black boxes/vertical lines represent phage sequences; single stars in red mark the presence of an intact phage and black stars represent incomplete/questionable pro-phage sequence (see text for details)