Table 4

Potential mobile regions and their major characteristics

Mobile region

Putative length, approx. (bp)

G+C content (%)

Putatively bounded by (repeat length, bp)

Major characteristics

Potential conjugative transposon

43,769

62.7

19

Hypotheticals, lipoproteins and an efflux protein cargo

Potential complex transposon insertion

97,538

61.9

18

Efflux transporters, mercury, arsenic and copper resistance, co-integrate resolution and integrases. May be a multiple insertion*

Potential complex transposon insertion

52,344

60.5

20

Tra genes and adhesins, DNA repair, conserved and unique hypotheticals. May be a multiple insertion. Carries IS elements and Tn5044 similarity

ISXac3-like

1,157

65.1

ND

Seven intact copies and two pseudogenic copies

ISHne3/IS111A-like

915

61.7

ND

Eleven intact copies

ISpsy9

1,352

58.8

ND

Four intact copies

Phage cluster 1

118,000

63.7

ND

Putative pseudogenic phage. Putative IS insertion and tRNA located centrally

Phage cluster 2

37,992

63.2

ND

Putative intact phage

Mobile regions were determined using an approach that combined using the Alien Hunter program, repeat analysis and by-eye comparisons between K279a and the X. campestris genome sequence by ACT analysis. *CDS (Smlt2465) in this feature shares 72.5% identity with a previously characterized transposase, Tn5044, from a Xanthomonas spp. isolated from a heavy metal mine in Russia [67]. Stenotrophomonas was at that time classified as Xanthomonas. ND, not detected.

Crossman et al. Genome Biology 2008 9:R74   doi:10.1186/gb-2008-9-4-r74