Table 1 Analysis of the association of Insertion Sequence elements with REP sequences. Table 1 shows the results of the analysis of the presence of REP sequences in the extragenic spaces flanking mobile elements. The fifth column shows the association ratio between the number of mobile elements containing REP sequences in the flanking extragenic spaces and the total number of mobile elements in the analyzed genome. The canonical REP sequence for each analyzed species is in the additional material [see Additional file 15]

Pseudomonas syringae pv. tomato str. DC3000 [5]

AE016853

128

ISPsy8

5/5

100%

323

ISPsy7

6/10

60%

ISPsy 9

1/1

100%

ISPsy6

1/13

7.7%

ISPsy5

3/36

8.3%

Pseudomonas aeruginosa PAO1 [1]

AE004091

6

ISPa11

6/6

100%

157

Pseudomonas putida KT2440 [3]

AE015451

51

ISPpu9

7/7

100%

938

ISPpu10

7/7

100%

ISPpu11

1/2

50%

ISPpu15

1/4

25%

ISPpu14

1/5

20%

Group II intron

2/9

22.2%

Escherichia coli CFT073 [17]

AE014075

45

IS1397

1/2

50%

227

IS150

1/2

50%

Escherichia coli K12 [17]

U00096

44

Transp. (169aa)

1/7

14.3%

290

Escherichia coli O157:H7[17]

BA000007

47

IS5

1/11

9.1%

212

Escherichia coli O157:H7 EDL933[17]

AE005174

39

---

---

---

209

Salmonella enterica subsp. enterica serovar Typhi str. CT18 [55]

AL513382

29

---

---

---

228

Salmonella typhimurium LT2 [55]

AL513382

16

IS200

1/25

4%

207

Shigella flexneri 2a str. 2457T [55]

AE014073

266

---

---

---

189

IS1

6/101

6%

IS4

3/11

27.3%

IS2

2/37

5.4%

IS91

1/7

14.3%

IS3

1/6

16.7%

Shigella flexneri 2a str. 301 [55]

AE005674

84

ISSfl4

1/4

25%

193

Transposase(insB)

1/1

100%

IS1106

5/9

55.5%

Neisseria meningitidis MC58 [56]

AE002098

32

IS1655

2/13

15.4%

747

Transposase and PivNM COG3547

3/5

60%

Neisseria meningitidis Z2491 [56]

AL157959

51

IS1016C2

1/3

33.3%

673

IS1106

7/15

46.7%

IS1655

2/6

33.3%

IS1016

2/17

11.8%

Agrobacterium tumefaciens str. C58 UWash [1]

AE008688

AE008689

6

Transposase and PivNM COG3547

1/5

20%

116

Agrobacterium tumefaciens str. C58 Cereon[1]

AE007869

AE007870

5

---

---

---

121

Sinorhizobium meliloti 1021 [1, 57]

AL591688

53

---

---

---

294

ISRm22

9/9

100%

ISRm19

2/2

100%

ISRm11

1/6

16.6%

ISRm5

5/7

71.4%

AL591985 (pSymB)

11

ISRm21

2/3

66.6%

ISRm22

1/1

100%

ISRm19

2/2

100%

ISRm2011

1/2

50%

ISRm17

1/1

100%

Deinococcus radiodurans R1 [58]

AE000513

31

---

---

---

149

Rickettsia conorii str. Malish 7 [59]

AE006914

0

---

---

---

237

Mycobacterium tuberculosis CDC1551 [1]

AE000516

37

IS1558

1/2

50%

64

13 species

19 genomes

981

36 mobile elem.

107/981

11%