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Table 4 Simple sequence repeats in the A. compactum cp genome

From: Complete chloroplast genome of the medicinal plant Amomum compactum: gene organization, comparative analysis, and phylogenetic relationships within Zingiberales

cpSSR ID

Repeat motif

Length (bp)

Start

End

Region

Annotation

1

(T)10

10

3975

3984

LSC

trnK-UUU

2

(A)10

10

4328

4337

LSC

 

3

(TA)6

12

4900

4911

LSC

 

4

(A)10

10

5287

5296

LSC

rps16 intron

5

(A)11

11

6253

6263

LSC

 

6

(TA)6

12

6609

6620

LSC

 

7

(A)10

10

7204

7213

LSC

 

8

(AT)6

12

7521

7532

LSC

 

9

(A)10

10

7700

7709

LSC

 

10

(T)12

12

8633

8644

LSC

 

11

(A)13

13

14,885

14,897

LSC

 

12

(T)10

10

17,474

17,483

LSC

 

13

(A)10

10

19,831

19,840

LSC

rpoC2

14

(T)11

11

24,121

24,131

LSC

rpoC1 intron

15

(A)10

10

28,802

28,811

LSC

 

16

(A)15

15

29,013

29,027

LSC

 

17

(A)11

11

30,868

30,878

LSC

 

18

(T)10

10

35,129

35,138

LSC

 

19

(TA)7

14

38,632

38,645

LSC

 

20

(A)12

12

39,292

39,303

LSC

 

21

(A)12

12

47,481

47,492

LSC

 

22

(T)10

10

48,986

48,995

LSC

 

23

(A)10

10

50,236

50,245

LSC

 

24

(AT)7

14

50,395

50,408

LSC

 

25

(T)10

10

51,829

51,838

LSC

 

26

(T)11

11

52,709

52,719

LSC

 

27

(ATA)5

15

54,345

54,359

LSC

 

28

(A)11

11

54,562

54,572

LSC

 

29

(T)10

10

58,778

58,787

LSC

 

30

(T)11

11

59,269

59,279

LSC

 

31

(A)12

12

60,919

60,930

LSC

 

32

(T)10

10

61,621

61,630

LSC

 

33

(AT)6

12

63,489

63,500

LSC

 

34

(A)12

12

68,715

68,726

LSC

 

35

(AT)10

20

69,266

69,285

LSC

 

36

(T)10

10

70,716

70,725

LSC

 

37

(A)10

10

72,600

72,609

LSC

rps18

38

(TA)7

14

74,094

74,107

LSC

rps12 intron

39

(A)10

10

74,569

74,578

LSC

clpP intron

40

(T)11

11

74,845

74,855

LSC

clpP intron

41

(T)10

10

75,108

75,117

LSC

clpP intron

42

(T)10

10

75,572

75,581

LSC

clpP intron

43

(T)10

10

75,831

75,840

LSC

clpP intron

44

(A)10

10

79,177

79,186

LSC

 

45

(AT)6

12

79,751

79,762

LSC

petB intron

46

(T)10

10

86,407

86,416

LSC

rpl16 intron

47

(T)11

11

88,970

88,980

IRa

 

48

(T)10

10

116,573

116,582

IRa

ycf1

49

(A)11

11

120,872

120,882

SSC

 

50

(T)11

11

121,055

121,065

SSC

 

51

(A)11

11

128,865

128,875

SSC

ndhA intron

52

(T)10

10

129,188

129,197

SSC

ndhA intron

53

(AT)6

12

131,778

131,789

SSC

 

54

(T)11

11

133,103

133,113

SSC

 

55

(T)12

12

133,236

133,247

SSC

 

56

(T)11

11

133,374

133,384

SSC

ycf1

57

(A)10

10

135,507

135,516

IRb

ycf1

58

(A)11

11

163,109

163,119

IRb