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Table 5 Long repeat sequences in A. compactum cp genome

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

ID

Repeat start 1

Type

Size (bp)

Repeat start 2

Mismatch (bp)

E value

Gene

Region

1

3990

P

34

3996

− 3

4.12E−06

trnK-UUU (intron)

LSC

2

8768

P

31

48,057

− 3

1.98E−04

IGS; trnS-GGA

LSC

3

10,522

F

30

39,347

− 3

7.15E−04

trnG-GCC (intron)

LSC

4

31,322

P

32

31,352

− 3

5.46E−05

IGS

LSC

5

32,991

F

30

33,020

− 3

7.15E−04

IGS

LSC

6

39,660

P

32

39,701

0

4.08E−10

IGS

LSC

7

41,551

F

58

43,775

− 3

7.54E−20

psaB; psaA

LSC

8

41,595

F

37

43,819

− 2

2.39E−09

psaB; psaA

LSC

9

63,481

P

31

126,101

− 3

1.98E−04

IGS

LSC; SSC

10

63,481

F

31

126,106

− 3

1.98E−04

IGS

LSC; SSC

11

63,487

F

32

69,264

− 3

5.46E−05

IGS

LSC

12

67,809

P

31

67,864

− 2

6.83E−06

IGS

LSC

13

71,632

F

30

71,659

0

6.53E−09

IGS

LSC

14

72,281

F

42

72,302

− 3

1.21E−10

rps18

LSC

15

91,249

F

46

91,299

− 1

2.10E−16

trnI-CAU; IGS

IRa

16

91,249

P

46

160,743

− 1

2.10E−16

trnI-CAU; IGS

IRa; IRb

17

91,299

P

46

160,793

− 1

2.10E−16

IGS

IRa; IRb

18

93,917

F

30

93,938

− 3

7.15E−04

ycf2

IRa

19

93,917

P

30

158,120

− 3

7.15E−04

ycf2

IRa; IRb

20

93,938

P

30

158,141

− 3

7.15E−04

ycf2

IRa; IRb

21

121,695

P

30

121,723

− 3

7.15E−04

IGS

SSC

22

158,122

F

30

158,143

− 3

7.15E−04

ycf2

IRb

23

160,743

F

46

160,793

− 1

2.10E−16

IGS

IRb

24

160,762

F

30

160,812

− 3

7.15E−04

IGS

IRb

  1. F forward, P palindromic, IGS intergenic space