Table 3 List of chloroplast DNA rearrangement characters. Numbers refer to tobacco cpDNA hybridization probes. Endpoints are given as novel probe adjacencies. Other rearrangement types are indicated as: T = transposition (T' = secondary transposition [14] of most of 53–56); I = inversion; i = insertion; D = deletion (or divergence); IRc and IRe = IR contraction or expansion, respectively (followed by single copy region affected). Characters marked with asterisks (*) are those rescored in Matrix 3 relative to Matrix 2.
From: Chloroplast DNA rearrangements in Campanulaceae: phylogenetic utility of highly rearranged genomes
*1. 11/60 | 22. T (53,54) | 43. 40/56 | 64. i (15) |
*2. 56/53 | 23. T (53–56) | 44. 39/37 | 65. IRe (LSC) |
*3. 49/37 | 24. 98/28 | 45. 37/44 | 66. T (5–8) |
4. 40/35 | 25. 53/98 | 46. 56/61 | 67. T (6–9) |
*5. 28/11 | 26. T' (53–56) | 47. 76/96 | 68. i (9) |
6. 15/76 | 27. 49/39 | 48. 77/106 | 69. i (18) |
7. 60/27 | *28. 37/40 | 49. i (5) | 70. l (60–61) |
*8. 26/44 | 29. 56/39 | 50. 39/25 | 71. T (28) |
9. 41/47 | 30. 53/40 | 51. 9/37 | 72. T (16–17) |
10. 48/36 | 31. 37/28 | 52. 48/56 | 73. i 7 |
11. 35/25 | 32. 40/26 | 53. 49/61 | 74. IRe (SSC) |
12. 16/90 | 33. 27/44 | 54. 5/29 | 75. i (8) |
13. T (93) | 34. 8/40 | 55. 50/28 | 76. i (9) |
14. 84/76 | 35. 39/26 | 56. 26/50 | 77. i (9) |
15. 84/90 | 36. 27/11 | 57. 40/16 | 78. i (15) |
16. 10/49 | 37. 56/36 | 58. 25/10 | 79. i (16) |
17. 53/28 | 38. 44/10 | 59. 15/56 | 80. D (93) |
18. 37/60 | 39. 9/53 | 60. IRc (LSC) | 81. i (5) |
19. 56/11 | 40. 49/36 | 61. IRe (SSC) | 82. i (6) |
20. I (16–17) | 41. 8/36 | 62. IRe (LSC) | 83. i (19) |
21. 56/27 | 42. 9/40 | 63. D (45–46) | 84. i (5) |