Table 2.
Position of the interruption in imperfect SSR.
| Homopolymers | |||||
|---|---|---|---|---|---|
| Repeat Size | End (obs) | Middle (obs) | End (exp) | Middle (exp) | p-value |
| 3 | 15,005 | 50 | 10,037 | 5,018 | 0 |
| 4 | 5,793 | 1,392 | 3,593 | 3,593 | 0 |
| 5 | 2,549 | 1,168 | 1,487 | 2,230 | 5.E-277 |
| 6 | 1,309 | 735 | 681 | 1,363 | 1.E-190 |
| 7 | 810 | 492 | 372 | 930 | 5.E-159 |
| 8 | 447 | 294 | 185 | 556 | 3.E-109 |
| 9 | 459 | 253 | 158 | 554 | 7.E-162 |
| 10 | 350 | 285 | 127 | 508 | 2.E-108 |
| 11 | 178 | 191 | 67 | 302 | 1.E-50 |
| 12 | 119 | 167 | 48 | 238 | 1.E-29 |
| 13 | 65 | 121 | 29 | 157 | 1.E-13 |
| 14 | 45 | 107 | 22 | 130 | 7.E-08 |
| 15 | 34 | 77 | 15 | 96 | 8.E-08 |
| 16 | 18 | 43 | 8 | 53 | 6.E-05 |
| 17 | 12 | 40 | 6 | 46 | 1.E-02 |
| 18 | 6 | 28 | 4 | 30 | 2.E-01 |
| 19 | 3 | 23 | 3 | 23 | 9.E-01 |
| 20 | 6 | 15 | 2 | 19 | 5.E-03 |
| Dimers | |||||
| Repeat Size | End (obs) | Middle (obs) | End (exp) | Middle (exp) | p-value |
| 3 | 1,588 | 641 | 1,486 | 743 | 5.E-06 |
| 4 | 332 | 208 | 270 | 270 | 9.E-08 |
| 5 | 121 | 83 | 82 | 122 | 2.E-08 |
| 6 | 65 | 61 | 42 | 84 | 1.E-05 |
| 7 | 58 | 53 | 32 | 79 | 3.E-08 |
| 8 | 47 | 29 | 19 | 57 | 1.E-13 |
| 9 | 39 | 30 | 15 | 54 | 7.E-12 |
| 10 | 17 | 10 | 5 | 22 | 2.E-08 |
| 11 | 11 | 7 | 3 | 15 | 2.E-06 |
| 12 | 9 | 7 | 3 | 13 | 2.E-05 |
| 13 | 7 | 4 | 2 | 9 | 9.E-06 |
This table shows the position of interruptions in simple sequence repeats. "End" indicates polymorphism at beginning or end of SSR loci, while middle variation indicates polymorphism occurs at interior positions (eg. Homopolymer with repeat length of three has two possible end nucleotide positions and one possible middle position. P-value is determined using Pearson's chi-square test for random expectation.