Table 3. Polymorphism at each simple sequence repeat (SSR) locus differentiated by segments of the DNA amplicon. SSR1, SSR2 and SSR3: respectively first, second and third SSR occurring in each amplicon (see figure S1 for details on each amplicon’s sequence); FR: flanking regions; He: Nei’s genetic diversity; A: number of alleles; h: number of haplotypes. Data sets: C, Citrus; J, Jacaranda; Q, Quercus.
| Amplicon size variation | Amplicon sequence variation | SSR1 variation | SSR2 variation | SSR3 variation | FR sequence variation | ||||||||||||||
| SSR locus(data set) | He | A | He | h | Repeat unit | He | A | Repeat unit | He | A | Repeat unit | He | A | Sequence length (bp) | Numberof SNPs | SNPs per 100 bp | Numberof indels | He | h |
| cAGG9 (C) | 0.772 | 4 | 0.868 | 11 | (GAG)n | 0.772 | 4 | (GAA)n | 0.485 | 4 | – | – | – | 82 | 5 | 6.10 | 1 | 0.542 | 8 |
| CCT01 (C) | 0.758 | 4 | 0.966 | 20 | (TCC)n | – | – | – | – | – | – | – | – | 140 | 17 | 12.14 | 0 | 0.861 | 14 |
| GT03 (C) | 0.783 | 5 | 0.900 | 12 | (GT)n | – | – | (AT)n | – | – | – | – | – | 138 | 12 | 8.70 | 1 | 0.808 | 9 |
| Jc3A10 (J) | 0.856 | 13 | 0.937 | 43 | (CT)n | 0.769 | 12 | (CA)n | 0.700 | 6 | – | – | – | 116 | 2 | 1.72 | 1 | 0.306 | 5 |
| Jc3F4 (J) | 0.912 | 20 | 0.920 | 32 | (GA)n | 0.853 | 15 | – | – | – | – | – | – | 104 | 3 | 2.88 | 4 | 0.662 | 11 |
| Jc3H10 (J) | 0.856 | 13 | 0.922 | 40 | (CT)n | 0.748 | 19 | (CACG)n | 0.476 | 3 | (CGCACA)n | 0.527 | 4 | 111 | 1 | 0.90 | 2 | 0.409 | 2 |
| QrZAG30 (Q) | 0.966 | 23 | 0.983 | 31 | (GA)n | 0.915 | 16 | – | – | – | – | – | – | 185 | 14 | 7.57 | 15 | 0.922 | 18 |