Table 1.
Basic information and overall diversity of the 29 SSR markers used in the study
| Marker | Chr | Oryza sativa varietal group (germplasm) | Motif | AT (°C) | AN | RAN | MAF | PIC |
|---|---|---|---|---|---|---|---|---|
| RM237 | 1 | indica (IR36) | (CT)18 | 55 | 23 | 17 | 0.1860 | 0.9056 |
| RM283 | 1 | indica (IR36) | (GA)18 | 61 | 20 | 13 | 0.2140 | 0.8869 |
| RM431 | 1 | japonica (Nipponbare) | (AG)16 | 55 | 19 | 11 | 0.1280 | 0.8925 |
| RM495 | 1 | japonica (Nipponbare) | (CTG)7 | 55 | 4 | 0 | 0.7480 | 0.3870 |
| RM154 | 2 | unknown | (GA)21 | 61 | 24 | 19 | 0.2480 | 0.8416 |
| RM452 | 2 | japonica (Nipponbare) | (GTC)9 | 61 | 9 | 5 | 0.7500 | 0.3985 |
| OSR13 | 3 | unknown | (GA)n | 53 | 19 | 12 | 0.2080 | 0.8783 |
| RM338 | 3 | indica (IR36) | (CTT)6 | 55 | 4 | 2 | 0.9280 | 0.1293 |
| RM124 | 4 | japonica (Nipponbare) | (TC)10 | 67 | 9 | 6 | 0.7100 | 0.4477 |
| RM161 | 5 | japonica (Nipponbare) | (AG)20 | 61 | 17 | 11 | 0.2570 | 0.8442 |
| RM413 | 5 | japonica (Nipponbare) | (AG)11 | 53 | 22 | 15 | 0.2580 | 0.8745 |
| RM507 | 5 | japonica (Nipponbare) | (AAGA)7 | 55 | 7 | 4 | 0.7320 | 0.3984 |
| RM133 | 6 | japonica (Nipponbare) | (CT)8 | 63 | 7 | 3 | 0.4470 | 0.6093 |
| RM162 | 6 | unknown | (AC)20 | 61 | 22 | 15 | 0.2790 | 0.8467 |
| RM118 | 7 | japonica (Nipponbare) | (GA)8 | 67 | 9 | 6 | 0.4000 | 0.6216 |
| RM125 | 7 | japonica (Nipponbare) | (GCT)8 | 63 | 13 | 6 | 0.2420 | 0.8362 |
| RM455 | 7 | japonica (Nipponbare) | (TTCT)5 | 57 | 3 | 1 | 0.8970 | 0.1691 |
| RM44 | 8 | indica (IR36) | (GA)16 | 53 | 18 | 7 | 0.1690 | 0.8897 |
| RM152 | 8 | unknown | (GGC)10 | 53 | 9 | 5 | 0.4450 | 0.6453 |
| RM408 | 8 | japonica (Nipponbare) | (CT)13 | 55 | 11 | 8 | 0.4150 | 0.6948 |
| RM447 | 8 | japonica (Nipponbare) | (CTT)8 | 55 | 15 | 8 | 0.1610 | 0.8723 |
| RM284 | 8 | indica (IR36) | (GA)8 | 55 | 10 | 4 | 0.5990 | 0.5447 |
| RM433 | 8 | japonica (Nipponbare) | (AG)13 | 53 | 18 | 11 | 0.2030 | 0.8591 |
| RM215 | 9 | indica (IR36) | (CT)16 | 55 | 21 | 13 | 0.1460 | 0.8904 |
| RM316 | 9 | indica (IR36) | (GT)8-(TG)9(TTTG)4(TG)4 | 55 | 32 | 28 | 0.1900 | 0.9048 |
| RM271 | 10 | indica (IR36) | (GA)15 | 55 | 23 | 14 | 0.1590 | 0.9135 |
| RM484 | 10 | japonica (Nipponbare) | (AT)9 | 55 | 8 | 3 | 0.3080 | 0.7381 |
| RM536 | 11 | japonica (Nipponbare) | (CT)16 | 55 | 12 | 7 | 0.3540 | 0.7064 |
| RM277 | 12 | indica (IR36) | (GA)11 | 55 | 9 | 5 | 0.3510 | 0.6941 |
| Mean | 14 | 9 | 0.3909 | 0.6934 |
Chr, chromosome number; AT, annealing temperature; AN, number of alleles; RAN, number of rare alleles (allele frequency ≤5%); MAF, frequency of major allele; PIC, polymorphism information content.