Table 2.
Analysis of 24 SSR primer pairs used for the amplification of genomic template extracted from 18 rice varieties
| Primer | Repeat motif | Physical position (Mb) | Amplicon size range (bp) | Amplicon size difference (bp) | No. of alleles | No. of unique alleles | No. of shared alleles | PP | PIC |
|---|---|---|---|---|---|---|---|---|---|
| RM 5 | (GA)14 | 23.9 | 127–142 | 015 | 6 | 3 | 3 | 50.00 | 0.703 |
| RM 14 | (GA)18 | 41.3 | 165–193 | 028 | 6 | 1 | 5 | 16.66 | 0.753 |
| RM 24 | (GA)29 | 18.9 | 146–214 | 068 | 9 | 3 | 6 | 33.33 | 0.864 |
| RM 113 | (CA)8 | 18.8 | 147–187 | 040 | 5 | 1 | 4 | 25.00 | 0.771 |
| RM 140 | (CT)12 | 12.3 | 260–304 | 044 | 8 | 3 | 5 | 37.50 | 0.814 |
| RM 220 | (CT)17 | 4.4 | 111–300 | 189 | 19 | 8 | 11 | 66.66 | 0.564 |
| RM 292 | (GT)10-6-(TGA)2 TGT(TGA)4 | 9.5 | 147–162 | 015 | 4 | 1 | 3 | 33.33 | 0.623 |
| RM 302 | (AT)13 | 32.9 | 131–233 | 102 | 9 | 6 | 3 | 66.66 | 0.814 |
| RM 490 | (CT)13 | 51.0* | 091–100 | 009 | 6 | 1 | 5 | 16.16 | 0.790 |
| RM 493 | (CTT)9 | 12.3 | 197–270 | 073 | 8 | 2 | 6 | 25.00 | 0.750 |
| RM 562 | (AAG)13 | 14.6 | 200–266 | 066 | 6 | 2 | 4 | 33.33 | 0.564 |
| RM 1287 | (AG)17 | 10.8 | 153–200 | 047 | 5 | 0 | 5 | 00.00 | 0.771 |
| RM 3412 | (CT)17 | 11.6 | 200–276 | 076 | 7 | 2 | 5 | 28.00 | 0.793 |
| RM 7025 | (AAAT)6 | 25.8 | 127–187 | 060 | 9 | 3 | 6 | 33.33 | 0.870 |
| RM 8094 | (AT)31 | 11.2 | 143–300 | 157 | 13 | 9 | 4 | 60.00 | 0.870 |
| RM 10665 | (ATAC)6 | 10.5 | 380–493 | 113 | 13 | 9 | 4 | 69.00 | 0.901 |
| RM 10694 | (AC)18 | 10.9 | 196–240 | 018 | 9 | 6 | 3 | 66.33 | 0.830 |
| RM 10745 | (TATG)9 | 11.7 | 183–200 | 017 | 3 | 0 | 3 | 0.00 | 0.648 |
| RM10748 | (AG)14 | 11.8 | 088–134 | 046 | 12 | 7 | 5 | 58.33 | 0.901 |
| RM 10764 | (AT)28 | 12.1 | 154–179 | 025 | 4 | 0 | 4 | 00.00 | 0.740 |
| RM 10772 | (CTT)16 | 12.2 | 362–490 | 128 | 6 | 3 | 3 | 50.00 | 0.635 |
| RM 10825 | (AAG)10 | 14.0 | 110–520 | 410 | 19 | 11 | 8 | 42.00 | 0.783 |
| RM 10864 | (GT)27 | 14.2 | 212–376 | 164 | 10 | 7 | 3 | 70.00 | 0.704 |
| RM 11008 | (TTC)12 | 17.9 | 250–283 | 033 | 9 | 3 | 6 | 33.33 | 0.870 |
PP Polymorphism percent; PIC polymorphism information content
*Indicates marker position in cM