Association between Rice Microsatellites and Other Types of Repetitive Elements in BAC-end Sequences
| Number of sequences in this class | ||||||||
| Type of homology | BAC ends from the HindIII library | BAC ends from EcoRI library | ||||||
| (AT)n | (CA)n | (AT)n | (CA)n | |||||
| no. | % | no. | % | no. | % | no. | % | |
| >80% with Micropon-4 | 3 | 1.0 | 0 | 47 | 29.7 | 0 | ||
| >80% with other Micropons | 0 | 0 | 4 | 2.5 | 2 | 5.5 | ||
| 54%–80% with any Micropons[i] | 40 | 13.1 | 10 | 15.4 | 26 | 16.5 | 9 | 25.0 |
| >80% with non-Micropon MITEs | 11 | 3.6 | 2 | 3.1 | 0 | 0 | ||
| 54%–80% with non-Micropon MITEs[i] | 29 | 9.5 | 11 | 16.9 | 23 | 14.6 | 11 | 30.6 |
| Any retroelement homology | 13 | 4.3 | 5 | 7.7 | 5 | 3.2 | 1 | 2.8 |
| Other (centromeric, ribosomal, etc.) | 18 | 5.9 | 2 | 3.1 | 3 | 1.9 | 0 | |
| Unique, no homology with any repeats in TIGR database on either end of SSR | 188 | 61.6 | 35 | 53.8 | 50 | 31.6 | 13 | 36.1 |
| TOTAL | 304 | 65 | 158 | 36 | ||||