Analysis of repetitive sequences from pilot BAC end sequences of Oryza BAC libraries
Oryza species | Genome | # reads | GC % | Total detected | ISRb | % of interspersed | Low complexity | Simple | ||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Type | Size (Mb) | Length (kb)a | kb | % | kb | LTR | LINE | SINE | DNA | UNC | kb | % | kb | % | ||||||||||||
| glaberrima | AA | 357 | 2304 | 41.7 | 1362 | 396 | 29 | 215 | 77.0 | 3.9 | 0.7 | 17.8 | 0.6 | 5.1 | 0.4 | 4.8 | 0.4 | |||||||||
| rufipogon | AA | 439 | 2249 | 42.1 | 1571 | 574 | 37 | 285 | 78.6 | 2.2 | 0.9 | 17.6 | 0.7 | 5.7 | 0.4 | 5.4 | 0.3 | |||||||||
| nivara | AA | 448 | 2213 | 42.8 | 1458 | 519 | 36 | 236 | 78.9 | 3.1 | 1.1 | 16.5 | 0.4 | 5.1 | 0.4 | 5.5 | 0.4 | |||||||||
| punctata | BB | 425 | 1503 | 41.8 | 1062 | 385 | 36 | 243 | 83.2 | 1.1 | 0.2 | 15.5 | 0.0 | 3.7 | 0.4 | 2.7 | 0.3 | |||||||||
| officinalis | CC | 651 | 2910 | 42.9 | 2070 | 859 | 41 | 425 | 77.3 | 1.1 | 0.3 | 21.1 | 0.2 | 7.3 | 0.4 | 5.8 | 0.3 | |||||||||
| minuta | BBCC | 1124 | 3212 | 42.5 | 2243 | 859 | 38 | 469 | 74.6 | 0.9 | 0.3 | 24.1 | 0.1 | 7.9 | 0.4 | 3.7 | 0.2 | |||||||||
| alta | CCDD | 1008 | 2196 | 43.0 | 1274 | 485 | 38 | 201 | 79.3 | 2.4 | 0.1 | 18.0 | 0.1 | 3.8 | 0.3 | 3.9 | 0.3 | |||||||||
| australiensis | EE | 965 | 2254 | 44.4 | 1572 | 768 | 49 | 354 | 80.9 | 0.8 | 0.0 | 18.2 | 0.0 | 5.4 | 0.4 | 4.0 | 0.3 | |||||||||
| brachyantha | FF | 362 | 623 | 40.9 | 357 | 60 | 17 | 20 | 85.4 | 3.3 | 0.0 | 11.2 | 0.0 | 2.3 | 0.6 | 2.4 | 0.7 | |||||||||
| granulata | GG | 882 | 2105 | 45.6 | 1452 | 507 | 35 | 203 | 87.6 | 1.7 | 0.1 | 10.5 | 0.0 | 4.5 | 0.3 | 2.6 | 0.2 | |||||||||
| ridleyi | HHJJ | 1283 | 3658 | 43.4 | 2579 | 862 | 33 | 503 | 69.9 | 0.2 | 0.1 | 29.7 | 0.1 | 8.9 | 0.4 | 5.7 | 0.2 | |||||||||
| coarctata | HHKK | NDc | 3764 | 40.3 | 2577 | 412 | 16 | 233 | 82.6 | 2.2 | 0.2 | 14.7 | 0.2 | 18.3 | 0.7 | 4.6 | 0.2 | |||||||||
a Length excluding Ns
b Interspersed repeats and includes LTR elements, LINE elements, SINE elements, DNA transposons, UNC (unclassified) and simple sequence repeats
c Not determined