Table 2:
TE class proportions in Chinese Spring and Renan genome assemblies
| Parameter | Chinese Spring assembly from Zhu et al. [22] | Renan RefSeq_v2.0 | |
|---|---|---|---|
| RefSeq_v1.0 | RefSeq_v2.1 | ||
| Genome size (bp) | 14,066,280,851 | 14,225,829,371 | 14,195,643,615 |
| TE (bp) | 11,921,309,743 | 12,092,094,168 | 11,967,447,100 |
| TE (%) | |||
| All | 84.7 | 85.0 | 84.3 |
| Class I (retrotransposons) | 67.6 | 66.9 | 66.6 |
| Gypsy (RLG) | 46.7 | 46.1 | 45.8 |
| Copia (RLC) | 16.7 | 16.5 | 16.5 |
| Unclassified LTR retrotransposons (RLX) | 3.24 | 3.3 | 3.2 |
| LINE (RIX) | 0.9 | 1.1 | 1.1 |
| SINE (SIX) | 0.01 | 0.01 | 0.01 |
| Class II (DNA transposons) Subclass 1 | 16.5 | 17.0 | 16.9 |
| CACTA (DTC) | 15.5 | 15.9 | 15.8 |
| Mutator (DTM) | 0.38 | 0.44 | 0.44 |
| Unclassified DNA transposons with TIR (DTX) | 0.21 | 0.24 | 0.24 |
| Harbinger (DTH) | 0.16 | 0.18 | 0.18 |
| Mariner (DTT) | 0.16 | 0.17 | 0.17 |
| Unclassified DNA transposons (DXX) | 0.06 | 0.06 | 0.06 |
| hAT (DTA) | 0.006 | 0.009 | 0.009 |
| Helitrons (DHH) | 0.004 | 0.01 | 0.01 |
| Unclassified TE (XXX) | 0.68 | 0.95 | 0.82 |
LINE: long interspersed nuclear element; LTR: long terminal repeat; SINE: short interspersed nuclear element; TIR: terminal inverted repeat.