Table 1.
Structural features of euchromatic TR families
| TR families | Number of arrays | Number of arrays per chromosome |
Max. number of monomers per array | Avarage number of monomers per array | Nucleotide diversity (Pi) of monomers in cluster ± standard deviation | The monomer length (bp) | AT content | Number of monomers | Total repeat family length (kb) | % of assembled genome | % of genome estimated by dot blot | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| CH1 | CH2 | CH3 | CH4 | CH5 | CH6 | CH7 | CH8 | CH9 | CH10 | |||||||||||
| Cast1 | 46 | 0 | 1 | 13 | 1 | 1 | 8 | 3 | 4 | 10 | 5 | 31 | 10.63 | 0.20143 ± 0.00320 | 166–173 | 66.2 | 489 | 83 | 0.053 | >1 |
| Cast2 | 42 | 6 | 1 | 4 | 5 | 4 | 4 | 1 | 10 | 1 | 3 | 33 | 12.19 | 0.12138 ± 0.00303 | 166–172 | 72.3 | 512 | 87 | 0.056 | 0.5 |
| Cast3 | 35 | 2 | 1 | 3 | 6 | 3 | 7 | 2 | 5 | 2 | 4 | 17 | 6.57 | 0.11734 ± 0.006 | 205–219 | 74.8 | 230 | 48 | 0.031 | 0.2 |
| Cast4 | 33 | 0 | 1 | 5 | 0 | 2 | 3 | 8 | 8 | 4 | 0 | 31 | 12.91 | 0.21765 ± 0.00296 | 168–176 | 69.7 | 426 | 73 | 0.047 | 0.5 |
| Cast5 | 30 | 0 | 1 | 6 | 3 | 3 | 5 | 1 | 7 | 1 | 3 | 28 | 11.6 | 0.09620 ± 0.00182 | 270–338 | 73.1 | 384 | 117 | 0.075 | >1 |
| Cast6 | 6 | 0 | 0 | 4 | 0 | 1 | 0 | 0 | 1 | 0 | 0 | 54 | 21.17 | 0.16874 ± 0.00385 | 179–181 | 66 | 157 | 28 | 0.018 | 0.5 |
| Cast7 | 10 | 0 | 0 | 4 | 1 | 2 | 1 | 0 | 2 | 0 | 0 | 12 | 8.3 | 0.28310 ± 0.00129 | 109–114 | 68.9 | 83 | 9 | 0.006 | 0.2 |
| Cast8 | 10 | 0 | 0 | 2 | 0 | 0 | 1 | 0 | 1 | 4 | 2 | 24 | 12 | 0.16321 ± 0.00733 | 161–167 | 67.3 | 120 | 20 | 0.013 | 0.2 |
| Cast9 | 10 | 0 | 0 | 2 | 0 | 1 | 3 | 0 | 1 | 0 | 3 | 10 | 6.4 | 0.25299 ± 0.00481 | 311–346 | 72.6 | 64 | 21 | 0.013 | 0.2 |
| Total | 222 | 2501 | 486 | 0.312 | >4.3 | |||||||||||||||