Repeat Class | Pacific oyster (Crassostrea gigas) | Sydney rock oyster (Saccostrea glomerata) | Hong Kong oyster (Magallana hongkongensis) (This study) | Hong Kong oyster (Magallana hongkongensis) ([61]: CNGB Accession: CNP0000529) | ||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|
No. elements | Total Length (Mb) | Percentage sequence (%) | No. elements | Total Length (Mb) | Percentage sequence (%) | No. elements | Total Length (Mb) | Percentage sequence (%) | No. elements | Total Length (Mb) | Percentage sequence (%) | |
Retroelement | 37,163 | 28,544,850 | 5.06 | 120,895 | 58.86 | 7.46 | 52,102 | 40.18 | 5.3 | 42,786 | 34.49 | 5.65 |
SINE | 1223 | 236,226 | 0.04 | 3279 | 1.11 | 0.14 | 1264 | 0.30 | 0.04 | 1105 | 0.24 | 0.04 |
LINE | 21,075 | 13,539,249 | 2.40 | 102,086 | 44.00 | 5.58 | 28,141 | 18.21 | 2.40 | 24,710 | 16.73 | 2.74 |
LTR element | 14,865 | 14,769,375 | 2.62 | 15,530 | 13.75 | 1.74 | 22,697 | 21.67 | 2.86 | 16,971 | 17.52 | 2.87 |
DNA transposon | 267,568 | 108,351,108 | 19.18 | 309,542 | 118.32 | 15.01 | 376,197 | 151.49 | 19.99 | 262,645 | 129.15 | 21.17 |
Rolling-circle | 96,923 | 65,056,555 | 11.52 | 158,233 | 69.40 | 8.81 | 138,281 | 95.49 | 12.60 | 105,724 | 89.47 | 14.67 |
Unclassified | 24,313 | 13,835,725 | 2.45 | 133,418 | 61.23 | 8.81 | 40,091 | 23.05 | 3.04 | 22,365 | 14.97 | 2.45 |
Other | 4829 | 1,288,331 | 0.22 | 10,362 | 3.48 | 0.44 | 5561 | 1.43 | 0.19 | 14,840 | 3.35 | 0.55 |
Small RNA | 0 | 0 | 0.00 | 0 | 0.00 | 0.00 | 0 | 0.00 | 0.00 | 0 | 0.00 | 0.00 |
Satellites | 991 | 252,370 | 0.04 | 686 | 0.16 | 0.02 | 614 | 0.19 | 0.03 | 634 | 0.15 | 0.02 |
Simple repeats | 3795 | 1,029,211 | 0.18 | 9666 | 3.32 | 0.42 | 4902 | 1.24 | 0.16 | 14,150 | 3.20 | 0.53 |
Low complexity | 43 | 6750 | 0.00 | 10 | 0 | 0.00 | 45 | 0.00 | 0.00 | 56 | 0.00 | 0.00 |
Total repeats | 430,796 | 217,076,569 | 38.43 | 732,450 | 311.29 | 40.53 | 612,232 | 311.64 | 41.12 | 448,360 | 271.43 | 44.49 |