Table 4.
Percentage of repeat sequences present in Bubalus bubalis muscle TST exome and in whole genome
| Repeat | In captured genomic sequencea (%) | In whole genome sequenceb (%) |
|---|---|---|
| Simple repeat | 0.09 | 4.00 |
| Satellite | 15.38 | 0.63 |
| Low complexity | 0.30 | 2.78 |
| LINE | 13.89 | 26.64 |
| SINE | 2.44 | 35.37 |
| LTR | 4.07 | 7.25 |
| DNA elements | 1.78 | 3.91 |
| RNA | 0.08 | 0.1 |
| Unknown | 0.02 | 0.06 |
| Total | 38.05 | 80.74 |
Note: Analysis of repeat masking of captured data with repeat masker software. Capture resulted in almost 40% reduction in repeat sequences. Percentage of repeats in captured genomic sequences (a) and in whole genome sequence assembly of sequencing data (b) was shown. LINE, long interspersed nuclear element; SINE, short interspersed nuclear element; LTR, long terminal repeat.