Table 2 Genome-wide distribution of RsaI repeat fragments and their homologies with SINE and LINEs
S.No. | Sequence ID | GC level | Type of Elements | Subclass | Position of repeat in sequence | Length occupied (bp) | Percentage of the sequence in the buffalo genome |
|---|---|---|---|---|---|---|---|
1. | pDp1 | 35.46 | LINE2 | L2 | 34-220 | 501 | 37.64 |
LINE1 | L1MEc | 222-722 | 187 | 14.05 | |||
RTE | BovB | 730-785 | 532 | 39.97 | |||
BTLTR | 786-855 | ||||||
BovB | 856-1331 | ||||||
2. | pDp2 | 38.25 | LINE 1 | L1MC1s | 9-651 | 643 | 98.77 |
3. | pDp3 | 39.47 | LTR Elements (ERV_class I) | MER67C | 7-212 | 206 | 34.16 |
4. | pDp4 | 30.68 | SINE | BovB | 1-159 | 44 | 12.98 |
LINE (RTE) | BovA | 160-203 | 159 | 46.90 | |||
Low complexity | AT rich | 245-310 | 66 | 19.47 |