Table 1.
Most Similar Repbase and Curated Repeats for Each LINE Subfamily in Species Outside of Closely Related Snakes
| Repeat (query) | Species (target repeat) | Percent identity | Hit length (bp) |
|---|---|---|---|
| Most similar Repbase sequences | |||
| Rex-Snek_1H1 | Petromyzon marinus (Rex1-1_PM) | 67.5 | 1,359 |
| Rex-Snek_1H2 | Petromyzon marinus (Rex1-1_PM) | 66.7 | 1,359 |
| Rex-Snek_1H3 | Petromyzon marinus (Rex1-1_PM) | 64.2 | 2,796 |
| Rex-Snek_2 | Cyprinus carpio (Rex1-1_CCa) | 75.9 | 2,795 |
| RTE-Snek_1 | Petromyzon marinus (RTE-2_PM) | 62.9 | 3,100 |
| RTE-Snek_2 | Chrysemys picta (RTE-9_CPB) | 65.3 | 2,926 |
| Proto2-Snek | Oryzias latipes (Proto2-1_OL) | 65.6 | 666 |
| RTE-Kret | Petromyzon marinus (RTE-2_PM) | 63.6 | 3,102 |
| Most similar curated repeats | |||
| Rex-Snek_1H1 | Oryzias latipes | 85.0 | 2,987 |
| Rex-Snek_1H2 | Oryzias latipes | 82.2 | 2,973 |
| Rex-Snek_1H3 | Oryzias latipes | 81.6 | 2,960 |
| Rex-Snek_2 | Miichthys miiuy | 78.7 | 2,594 |
| RTE-Snek_1 | Laticauda colubrina (RTE-Kret) | 84.9 | 3,252 |
| RTE-Snek_2 | Hippocampus comes | 74.4 | 3,184 |
| Proto2-Snek | Epinephelus lanceolatus | 75.4 | 3,299 |
| RTE-Kret | Aipysurus laevis (RTE-Snek_1) | 84.9 | 3.252 |
Note.—Repbase was searched using the seven consensus Aipysurus laevis LINEs using relaxed BLASTN parameters (see Materials and Methods). A database of our curated repeats from all searched species (see Materials and Methods) was searched using the seven consensus A. laevis repeats using default BLASTN parameters.