Table 1 The relative amount of different repeat classes in the reads’ set estimated by comparison with reads mapping (Bowtie2)
From: Mouse chromocenters DNA content: sequencing and in silico analysis
ChrmC % | wgHTS % | Reference genome % | |||
|---|---|---|---|---|---|
ERV | All | 8.8 | 12.7 | 12.3 | |
ERV3 | 3.2 | 5.9 | 6.1 | ||
ERV2 | All | 5.1 | 5.9 | 5 | |
IAP | 2.2 | 0.8 | 1 | ||
ERV1 | 0.5 | 0.9 | 1.2 | ||
LINE | 10.9 | 17.1 | 19.9 | ||
SINE | 2.1 | 5.2 | 8.3 | ||
DNA transposons | 0.6 | 1.2 | 1.2 | ||
TR | MaSat | 66.2 | 13.0 | * | |
MiSat | 4.4 | 0.6 | * | ||
Other | 0.9 | 0.9 | * | ||
Tel** | 0.1 | 0.1< | * | ||
All | 93.7 | 50.8 | – | ||