Repeat
In the current version, DogGD contains two genomes that are dhole & wolf. We load the scaffold list with length > 500kb.
Table information
| file name: |
wolf.genome.fa |
| sequences: |
44203 |
| total length: |
2313148660 bp (2259454654 bp excl N/X-runs) |
| GC level: |
40.70% |
| bases masked: |
908176566 bp ( 39.26%) |
|
number of |
length |
percentage |
|
elements* |
occupied |
of sequence |
| SINEs: |
1470906 |
240411925 bp |
10.39% |
| Alu/B1 |
0 |
0 bp |
0.00% |
| MIRs |
428181 |
63303252 bp |
2.74% |
| LINEs: |
872121 |
437460733 bp |
18.91% |
| LINE1 |
532302 |
348633039 bp |
15.07% |
| LINE2 |
289070 |
77403890 bp |
3.35% |
| L3/CR1 |
37523 |
8218057 bp |
0.36% |
| RTE |
12054 |
3015643 bp |
0.13% |
| LTR elements: |
299903 |
115575671 bp |
5.00% |
| ERVL |
88172 |
39234773 bp |
1.70% |
| ERVL-MaLRs |
142926 |
49322218 bp |
2.13% |
| ERV_classI |
46955 |
21558506 bp |
0.93% |
| ERV_classII |
0 |
0 bp |
0.00% |
| DNA elements: |
318218 |
67024759 bp |
2.90% |
| hAT-Charlie |
184506 |
35787295 bp |
1.55% |
| TcMar-Tigger |
47852 |
14280629 bp |
0.62% |
| DNA Unclassified: |
6258 |
1106928 bp |
0.05% |
| Total interspersed repeats: |
861580016 bp |
37.25% |
| Small RNA: |
1080599 |
179717502 bp |
7.77% |
| Satellites: |
871 |
844231 bp |
0.04% |
| Simple repeats: |
833484 |
36826283 bp |
1.59% |
| Low complexity: |
113493 |
5738809 bp |
0.25% |
* most repeats fragmented by insertions or deletions have been counted as one element
The query species was assumed to be canis lupus familiaris RepeatMasker version open-4.0.5 , sensitive mode
run with rmblastn version 2.2.27+ RepBase Update 20140131, RM database version 20140131 |
