Cluster CL2
Cluster summary
| Number.of.reads |
Number.of.pairs |
Density |
| 28743
|
1.5e+08
|
0.36
|
|
Summary of RepeatMasker hits
| |
class.fammily |
class |
family |
hits |
hits[%] |
content |
Mean_Score |
| 3
|
LINE/L1
|
LINE
|
L1
|
3
|
0.0104
|
0.0050
|
231
|
| 4
|
Low_complexity
|
Low_complexity
|
Low_complexity
|
4
|
0.0139
|
0.0036
|
22
|
| 5
|
LTR/Gypsy
|
LTR
|
Gypsy
|
2
|
0.0070
|
0.0029
|
233
|
| 6
|
DNA/CMC-EnSpm
|
DNA
|
CMC-EnSpm
|
1
|
0.0035
|
0.0015
|
226
|
|
Summary of RepeatMasker custom library hits
| |
class.fammily |
class |
family |
hits |
hits[%] |
content |
Mean_Score |
| 3
|
DNA/DCRE20/DCRE20
|
DNA
|
DCRE20
|
27411
|
95.4000
|
93.1504
|
711
|
| 4
|
DNA/CentromereRepeat
|
DNA
|
CentromereRepeat
|
1700
|
5.9100
|
5.1120
|
616
|
| 5
|
DNA/CentromereMotif
|
DNA
|
CentromereMotif
|
9
|
0.0313
|
0.0123
|
255
|
| 6
|
DNA/1Mb2
|
DNA
|
1Mb2
|
1
|
0.0035
|
0.0032
|
301
|
| 7
|
DNA/3Mb1
|
DNA
|
3Mb1
|
2
|
0.0070
|
0.0024
|
271
|
| 8
|
DNA/Plastid_147001-148000
|
DNA
|
Plastid_147001-148000
|
1
|
0.0035
|
0.0020
|
311
|
| 9
|
DNA/Plastid_15501-16500
|
DNA
|
Plastid_15501-16500
|
1
|
0.0035
|
0.0014
|
353
|
| 10
|
DNA/Plastid_6501-7500
|
DNA
|
Plastid_6501-7500
|
1
|
0.0035
|
0.0014
|
323
|
| 11
|
DNA/Arabidopsis_telomere_motif
|
DNA
|
Arabidopsis_telomere_motif
|
1
|
0.0035
|
0.0014
|
229
|
| 12
|
DNA/Plastid_56501-57500
|
DNA
|
Plastid_56501-57500
|
1
|
0.0035
|
0.0013
|
269
|
| 13
|
DNA/5Mb1
|
DNA
|
5Mb1
|
1
|
0.0035
|
0.0013
|
287
|
| 14
|
DNA/DCRE16/DCRE16
|
DNA
|
DCRE16
|
1
|
0.0035
|
0.0013
|
252
|
| 15
|
DNA/DCRE5/DCRE5
|
DNA
|
DCRE5
|
1
|
0.0035
|
0.0013
|
309
|
| 16
|
DNA/Plastid_137501-138500
|
DNA
|
Plastid_137501-138500
|
1
|
0.0035
|
0.0012
|
257
|
| 17
|
DNA/Plastid_139001-140000
|
DNA
|
Plastid_139001-140000
|
1
|
0.0035
|
0.0012
|
283
|
| 18
|
DNA/Plastid_19001-20000
|
DNA
|
Plastid_19001-20000
|
1
|
0.0035
|
0.0012
|
279
|
| 19
|
DNA/Plastid_135501-136500
|
DNA
|
Plastid_135501-136500
|
1
|
0.0035
|
0.0012
|
249
|
| 20
|
DNA/Plastid_151501-152500
|
DNA
|
Plastid_151501-152500
|
1
|
0.0035
|
0.0012
|
289
|
| 21
|
DNA/Plastid_32501-33500
|
DNA
|
Plastid_32501-33500
|
1
|
0.0035
|
0.0011
|
248
|
|
Summary of TE domain hits
No similarity hits detected!
Layout of the cluster
Graph too large, edges not shown!
Connected component
Neighborhood of the cluster
Explore interactive graph - 1st order neighbors
Explore interactive graph - 2nd order neighbors
Clusters with similarity hits
| |
cluster |
number of similarity hits |
| 1
|
CL1
|
72417714
|
| 2
|
CL176
|
2780
|
| 3
|
CL98
|
271
|
| 4
|
CL2491
|
26
|
| 5
|
CL5103
|
8
|
| 6
|
CL58709
|
2
|
| 7
|
CL49734
|
2
|
| 8
|
CL16
|
1
|
| 9
|
CL69
|
1
|
|
reads with similarity to all other neighboring clusters
no mates information available