Cluster CL4
Cluster summary
Number.of.reads |
Number.of.pairs |
Density |
10152
|
548078
|
0.011
|
|
Summary of RepeatMasker hits
|
class.fammily |
class |
family |
hits |
hits[%] |
content |
Mean_Score |
3
|
LTR/Copia
|
LTR
|
Copia
|
5217
|
51.4000
|
45.7863
|
333
|
4
|
Low_complexity
|
Low_complexity
|
Low_complexity
|
341
|
3.3600
|
1.6366
|
28
|
5
|
DNA/hAT-Tag1
|
DNA
|
hAT-Tag1
|
1
|
0.0098
|
0.0077
|
226
|
6
|
DNA/PIF-Harbinger
|
DNA
|
PIF-Harbinger
|
1
|
0.0098
|
0.0070
|
249
|
7
|
Simple_repeat
|
Simple_repeat
|
Simple_repeat
|
1
|
0.0098
|
0.0024
|
207
|
|
Summary of RepeatMasker custom library hits
|
class.fammily |
class |
family |
hits |
hits[%] |
content |
Mean_Score |
3
|
DNA/DCRE10/DCRE10
|
DNA
|
DCRE10
|
2219
|
21.9000
|
20.1329
|
664
|
4
|
DNA/DCRE5/DCRE5
|
DNA
|
DCRE5
|
255
|
2.5100
|
2.2942
|
734
|
5
|
DNA/DCRE21/DCRE21
|
DNA
|
DCRE21
|
288
|
2.8400
|
2.2618
|
556
|
6
|
DNA/DCRE18/DCRE18
|
DNA
|
DCRE18
|
193
|
1.9000
|
1.4729
|
275
|
7
|
DNA/7Mb1
|
DNA
|
7Mb1
|
1
|
0.0098
|
0.0051
|
230
|
8
|
DNA/Mitochondrion_162001-163000
|
DNA
|
Mitochondrion_162001-163000
|
1
|
0.0098
|
0.0047
|
226
|
9
|
DNA/Plastid_128001-129000
|
DNA
|
Plastid_128001-129000
|
1
|
0.0098
|
0.0036
|
248
|
10
|
DNA/Plastid_23001-24000
|
DNA
|
Plastid_23001-24000
|
1
|
0.0098
|
0.0036
|
233
|
11
|
DNA/DCRE14/DCRE14
|
DNA
|
DCRE14
|
1
|
0.0098
|
0.0035
|
261
|
12
|
DNA/Mitochondrion_145001-146000
|
DNA
|
Mitochondrion_145001-146000
|
1
|
0.0098
|
0.0032
|
229
|
13
|
DNA/Plastid_66001-67000
|
DNA
|
Plastid_66001-67000
|
1
|
0.0098
|
0.0026
|
228
|
|
Summary of TE domain hits
Number of similarity hits for individual sequences
|
Domain |
ID |
Type |
Lineage |
Hits |
MeanScore |
1
|
Ty1-INT
|
Wicker_Inga_AY661558-2
|
Ty1/copia
|
Maximus/SIRE
|
382
|
46
|
2
|
Ty1-RT
|
SIRE1_INT_
|
Ty1/copia
|
Maximus/SIRE
|
338
|
45
|
3
|
Ty1-RH
|
Wicker_Osr9_Os_cons
|
Ty1/copia
|
Maximus/SIRE
|
326
|
51
|
4
|
Ty1-RT
|
Wicker_Osr9_Os_cons
|
Ty1/copia
|
Maximus/SIRE
|
322
|
45
|
5
|
Ty1-RT
|
Wicker_Usier_11O9-1
|
Ty1/copia
|
Maximus/SIRE
|
320
|
43
|
6
|
Ty1-RT
|
Wicker_Maximus_cons
|
Ty1/copia
|
Maximus/SIRE
|
290
|
48
|
7
|
Ty1-INT
|
Wicker_Usier_11O9-1
|
Ty1/copia
|
Maximus/SIRE
|
286
|
39
|
8
|
Ty1-RH
|
Wicker_Barbara_A_210J24-3
|
Ty1/copia
|
Maximus/SIRE
|
220
|
51
|
9
|
Ty1-RH
|
Wicker_Inga_AY661558-2
|
Ty1/copia
|
Maximus/SIRE
|
216
|
44
|
10
|
Ty1-RT
|
Wicker_Osr8_Os_cons
|
Ty1/copia
|
Maximus/SIRE
|
214
|
44
|
11
|
Ty1-RT
|
Wicker_Inga_AY661558-2
|
Ty1/copia
|
Maximus/SIRE
|
211
|
49
|
12
|
Ty1-RH
|
Wicker_Osr8_Os_cons
|
Ty1/copia
|
Maximus/SIRE
|
187
|
51
|
13
|
Ty1-RT
|
Wicker_Echidne_Os_cons
|
Ty1/copia
|
Maximus/SIRE
|
185
|
41
|
14
|
Ty1-RT
|
Wicker_Osr10_Os_cons
|
Ty1/copia
|
Maximus/SIRE
|
130
|
41
|
15
|
Ty1-RT
|
Wicker_Barbara_A_210J24-3
|
Ty1/copia
|
Maximus/SIRE
|
113
|
46
|
16
|
Ty1-INT
|
Wicker_ATCopia43_At-1
|
Ty1/copia
|
Maximus/SIRE
|
112
|
43
|
17
|
Ty1-RH
|
Wicker_Osr10_Os_cons
|
Ty1/copia
|
Maximus/SIRE
|
111
|
45
|
18
|
Ty1-RT
|
Wicker_ATCopia58_At-101
|
Ty1/copia
|
Maximus/SIRE
|
76
|
45
|
19
|
Ty1-RH
|
Wicker_Maximus_cons
|
Ty1/copia
|
Maximus/SIRE
|
71
|
51
|
20
|
Ty1-RT
|
ATCOPIA43I
|
Ty1/copia
|
Maximus/SIRE
|
58
|
42
|
21
|
Ty1-INT
|
COPIA3-I_OS
|
Ty1/copia
|
Tork
|
58
|
34
|
22
|
Ty1-INT
|
Wicker_Osr10_Os_cons
|
Ty1/copia
|
Maximus/SIRE
|
43
|
33
|
23
|
Ty1-RT
|
GmCOPIA11_I
|
Ty1/copia
|
Ivana/Oryco
|
41
|
48
|
24
|
Ty1-INT
|
Wicker_ATCopia58_At-101
|
Ty1/copia
|
Maximus/SIRE
|
38
|
45
|
25
|
Ty1-INT
|
Wicker_Barbara_A_210J24-3
|
Ty1/copia
|
Maximus/SIRE
|
33
|
41
|
26
|
Ty1-RH
|
Wicker_Echidne_Os_cons
|
Ty1/copia
|
Maximus/SIRE
|
33
|
40
|
27
|
Ty1-RT
|
Wicker_Marcus_Os-1
|
Ty1/copia
|
Maximus/SIRE
|
33
|
35
|
28
|
Ty1-RT
|
COPIA3-I_LC
|
Ty1/copia
|
Maximus/SIRE
|
30
|
44
|
29
|
Ty1-RT
|
ATCOPIA63_I
|
Ty1/copia
|
Ivana/Oryco
|
25
|
52
|
30
|
Ty1-INT
|
Wicker_Maximus_cons
|
Ty1/copia
|
Maximus/SIRE
|
16
|
33
|
31
|
Ty1-RT
|
Copia-54_ZM-I
|
Ty1/copia
|
Ivana/Oryco
|
16
|
49
|
32
|
Ty1-RH
|
ATCOPIA43I
|
Ty1/copia
|
Maximus/SIRE
|
13
|
55
|
33
|
Ty1-RT
|
Llorens_Poco_AC210386.1
|
Ty1/copia
|
Ivana/Oryco
|
12
|
42
|
34
|
Ty1-RH
|
Wicker_Inav_AY013246-1
|
Ty1/copia
|
AleI/Retrofit
|
11
|
38
|
35
|
Ty1-RT
|
Copia-29_SB-I
|
Ty1/copia
|
Ivana/Oryco
|
11
|
49
|
36
|
Ty1-INT
|
COPIA3-I_LC
|
Ty1/copia
|
Maximus/SIRE
|
10
|
33
|
37
|
Ty1-INT
|
Wicker_Osr8_Os_cons
|
Ty1/copia
|
Maximus/SIRE
|
9
|
39
|
38
|
Ty1-RT
|
Llorens_Araco_AC079131.4
|
Ty1/copia
|
Ivana/Oryco
|
8
|
51
|
39
|
Ty1-INT
|
SHACOP4_I_MT
|
Ty1/copia
|
Ivana/Oryco
|
8
|
34
|
40
|
Ty1-RH
|
Wicker_Usier_11O9-1
|
Ty1/copia
|
Maximus/SIRE
|
5
|
51
|
41
|
Ty1-INT
|
ATCOPIA22I
|
Ty1/copia
|
AleII
|
5
|
32
|
42
|
Ty1-RH
|
SIRE1_INT_
|
Ty1/copia
|
Maximus/SIRE
|
3
|
39
|
43
|
Ty1-INT
|
Copia-8_SB-I
|
Ty1/copia
|
AleII
|
2
|
32
|
44
|
Ty1-RT
|
COP12_I_MT
|
Ty1/copia
|
Ivana/Oryco
|
2
|
36
|
45
|
Ty1-RT
|
HOPSCOTCH_ZM-I
|
Ty1/copia
|
AleI/Retrofit
|
2
|
40
|
46
|
Ty1-RT
|
ATCOPIA47_I
|
Ty1/copia
|
AleI/Retrofit
|
2
|
42
|
47
|
Ty1-INT
|
Copia4-ZM_I
|
Ty1/copia
|
Ivana/Oryco
|
2
|
45
|
48
|
Ty1-RH
|
Wicker_Kasia_102J11-1
|
Ty1/copia
|
Ivana/Oryco
|
2
|
39
|
49
|
Ty1-RT
|
Wicker_Ikeros_A_102J11-1
|
Ty1/copia
|
Angela
|
1
|
44
|
50
|
Ty1-INT
|
Wicker_Marcus_Os-1
|
Ty1/copia
|
Maximus/SIRE
|
1
|
45
|
51
|
Ty1-INT
|
SIRE1_INT_
|
Ty1/copia
|
Maximus/SIRE
|
1
|
35
|
52
|
Ty1-INT
|
Wicker_ATCopia26_At-103
|
Ty1/copia
|
AleII
|
1
|
30
|
53
|
Ty1-INT
|
SHACOP6_I_MT
|
Ty1/copia
|
AleII
|
1
|
41
|
54
|
Ty1-RT
|
Copia-26_SB-I
|
Ty1/copia
|
AleI/Retrofit
|
1
|
38
|
55
|
Ty1-RT
|
ATCOPIA51_I
|
Ty1/copia
|
AleI/Retrofit
|
1
|
48
|
56
|
Ty1-INT
|
Wicker_Ostonor1_Os_cons
|
Ty1/copia
|
Angela
|
1
|
35
|
57
|
Ty1-INT
|
Wicker_HORPIA_AY661558-1
|
Ty1/copia
|
Ivana/Oryco
|
1
|
32
|
58
|
Ty1-INT
|
Wicker_Alina_At-1
|
Ty1/copia
|
AleII
|
1
|
31
|
59
|
Ty1-RT
|
ATCOPIA1I
|
Ty1/copia
|
AleII
|
1
|
34
|
60
|
Ty1-RT
|
Llorens_Oryco1-1_AL928755.5
|
Ty1/copia
|
Ivana/Oryco
|
1
|
48
|
61
|
Ty1-INT
|
Wicker_Echidne_Os_cons
|
Ty1/copia
|
Maximus/SIRE
|
1
|
50
|
62
|
Ty1-RH
|
ATCOPIA63_I
|
Ty1/copia
|
Ivana/Oryco
|
1
|
45
|
63
|
Ty1-INT
|
Wicker_Betsy_Os_cons
|
Ty1/copia
|
AleII
|
1
|
30
|
64
|
Ty1-INT
|
COP10_I_MT
|
Ty1/copia
|
AleII
|
1
|
34
|
65
|
Ty1-INT
|
Copia26-ZM_I
|
Ty1/copia
|
AleI/Retrofit
|
1
|
34
|
66
|
Ty1-RH
|
Copia4-ZM_I
|
Ty1/copia
|
Ivana/Oryco
|
1
|
34
|
67
|
Ty1-RT
|
Copia27-PTR_I
|
Ty1/copia
|
Ivana/Oryco
|
1
|
32
|
68
|
Ty1-INT
|
Copia-20_SB-I
|
Ty1/copia
|
Ivana/Oryco
|
1
|
45
|
69
|
Ty1-RH
|
Wicker_ATCopia43_At-1
|
Ty1/copia
|
Maximus/SIRE
|
1
|
41
|
70
|
Ty1-INT
|
COPI2_I
|
Ty1/copia
|
Tork
|
1
|
34
|
71
|
Ty1-RH
|
Wicker_Marcus_Os-1
|
Ty1/copia
|
Maximus/SIRE
|
1
|
54
|
72
|
Ty1-INT
|
CPSC4A_I
|
Ty1/copia
|
Ivana/Oryco
|
1
|
43
|
73
|
Ty1-RT
|
Wicker_Kasia_102J11-1
|
Ty1/copia
|
Ivana/Oryco
|
1
|
44
|
|
Layout of the cluster
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
|
CL9
|
1227
|
2
|
CL3
|
843
|
3
|
CL5
|
11
|
4
|
CL20
|
2
|
5
|
CL221
|
1
|
6
|
CL98
|
1
|
|
reads with similarity to all other neighboring clusters
no mates information available