Cluster no. 34

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Cluster is part of supercluster: 10

Cluster characteristics:

size 6723
size_real 6723
ecount 56223
supercluster 10
annotations_summary 18.86% Class_I/LTR/Ty1_copia/SIRE:Ty1-RT
13.09% Class_I/LTR/Ty1_copia/SIRE:Ty1-INT
7.57% Class_I/LTR/Ty1_copia/SIRE:Ty1-RH
3.29% Class_I/LTR/Ty1_copia/SIRE:Ty1-PROT
2.87% Class_I/LTR/Ty1_copia/SIRE:Ty1-GAG
2.04% Class_I/LTR/Ty1_copia/Ivana:Ty1-RH
0.49% Class_I/LTR/Ty1_copia/Ale:Ty1-PROT
0.25% Class_I/LTR/Ty1_copia/Ivana:Ty1-PROT
0.12% Class_I/LTR/Ty1_copia/Ivana:Ty1-INT
0.06% Class_I/LTR/Ty1_copia/Gymco-II:Ty1-PROT
0.06% Class_I/LTR/Ty1_copia/Tork:Ty1-PROT
0.06% Class_I/LTR/Ty1_copia/Ivana:Ty1-RT
0.06% Class_I/LTR/Ty1_copia/Ivana:Ty1-GAG
0.06% Class_I/LTR/Ty1_copia/Ale:Ty1-RT
0.04% Class_II/Subclass_2/Helitron:Helitron-HEL2
0.03% Class_I/LTR/Ty1_copia/TAR:Ty1-INT
0.03% Class_I/LTR/Ty1_copia/Tork:Ty1-INT
0.03% Class_I/LTR/Ty1_copia/Ale:Ty1-RH
0.01% Class_II/Subclass_1/TIR/MuDR_Mutator:MuDR-TPase
0.01% Class_I/LTR/Ty1_copia/Ale:Ty1-INT
pair_completeness 0.763641133263379
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.000148743120630671
satellite_probability 5.68788576307886e-23
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S5 2320
S4 2200
S6 2200
comparative analysis - number of edges between species:
S5 S4 S6
S5 6690 6390 6150
S4 6390 6260 6110
S6 6150 6110 5980
comparative analysis - observed/expected number of edges between species
S5 S4 S6
S5 1.020 0.996 0.986
S4 0.996 1.000 1.000
S6 0.986 1.000 1.010

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
Helitron Helitron-HEL2 Helitron Helitron-HEL2 3 0.00045
MuDR_Mutator MuDR-TPase MuDR_Mutator MuDR-TPase 1 0.00015
Ivana Ty1-GAG Ivana Ty1-GAG 4 0.00059
SIRE Ty1-GAG SIRE Ty1-GAG 193 0.02871
Ale Ty1-INT Ale Ty1-INT 1 0.00015
Ivana Ty1-INT Ivana Ty1-INT 8 0.00119
SIRE Ty1-INT SIRE Ty1-INT 880 0.13089
TAR Ty1-INT TAR Ty1-INT 2 0.00030
Tork Ty1-INT Tork Ty1-INT 2 0.00030
Ale Ty1-PROT Ale Ty1-PROT 33 0.00491
Gymco-II Ty1-PROT Gymco-II Ty1-PROT 4 0.00059
Ivana Ty1-PROT Ivana Ty1-PROT 17 0.00253
SIRE Ty1-PROT SIRE Ty1-PROT 221 0.03287
Tork Ty1-PROT Tork Ty1-PROT 4 0.00059
Ale Ty1-RH Ale Ty1-RH 2 0.00030
Ivana Ty1-RH Ivana Ty1-RH 137 0.02038
SIRE Ty1-RH SIRE Ty1-RH 509 0.07571
Ale Ty1-RT Ale Ty1-RT 4 0.00059
Ivana Ty1-RT Ivana Ty1-RT 4 0.00059
SIRE Ty1-RT SIRE Ty1-RT 1268 0.18861

clusters with similarity:

Cluster Number of similarity hits
62 65
90 17
10 1

clusters connected through mates:

Cluster Number of shared
read pairs		 k
62 140 0.147
90 75 0.08
573 15 0.0325
1 10 0.00265
603 8 0.0174
10 7 0.00261
2 6 0.00169
32 5 0.00283
41 5 0.00325
657 5 0.0109
1600 5 0.011
13 4 0.00211
35 4 0.00269
1790 4 0.00881
2960 4 0.00882
4730 4 0.00883
5080 4 0.00884
6350 4 0.00884
15 3 0.00211
16 3 0.00198
27 3 0.00222
30 3 0.00145
40 3 0.0023
58 3 0.00183
83 3 0.00194
113 3 0.00339
828 3 0.00656
3200 3 0.00663
8140 3 0.00664
10400 3 0.00664
12000 3 0.00664
13500 3 0.00664
7 2 0.00077
9 2 0.00126
45 2 0.00137
54 2 0.00137
59 2 0.00146
61 2 0.00122
88 2 0.00268
96 2 0.00195
103 2 0.0017
132 2 0.00331
578 2 0.00434
981 2 0.0044
1040 2 0.00438
1810 2 0.0044
2190 2 0.0044
2590 2 0.00442
2700 2 0.00442
2890 2 0.00441
3740 2 0.00442
5400 2 0.00443
9190 2 0.00442
15200 2 0.00443
15300 2 0.00443
15700 2 0.00443
23200 2 0.00443
28700 2 0.00443
29000 2 0.00443
38300 2 0.00443
41500 2 0.00443
41700 2 0.00443
44000 2 0.00443
5 1 0.000375
6 1 0.00025
11 1 0.000388
14 1 0.000623
17 1 0.000515
19 1 0.00051
26 1 0.000402
49 1 0.000632
56 1 0.000627
63 1 0.000629
73 1 0.000749
75 1 0.00104
80 1 0.00158
82 1 0.000876
85 1 0.00137
87 1 0.000961
98 1 0.000831
107 1 0.00153
127 1 0.00162
136 1 0.00169
137 1 0.00122
143 1 0.00157
178 1 0.0019
194 1 0.00206
321 1 0.00215
370 1 0.00219
465 1 0.00221
548 1 0.00216
572 1 0.00217
1250 1 0.00221
1330 1 0.0022
1560 1 0.0022
1650 1 0.00221
2440 1 0.0022
3900 1 0.00221
4140 1 0.00221
4570 1 0.00221
4740 1 0.00221
5260 1 0.00221
5280 1 0.00221
6140 1 0.00221
6650 1 0.00221
8220 1 0.00221
8620 1 0.00221
8780 1 0.00221
9340 1 0.00221
9360 1 0.00221
9420 1 0.00221
9610 1 0.00221
10800 1 0.00221
10800 1 0.00221
11000 1 0.00221
11000 1 0.00221
11300 1 0.00222
12000 1 0.00221
17000 1 0.00221
19900 1 0.00221
22300 1 0.00221
23600 1 0.00221
24300 1 0.00221
26100 1 0.00221
27700 1 0.00221
30700 1 0.00221
31100 1 0.00221
32700 1 0.00221
32800 1 0.00221
34300 1 0.00221
35800 1 0.00221
37000 1 0.00221
38400 1 0.00221
39000 1 0.00221
46300 1 0.00221

CL34 ----> CL62

image

No. of shared pairs: :140

CL34 ----> CL90

image

No. of shared pairs: :75

CL34 ----> CL573

image

No. of shared pairs: :15

CL34 ----> CL1

image

No. of shared pairs: :10