Cluster no. 40

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Cluster is part of supercluster: 7

Cluster characteristics:

size 6484
size_real 6484
ecount 100949
supercluster 7
annotations_summary 45.33% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-INT
8.76% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-CHDII
0.48% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-INT
0.03% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-INT
0.03% Class_I/LTR/Ty3_gypsy/chromovirus/Galadriel:Ty3-INT
0.02% Class_I/LTR/Ty3_gypsy/chromovirus/Tcn1:Ty3-INT
0.02% Class_I/LTR/Ty1_copia/Ale:Ty1-RT
pair_completeness 0.583394383394383
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.000462677359654534
satellite_probability 1.00051650786948e-21
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S5 2190
S4 2150
S6 2140
comparative analysis - number of edges between species:
S5 S4 S6
S5 11800 11100 11400
S4 11100 10600 11000
S6 11400 11000 11600
comparative analysis - observed/expected number of edges between species
S5 S4 S6
S5 1.01 1.000 0.990
S4 1.00 1.010 0.995
S6 0.99 0.995 1.010

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
Ale Ty1-RT Ale Ty1-RT 1 0.00015
Tekay Ty3-CHDII Tekay Ty3-CHDII 568 0.08760
CRM Ty3-INT CRM Ty3-INT 2 0.00031
Galadriel Ty3-INT Galadriel Ty3-INT 2 0.00031
Reina Ty3-INT Reina Ty3-INT 31 0.00478
Tcn1 Ty3-INT Tcn1 Ty3-INT 1 0.00015
Tekay Ty3-INT Tekay Ty3-INT 2939 0.45327

clusters with similarity:

Cluster Number of similarity hits
22 377
9 213
38 1
87 1

clusters connected through mates:

Cluster Number of shared
read pairs		 k
9 374 0.188
22 264 0.159
1 11 0.00264
58 8 0.00392
1090 8 0.0093
10 6 0.00195
33 5 0.00298
59 5 0.00283
84 5 0.00321
5 4 0.0013
19 4 0.00169
30 4 0.00162
45 4 0.00215
61 4 0.00196
103 4 0.00253
2600 4 0.00467
3040 4 0.00467
6 3 0.000683
11 3 0.00101
20 3 0.0012
34 3 0.0023
35 3 0.00159
49 3 0.00151
72 3 0.00163
83 3 0.00154
90 3 0.00224
107 3 0.00284
2930 3 0.0035
6840 3 0.00351
2 2 0.000507
7 2 0.000667
12 2 0.000556
15 2 0.0011
42 2 0.00113
56 2 0.001
62 2 0.00148
76 2 0.00149
130 2 0.00171
132 2 0.00199
888 2 0.00232
1760 2 0.00233
2470 2 0.00234
6260 2 0.00234
8180 2 0.00234
8660 2 0.00234
9900 2 0.00234
10900 2 0.00234
11500 2 0.00234
11800 2 0.00234
13600 2 0.00234
18900 2 0.00234
19100 2 0.00234
19500 2 0.00234
28900 2 0.00234
32000 2 0.00234
4 1 0.000249
8 1 0.000348
13 1 0.000436
18 1 0.000483
21 1 0.000323
23 1 0.000313
28 1 0.000399
32 1 0.00046
37 1 0.000548
38 1 0.000727
39 1 0.000626
41 1 0.000515
47 1 0.000608
48 1 0.000619
50 1 0.000574
53 1 0.00071
55 1 0.000534
57 1 0.000507
63 1 0.000502
67 1 0.000787
69 1 0.000659
73 1 0.000576
74 1 0.000882
86 1 0.000687
87 1 0.000693
94 1 0.000602
99 1 0.000659
101 1 0.000777
112 1 0.00068
113 1 0.000776
117 1 0.000743
127 1 0.000979
135 1 0.000985
142 1 0.000818
147 1 0.000907
153 1 0.001
166 1 0.0011
168 1 0.00101
169 1 0.00114
178 1 0.00108
214 1 0.00108
217 1 0.0011
219 1 0.0011
234 1 0.00112
247 1 0.00114
251 1 0.00113
287 1 0.00114
363 1 0.00114
391 1 0.00115
531 1 0.00116
700 1 0.00117
717 1 0.00116
754 1 0.00116
1110 1 0.00117
1120 1 0.00117
1150 1 0.00116
1340 1 0.00117
1740 1 0.00117
1780 1 0.00117
2070 1 0.00117
2500 1 0.00117
2830 1 0.00117
3610 1 0.00117
4030 1 0.00117
4950 1 0.00117
5000 1 0.00117
7110 1 0.00117
7250 1 0.00117
7740 1 0.00117
7980 1 0.00117
8240 1 0.00117
8870 1 0.00117
9060 1 0.00117
11700 1 0.00117
11700 1 0.00117
12300 1 0.00117
12500 1 0.00117
13500 1 0.00117
13600 1 0.00117
14100 1 0.00117
15100 1 0.00117
19100 1 0.00117
19800 1 0.00117
20400 1 0.00117
23400 1 0.00117
24700 1 0.00117
25100 1 0.00117
26300 1 0.00117
27500 1 0.00117
27900 1 0.00117
28600 1 0.00117
31400 1 0.00117
32900 1 0.00117
36300 1 0.00117
37500 1 0.00117
38000 1 0.00117
38600 1 0.00117
38900 1 0.00117
40300 1 0.00117
40500 1 0.00117
41900 1 0.00117
42200 1 0.00117
43600 1 0.00117
43800 1 0.00117
44300 1 0.00117
46100 1 0.00117
47100 1 0.00117
47900 1 0.00117

CL40 ----> CL9

image

No. of shared pairs: :374

CL40 ----> CL22

image

No. of shared pairs: :264

CL40 ----> CL1

image

No. of shared pairs: :11