Cluster no. 87

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Cluster is part of supercluster: 18

Cluster characteristics:

size 3757
size_real 3757
ecount 28070
supercluster 18
annotations_summary 60.42% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-INT
8.89% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-CHDII
0.48% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-INT
0.19% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-INT
0.08% Class_I/LINE:LINE-RT
0.03% Class_I/LTR/Ty3_gypsy/chromovirus/Galadriel:Ty3-RT
0.03% Class_I/LTR/Ty1_copia/Tork:Ty1-PROT
pair_completeness 0.521668691778048
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.000266169816342827
satellite_probability 2.0897667525813e-21
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S5 1210
S4 1290
S6 1260
comparative analysis - number of edges between species:
S5 S4 S6
S5 3020 3220 2950
S4 3220 3480 3120
S6 2950 3120 2990
comparative analysis - observed/expected number of edges between species
S5 S4 S6
S5 1.010 1.000 0.994
S4 1.000 1.010 0.985
S6 0.994 0.985 1.020

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
LINE LINE-RT LINE LINE-RT 3 0.00080
Tork Ty1-PROT Tork Ty1-PROT 1 0.00027
Tekay Ty3-CHDII Tekay Ty3-CHDII 334 0.08890
CRM Ty3-INT CRM Ty3-INT 7 0.00186
Reina Ty3-INT Reina Ty3-INT 18 0.00479
Tekay Ty3-INT Tekay Ty3-INT 2270 0.60421
Galadriel Ty3-RT Galadriel Ty3-RT 1 0.00027

clusters with similarity:

Cluster Number of similarity hits
39 56
33 5
42 3
12 1
40 1

clusters connected through mates:

Cluster Number of shared
read pairs		 k
39 158 0.118
42 123 0.0817
1 10 0.00256
532 10 0.0166
202 9 0.0135
58 6 0.00337
83 6 0.00357
417 6 0.00991
726 6 0.01
94 5 0.00358
1270 5 0.00838
10 4 0.00142
45 4 0.0025
127 4 0.00527
7 3 0.0011
11 3 0.0011
20 3 0.00134
28 3 0.00134
33 3 0.00212
35 3 0.00184
59 3 0.00199
61 3 0.00168
62 3 0.00275
7790 3 0.00507
13000 3 0.00507
19 2 0.000953
30 2 0.000907
50 2 0.00135
56 2 0.00115
69 2 0.00159
72 2 0.00126
73 2 0.00136
84 2 0.00155
989 2 0.00334
1010 2 0.00336
2630 2 0.00337
3440 2 0.00338
4570 2 0.00338
7080 2 0.00338
8720 2 0.00338
9400 2 0.00338
9480 2 0.00338
11400 2 0.00338
12500 2 0.00338
13600 2 0.00338
25800 2 0.00338
27300 2 0.00338
28800 2 0.00338
29000 2 0.00338
30200 2 0.00338
35700 2 0.00338
37800 2 0.00338
39300 2 0.00338
42000 2 0.00338
42700 2 0.00338
46500 2 0.00338
3 1 0.00036
4 1 0.000267
5 1 0.000357
9 1 0.00058
13 1 0.000492
14 1 0.000573
16 1 0.000605
17 1 0.000481
25 1 0.00083
34 1 0.000961
36 1 0.000607
37 1 0.00064
40 1 0.000693
41 1 0.000596
49 1 0.000581
51 1 0.000619
54 1 0.000627
57 1 0.000585
60 1 0.00117
67 1 0.000992
75 1 0.000908
86 1 0.000838
90 1 0.000928
103 1 0.00076
105 1 0.000971
113 1 0.000975
120 1 0.00105
124 1 0.00162
141 1 0.00149
142 1 0.00104
147 1 0.00119
149 1 0.00135
150 1 0.00118
152 1 0.00164
168 1 0.00138
273 1 0.00164
320 1 0.00162
420 1 0.00168
437 1 0.00166
1450 1 0.00168
1530 1 0.00168
1860 1 0.00168
2650 1 0.00168
2670 1 0.00168
2910 1 0.00168
3520 1 0.00169
3800 1 0.00169
4480 1 0.00169
5190 1 0.00169
5740 1 0.00169
6110 1 0.00169
6190 1 0.00169
6380 1 0.00169
6430 1 0.00169
7340 1 0.00169
8480 1 0.00169
8650 1 0.00169
8910 1 0.00169
9100 1 0.00169
9140 1 0.00169
9420 1 0.00169
11200 1 0.00169
12200 1 0.00169
12300 1 0.00169
12900 1 0.00169
13400 1 0.00169
16100 1 0.00169
16300 1 0.00169
19500 1 0.00169
20300 1 0.00169
20500 1 0.00169
20800 1 0.00169
21900 1 0.00169
24900 1 0.00169
27200 1 0.00169
34300 1 0.00169
34600 1 0.00169
35300 1 0.00169
36400 1 0.00169
37500 1 0.00169
38300 1 0.00169
38500 1 0.00169
40900 1 0.00169
42600 1 0.00169
43900 1 0.00169

CL87 ----> CL39

image

No. of shared pairs: :158

CL87 ----> CL42

image

No. of shared pairs: :123

CL87 ----> CL1

image

No. of shared pairs: :10

CL87 ----> CL532

image

No. of shared pairs: :10