Cluster no. 45

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Cluster is part of supercluster: 7

Cluster characteristics:

size 6254
size_real 6254
ecount 65936
supercluster 7
annotations_summary 0.06% Class_I/LTR/Ty1_copia/Ale:Ty1-INT
0.02% Class_I/LTR/Ty1_copia/SIRE:Ty1-GAG
0.02% Class_I/LTR/Ty1_copia/Ale:Ty1-PROT
0.02% Class_I/LTR/Ty3_gypsy/chromovirus/Galadriel:Ty3-RT
0.02% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-INT
0.02% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RT
0.02% Class_I/LTR/Ty1_copia/Tork:Ty1-RH
pair_completeness 0.511723471114334
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.00303805564438759
satellite_probability 2.33736515693784e-21
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S5 2200
S4 2000
S6 2050
comparative analysis - number of edges between species:
S5 S4 S6
S5 8490 7420 7510
S4 7420 6640 6880
S6 7510 6880 7170
comparative analysis - observed/expected number of edges between species
S5 S4 S6
S5 1.020 0.998 0.98
S4 0.998 0.998 1.00
S6 0.980 1.000 1.02

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
SIRE Ty1-GAG SIRE Ty1-GAG 1 0.00016
Ale Ty1-INT Ale Ty1-INT 4 0.00064
Ale Ty1-PROT Ale Ty1-PROT 1 0.00016
Tork Ty1-RH Tork Ty1-RH 1 0.00016
Tekay Ty3-INT Tekay Ty3-INT 1 0.00016
Galadriel Ty3-RT Galadriel Ty3-RT 1 0.00016
Tekay Ty3-RT Tekay Ty3-RT 1 0.00016

clusters with similarity:

Cluster Number of similarity hits
9 129
22 35
33 1
41 1

clusters connected through mates:

Cluster Number of shared
read pairs		 k
9 407 0.19
22 217 0.119
1 7 0.00162
5 6 0.00186
10 6 0.00185
19 6 0.00238
41 6 0.00286
59 6 0.00311
61 6 0.00273
20 5 0.00188
49 5 0.00233
32 4 0.00172
40 4 0.00215
72 4 0.002
73 4 0.00211
87 4 0.0025
135 4 0.00341
4470 4 0.00395
4 3 0.00072
6 3 0.000659
8 3 0.00099
15 3 0.00152
28 3 0.00113
33 3 0.00164
56 3 0.00139
58 3 0.00136
62 3 0.00198
84 3 0.00175
98 3 0.0017
103 3 0.00173
127 3 0.00255
130 3 0.00226
144 3 0.00277
1670 3 0.00296
1900 3 0.00296
2010 3 0.00296
4830 3 0.00296
5530 3 0.00296
7420 3 0.00297
10600 3 0.00297
11100 3 0.00297
2 2 0.000488
7 2 0.000634
25 2 0.00123
30 2 0.000762
31 2 0.000924
34 2 0.00137
35 2 0.000977
36 2 0.000967
39 2 0.00114
42 2 0.00104
50 2 0.00105
57 2 0.00094
85 2 0.00155
88 2 0.00153
94 2 0.0011
97 2 0.00137
104 2 0.0012
121 2 0.00143
137 2 0.00145
181 2 0.00184
312 2 0.00194
2570 2 0.00198
3970 2 0.00198
3980 2 0.00198
4200 2 0.00198
4230 2 0.00198
5480 2 0.00198
5870 2 0.00198
8410 2 0.00198
12300 2 0.00198
14600 2 0.00198
15600 2 0.00198
15900 2 0.00198
16100 2 0.00198
18700 2 0.00198
20400 2 0.00198
23200 2 0.00198
24300 2 0.00198
24600 2 0.00198
28200 2 0.00198
29400 2 0.00198
30300 2 0.00198
33800 2 0.00198
37100 2 0.00198
39400 2 0.00198
45500 2 0.00198
3 1 0.000312
12 1 0.000266
13 1 0.000408
17 1 4e-04
26 1 0.000328
29 1 0.000311
38 1 0.000653
47 1 0.000555
48 1 0.000564
52 1 0.000546
54 1 0.000496
63 1 0.000465
67 1 7e-04
68 1 0.000467
75 1 0.000658
78 1 0.000637
80 1 0.000838
83 1 0.000476
86 1 0.00062
95 1 0.000838
102 1 0.000642
106 1 0.000817
111 1 0.00079
113 1 0.000692
115 1 0.000654
117 1 0.000665
132 1 0.00086
142 1 0.000725
149 1 0.000861
150 1 0.000787
183 1 0.000951
201 1 0.000929
218 1 0.000932
224 1 0.000947
234 1 0.000955
275 1 0.000968
377 1 0.000979
392 1 0.000974
437 1 0.000979
449 1 0.00098
460 1 0.000982
504 1 0.000984
508 1 0.000981
560 1 0.000979
646 1 0.000982
750 1 0.000983
929 1 0.000984
1110 1 0.000986
2070 1 0.000986
2340 1 0.000987
2500 1 0.000987
2870 1 0.000989
3040 1 0.000987
3270 1 0.000988
3750 1 0.000988
4820 1 0.000988
5000 1 0.000988
5030 1 0.000989
5400 1 0.000988
6140 1 0.000989
6400 1 0.000988
6450 1 0.000989
7300 1 0.000988
7790 1 0.00099
8060 1 0.000989
8560 1 0.00099
9020 1 0.000989
9190 1 0.000989
9260 1 0.00099
9830 1 0.00099
10700 1 0.00099
10800 1 0.00099
11000 1 0.000989
11000 1 0.000989
11500 1 0.000989
11700 1 0.000989
11900 1 0.000989
12000 1 0.000989
12600 1 0.000989
13900 1 0.000989
14500 1 0.000989
15600 1 0.000989
16400 1 0.000989
17000 1 0.000989
17300 1 0.000989
18100 1 0.000989
19200 1 0.000989
20200 1 0.000989
20200 1 0.000989
20300 1 0.000989
21700 1 0.000989
22400 1 0.000989
22600 1 0.000989
24900 1 0.000989
25600 1 0.000989
26500 1 0.000989
27600 1 0.000989
29100 1 0.000989
29900 1 0.000989
30700 1 0.000989
31500 1 0.000989
33700 1 0.000989
34800 1 0.000989
35100 1 0.000989
37900 1 0.000989
39100 1 0.000989
42300 1 0.000989
42900 1 0.000989
44500 1 0.000989
45900 1 0.000989
46100 1 0.000989
47000 1 0.000989
48200 1 0.000989

CL45 ----> CL9

image

No. of shared pairs: :407

CL45 ----> CL22

image

No. of shared pairs: :217