Cluster no. 39

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Cluster is part of supercluster: 11

Cluster characteristics:

size 6651
size_real 6651
ecount 203417
supercluster 11
annotations_summary 0.68% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-GAG
0.59% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-GAG
0.03% organelle/mitochondria
0.02% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-GAG
pair_completeness 0.552521008403361
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.000751766651631334
satellite_probability 1.46614129999921e-21
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S8 3
S5 2180
S4 2220
S7 3
S9 2
S6 2220
S2 13
S1 5
S3 5
comparative analysis - number of edges between species:
S8 S5 S4 S7 S9 S6 S2 S1 S3
S8 1.0 68.5 73.0 0.0 0 81.5 1.5 0.0 0.5
S5 68.5 21700.0 21900.0 23.5 14 22000.0 294.0 12.0 36.0
S4 73.0 21900.0 22500.0 33.0 22 22800.0 295.0 12.5 42.0
S7 0.0 23.5 33.0 0.0 0 27.5 0.0 0.0 0.0
S9 0.0 14.0 22.0 0.0 1 19.0 0.0 0.0 0.0
S6 81.5 22000.0 22800.0 27.5 19 23000.0 274.0 18.0 42.0
S2 1.5 294.0 295.0 0.0 0 274.0 3.0 0.0 0.0
S1 0.0 12.0 12.5 0.0 0 18.0 0.0 0.0 0.0
S3 0.5 36.0 42.0 0.0 0 42.0 0.0 0.0 0.0
comparative analysis - observed/expected number of edges between species
S8 S5 S4 S7 S9 S6 S2 S1 S3
S8 3.980 0.933 0.970 0.000 0.00 1.080 1.560 0.000 3.73
S5 0.933 1.010 0.997 0.861 0.77 0.992 1.040 0.869 0.92
S4 0.970 0.997 1.000 1.180 1.18 1.000 1.020 0.884 1.05
S7 0.000 0.861 1.180 0.000 0.00 0.976 0.000 0.000 0.00
S9 0.000 0.770 1.180 0.000 64.90 1.010 0.000 0.000 0.00
S6 1.080 0.992 1.000 0.976 1.01 1.010 0.941 1.260 1.04
S2 1.560 1.040 1.020 0.000 0.00 0.941 0.813 0.000 0.00
S1 0.000 0.869 0.884 0.000 0.00 1.260 0.000 0.000 0.00
S3 3.730 0.920 1.050 0.000 0.00 1.040 0.000 0.000 0.00

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
mitochondria mitochondria 2 0.00030
CRM Ty3-GAG CRM Ty3-GAG 39 0.00586
Reina Ty3-GAG Reina Ty3-GAG 1 0.00015
Tekay Ty3-GAG Tekay Ty3-GAG 45 0.00677

clusters with similarity:

Cluster Number of similarity hits
6 2470
66 1600
3 762
15 686
33 303
13 196
165 90
237 73
48 26
19 3
2 1
25 1
45 1
121 1

clusters connected through mates:

Cluster Number of shared
read pairs		 k
66 494 0.282
6 141 0.0392
15 84 0.026
13 78 0.0314
19 66 0.0247
165 58 0.0533
3 50 0.0132
237 49 0.0475
33 25 0.0092
385 12 0.0123
67 8 0.00441
1 6 0.00224
14 6 0.00234
2 5 0.002
29 5 0.0025
43 5 0.00226
105 5 0.00337
4570 5 0.0052
25 4 0.00234
52 4 0.00265
55 4 0.00239
6510 4 0.00416
10 3 0.00118
31 3 0.00176
48 3 0.00155
56 3 0.0019
61 3 0.00167
63 3 0.00223
89 3 0.0021
94 3 0.00231
121 3 0.00245
186 3 0.00282
2370 3 0.00312
2570 3 0.00312
34 2 0.000937
37 2 0.00118
44 2 0.0011
45 2 0.000837
62 2 0.00145
73 2 0.00129
80 2 0.00118
87 2 0.00127
88 2 0.00124
92 2 0.00142
99 2 0.00135
100 2 0.00144
145 2 0.00184
146 2 0.00135
161 2 0.0015
184 2 0.00163
195 2 0.00186
211 2 0.00176
220 2 0.00188
2970 2 0.00208
7680 2 0.00208
8380 2 0.00208
19900 2 0.00208
24000 2 0.00208
29300 2 0.00208
45800 2 0.00208
52400 2 0.00208
59000 2 0.00208
60900 2 0.00208
61800 2 0.00208
65000 2 0.00208
69500 2 0.00208
71000 2 0.00208
16 1 0.00068
20 1 0.000535
24 1 0.000634
35 1 0.000517
41 1 0.000646
47 1 0.000524
49 1 4e-04
70 1 0.00078
72 1 0.000618
81 1 0.000753
84 1 0.000587
86 1 0.000685
90 1 0.000614
93 1 0.00062
95 1 0.000664
101 1 0.000696
112 1 0.000774
120 1 0.000736
123 1 0.000653
141 1 0.000881
151 1 0.000721
158 1 0.000987
181 1 0.000752
185 1 0.000809
208 1 0.000875
236 1 0.000956
274 1 0.00102
285 1 0.00102
307 1 0.000998
368 1 0.000999
444 1 0.00102
470 1 0.00103
829 1 0.00103
1190 1 0.00103
1280 1 0.00104
1700 1 0.00104
1850 1 0.00104
2000 1 0.00104
2200 1 0.00104
2370 1 0.00104
2580 1 0.00104
3100 1 0.00104
3220 1 0.00104
6850 1 0.00104
8000 1 0.00104
8350 1 0.00104
8480 1 0.00104
8480 1 0.00104
9530 1 0.00104
10200 1 0.00104
11100 1 0.00104
12000 1 0.00104
12000 1 0.00104
12300 1 0.00104
14100 1 0.00104
14500 1 0.00104
14500 1 0.00104
14900 1 0.00104
14900 1 0.00104
16200 1 0.00104
16600 1 0.00104
17200 1 0.00104
17900 1 0.00104
19100 1 0.00104
21000 1 0.00104
21700 1 0.00104
21900 1 0.00104
22300 1 0.00104
24000 1 0.00104
26100 1 0.00104
26600 1 0.00104
26800 1 0.00104
28100 1 0.00104
28100 1 0.00104
28400 1 0.00104
29000 1 0.00104
30700 1 0.00104
30700 1 0.00104
34000 1 0.00104
35100 1 0.00104
39100 1 0.00104
42700 1 0.00104
43900 1 0.00104
44100 1 0.00104
45600 1 0.00104
50000 1 0.00104
50000 1 0.00104
50300 1 0.00104
53800 1 0.00104
54500 1 0.00104
54800 1 0.00104
58700 1 0.00104
60300 1 0.00104
60300 1 0.00104
61800 1 0.00104
65100 1 0.00104
70800 1 0.00104

CL39 ----> CL66

image

No. of shared pairs: :494

CL39 ----> CL6

image

No. of shared pairs: :141

CL39 ----> CL15

image

No. of shared pairs: :84

CL39 ----> CL13

image

No. of shared pairs: :78

CL39 ----> CL19

image

No. of shared pairs: :66

CL39 ----> CL165

image

No. of shared pairs: :58

CL39 ----> CL3

image

No. of shared pairs: :50

CL39 ----> CL237

image

No. of shared pairs: :49

CL39 ----> CL33

image

No. of shared pairs: :25

CL39 ----> CL385

image

No. of shared pairs: :12