Cluster no. 10

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Cluster is part of supercluster: 2

Cluster characteristics:

size 8521
size_real 8521
ecount 300641
supercluster 2
annotations_summary 22.51% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RT
13.78% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RH
6.38% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-PROT
1.65% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RT
1.00% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RH
0.54% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-INT
0.40% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RT
0.39% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-PROT
0.35% Class_I/LTR/Ty3_gypsy/chromovirus/Chlamyvir:Ty3-RT
0.26% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-CHDII
0.14% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RH
0.08% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-INT
0.07% Class_I/pararetrovirus:PARA-RT
0.06% Class_I/LTR/Ty3_gypsy/chromovirus/Chlamyvir:Ty3-PROT
0.05% Class_I/LTR/Ty3_gypsy/chromovirus/Galadriel:Ty3-RT
0.05% Class_I/LTR/Ty3_gypsy/chromovirus/Tcn1:Ty3-RT
0.02% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Athila:Ty3-RH
0.02% Class_I/LTR/Ty3_gypsy/chromovirus/Galadriel:Ty3-RH
0.02% Class_I/LTR/Ty1_copia/Gymco-II:Ty1-RT
0.02% Class_I/LTR/Ty3_gypsy/non-chromovirus/Selgy:Ty3-RT
0.01% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-GAG
0.01% Class_I/LTR/Ty3_gypsy/chromovirus/chromo-outgroup:Ty3-RT
0.01% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RT
pair_completeness 0.667188417139503
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.000469428470836756
satellite_probability 2.69560262167269e-22
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S8 2800
S9 2890
S7 2830
comparative analysis - number of edges between species:
S8 S9 S7
S8 31800 33000 33400
S9 33000 33900 34000
S7 33400 34000 34200
comparative analysis - observed/expected number of edges between species
S8 S9 S7
S8 0.993 1.000 1.010
S9 1.000 1.000 0.999
S7 1.010 0.999 0.995

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
pararetrovirus PARA-RT pararetrovirus PARA-RT 6 0.00070
Gymco-II Ty1-RT Gymco-II Ty1-RT 2 0.00023
Tekay Ty3-CHDII Tekay Ty3-CHDII 22 0.00258
Tekay Ty3-GAG Tekay Ty3-GAG 1 0.00012
Reina Ty3-INT Reina Ty3-INT 7 0.00082
Tekay Ty3-INT Tekay Ty3-INT 46 0.00540
Chlamyvir Ty3-PROT Chlamyvir Ty3-PROT 5 0.00059
Reina Ty3-PROT Reina Ty3-PROT 33 0.00387
Tekay Ty3-PROT Tekay Ty3-PROT 544 0.06384
Athila Ty3-RH Athila Ty3-RH 2 0.00023
CRM Ty3-RH CRM Ty3-RH 12 0.00141
Galadriel Ty3-RH Galadriel Ty3-RH 2 0.00023
Reina Ty3-RH Reina Ty3-RH 85 0.00998
Tekay Ty3-RH Tekay Ty3-RH 1174 0.13778
CRM Ty3-RT CRM Ty3-RT 34 0.00399
Chlamyvir Ty3-RT Chlamyvir Ty3-RT 30 0.00352
Galadriel Ty3-RT Galadriel Ty3-RT 4 0.00047
Reina Ty3-RT Reina Ty3-RT 141 0.01655
Selgy Ty3-RT Selgy Ty3-RT 2 0.00023
TatV Ty3-RT TatV Ty3-RT 1 0.00012
Tcn1 Ty3-RT Tcn1 Ty3-RT 4 0.00047
Tekay Ty3-RT Tekay Ty3-RT 1918 0.22509
chromo-outgroup Ty3-RT chromo-outgroup Ty3-RT 1 0.00012

clusters with similarity:

Cluster Number of similarity hits
46 2670
23 1250
42 1250
34 201
22 156
1 138
76 53
73 51
66 38
45 26
33 16
21 8
164 3
39 1

clusters connected through mates:

Cluster Number of shared
read pairs		 k
46 340 0.273
23 336 0.187
22 186 0.0824
42 106 0.0903
1 100 0.0282
66 76 0.0681
76 64 0.0593
73 41 0.0363
21 28 0.0186
33 19 0.0151
164 13 0.0149
13 7 0.00225
34 7 0.00618
16 6 0.0021
44 5 0.00427
12 4 0.00227
2 3 0.00107
4 3 0.000906
63 3 0.00212
70 3 0.00261
2000 3 0.00351
8 2 0.000861
18 2 0.00109
24 2 0.000985
36 2 0.00134
39 2 0.00121
45 2 0.00178
92 2 0.00212
2460 2 0.00234
9180 2 0.00235
12700 2 0.00235
22100 2 0.00235
5 1 0.000285
7 1 0.000588
14 1 0.000586
17 1 0.000581
19 1 0.000365
25 1 0.000793
28 1 0.000734
30 1 0.000681
38 1 0.000585
41 1 0.000551
49 1 0.00061
54 1 0.000873
56 1 0.000668
60 1 0.000854
69 1 0.000957
79 1 0.000962
83 1 0.000859
89 1 0.00108
95 1 0.00108
102 1 0.00108
111 1 0.0011
129 1 0.00111
229 1 0.00115
698 1 0.00117
1150 1 0.00117
1280 1 0.00117
1400 1 0.00117
1740 1 0.00117
2660 1 0.00117
4130 1 0.00117
4180 1 0.00117
4590 1 0.00118
5400 1 0.00117
5770 1 0.00118
6780 1 0.00117
6950 1 0.00117
9260 1 0.00117
10200 1 0.00117
10300 1 0.00117
13500 1 0.00117
15000 1 0.00117
19300 1 0.00117
21900 1 0.00117
25300 1 0.00117
25400 1 0.00117
26000 1 0.00117
26000 1 0.00117

CL10 ----> CL46

image

No. of shared pairs: :340

CL10 ----> CL23

image

No. of shared pairs: :336

CL10 ----> CL22

image

No. of shared pairs: :186

CL10 ----> CL42

image

No. of shared pairs: :106

CL10 ----> CL1

image

No. of shared pairs: :100

CL10 ----> CL66

image

No. of shared pairs: :76

CL10 ----> CL76

image

No. of shared pairs: :64

CL10 ----> CL73

image

No. of shared pairs: :41

CL10 ----> CL21

image

No. of shared pairs: :28

CL10 ----> CL33

image

No. of shared pairs: :19

CL10 ----> CL164

image

No. of shared pairs: :13