Cluster no. 165

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Cluster is part of supercluster: 76

Cluster characteristics:

size 1620
size_real 1620
ecount 19765
supercluster 76
annotations_summary 20.99% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RT
9.32% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-PROT
8.09% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-GAG
0.86% Class_I/LTR/Ty3_gypsy/chromovirus/Chlamyvir:Ty3-RT
0.86% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RT
0.80% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-PROT
0.31% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RT
0.12% Class_I/LTR/Ty3_gypsy/chromovirus/Chlamyvir:Ty3-PROT
0.12% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-aRH
0.12% Class_I/LTR/Ty3_gypsy/chromovirus/Galadriel:Ty3-RT
pair_completeness 0.723404255319149
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.00246913580246914
satellite_probability 1.17014641654426e-22
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S8 0
S5 547
S4 532
S7 0
S9 0
S6 541
S2 0
S1 0
S3 0
comparative analysis - number of edges between species:
S8 S5 S4 S7 S9 S6 S2 S1 S3
S8 0 0 0 0 0 0 0 0 0
S5 0 2400 2270 0 0 2260 0 0 0
S4 0 2270 2070 0 0 2080 0 0 0
S7 0 0 0 0 0 0 0 0 0
S9 0 0 0 0 0 0 0 0 0
S6 0 2260 2080 0 0 2070 0 0 0
S2 0 0 0 0 0 0 0 0 0
S1 0 0 0 0 0 0 0 0 0
S3 0 0 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 NA NA NA NA NA NA NA NA NA
S5 NA 0.988 1.010 NA NA 1.010 NA NA NA
S4 NA 1.010 0.993 NA NA 0.998 NA NA NA
S7 NA NA NA NA NA NA NA NA NA
S9 NA NA NA NA NA NA NA NA NA
S6 NA 1.010 0.998 NA NA 0.996 NA NA NA
S2 NA NA NA NA NA NA NA NA NA
S1 NA NA NA NA NA NA NA NA NA
S3 NA NA NA NA NA NA NA NA NA

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
Tekay Ty3-GAG Tekay Ty3-GAG 131 0.0809
Chlamyvir Ty3-PROT Chlamyvir Ty3-PROT 2 0.0012
Reina Ty3-PROT Reina Ty3-PROT 13 0.0080
Tekay Ty3-PROT Tekay Ty3-PROT 151 0.0932
CRM Ty3-RT CRM Ty3-RT 14 0.0086
Chlamyvir Ty3-RT Chlamyvir Ty3-RT 14 0.0086
Galadriel Ty3-RT Galadriel Ty3-RT 2 0.0012
Reina Ty3-RT Reina Ty3-RT 5 0.0031
Tekay Ty3-RT Tekay Ty3-RT 340 0.2099
TatV Ty3-aRH TatV Ty3-aRH 2 0.0012

clusters with similarity:

Cluster Number of similarity hits
39 90
56 65
121 2
155 2

clusters connected through mates:

Cluster Number of shared
read pairs		 k
56 67 0.0892
39 58 0.0533
13 9 0.00544
850 7 0.0509
121 4 0.0101
3710 4 0.03
2590 3 0.0224
3160 3 0.0224
15400 3 0.0228
63 2 0.00388
2820 2 0.0152
11900 2 0.0152
25000 2 0.0153
45600 2 0.0153
58200 2 0.0153
1 1 0.000541
2 1 0.000596
19 1 0.000544
25 1 0.00113
34 1 0.000765
41 1 0.00139
66 1 0.00109
88 1 0.00128
135 1 0.00284
178 1 0.00313
291 1 0.00498
428 1 0.00699
3100 1 0.00746
10200 1 0.00763
14200 1 0.0076
16200 1 0.0076
17000 1 0.00766
19400 1 0.0076
21200 1 0.00763
31100 1 0.00763
36500 1 0.00763
43200 1 0.00763
46000 1 0.00763
48600 1 0.00763
50600 1 0.00763
57000 1 0.00763
59500 1 0.00763
62700 1 0.00763
68400 1 0.00763

CL165 ----> CL56

image

No. of shared pairs: :67

CL165 ----> CL39

image

No. of shared pairs: :58