Cluster no. 33

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Cluster is part of supercluster: 4

Cluster characteristics:

size	5769
size_real	5769
ecount	254122
supercluster	4
annotations_summary	24.06% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RT 12.88% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-GAG 8.29% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RH 5.49% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-PROT 0.94% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RT 0.76% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-GAG 0.42% Class_I/LTR/Ty3_gypsy/chromovirus/Chlamyvir:Ty3-RT 0.16% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-PROT 0.14% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RH 0.12% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RH 0.10% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Athila:Ty3-RH 0.10% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-GAG 0.07% Class_I/LTR/Ty3_gypsy/chromovirus/Galadriel:Ty3-RT 0.07% Class_I/pararetrovirus:PARA-RT 0.05% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RH 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RT 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/Tcn1:Ty3-RT 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/chromo-outgroup:Ty3-RT 0.02% Class_I/LTR/Ty3_gypsy/chromovirus/Tcn1:Ty3-INT 0.02% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-INT 0.02% Class_I/LTR/Ty1_copia/Tork:Ty1-INT 0.02% Class_I/LINE:LINE-RT 0.02% Class_I/LTR/Ty3_gypsy/non-chromovirus/Selgy:Ty3-RT
pair_completeness	0.753495440729483
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.000173340266944011
satellite_probability	6.84243327814155e-23
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S8	1970
S9	1970
S7	1820

comparative analysis - number of edges between species:

	S8	S9	S7
S8	29800	30000	27300
S9	30000	30200	27300
S7	27300	27300	24700

comparative analysis - observed/expected number of edges between species

	S8	S9	S7
S8	0.996	1.000	1.000
S9	1.000	1.000	0.999
S7	1.000	0.999	0.997

protein domains:

Reads annotation summary

cl_string domain Freq proportion

LINE LINE-RT LINE LINE-RT 1 0.00017

pararetrovirus PARA-RT pararetrovirus PARA-RT 4 0.00069

Tork Ty1-INT Tork Ty1-INT 1 0.00017

CRM Ty3-GAG CRM Ty3-GAG 44 0.00763

Reina Ty3-GAG Reina Ty3-GAG 6 0.00104

Tekay Ty3-GAG Tekay Ty3-GAG 743 0.12879

Tcn1 Ty3-INT Tcn1 Ty3-INT 1 0.00017

Tekay Ty3-INT Tekay Ty3-INT 1 0.00017

Reina Ty3-PROT Reina Ty3-PROT 9 0.00156

Tekay Ty3-PROT Tekay Ty3-PROT 317 0.05495

Athila Ty3-RH Athila Ty3-RH 6 0.00104

CRM Ty3-RH CRM Ty3-RH 7 0.00121

Reina Ty3-RH Reina Ty3-RH 3 0.00052

TatV Ty3-RH TatV Ty3-RH 8 0.00139

Tekay Ty3-RH Tekay Ty3-RH 478 0.08286

CRM Ty3-RT CRM Ty3-RT 2 0.00035

Chlamyvir Ty3-RT Chlamyvir Ty3-RT 24 0.00416

Galadriel Ty3-RT Galadriel Ty3-RT 4 0.00069

Reina Ty3-RT Reina Ty3-RT 54 0.00936

Selgy Ty3-RT Selgy Ty3-RT 1 0.00017

Tcn1 Ty3-RT Tcn1 Ty3-RT 2 0.00035

Tekay Ty3-RT Tekay Ty3-RT 1388 0.24060

chromo-outgroup Ty3-RT chromo-outgroup Ty3-RT 2 0.00035

clusters with similarity:

Cluster	Number of similarity hits

44	1790
21	952
64	24
10	16
73	11

clusters connected through mates:

Cluster	Number of shared read pairs	k

21	222	0.21
44	213	0.293
64	34	0.0463
73	29	0.0423
10	19	0.0151
1	9	0.0029
2660	4	0.0098
4	3	0.00105
22	3	0.00166
12	2	0.00152
13	2	0.00075
15	2	0.00136
16	2	0.000829
18	2	0.00145
19	2	0.000873
79	2	0.00336
154	2	0.00448
3	1	0.000293
5	1	0.000327
20	1	0.000438
23	1	0.000741
25	1	0.00123
26	1	0.000465
36	1	0.000954
42	1	0.00137
52	1	0.000687
53	1	0.00142
55	1	0.0015
57	1	0.00236
61	1	0.00111
62	1	0.00146
63	1	0.00103
66	1	0.00149
70	1	0.00142
82	1	0.00208
92	1	0.00201
203	1	0.00234
229	1	0.00237
444	1	0.00242
566	1	0.00241
1060	1	0.00244
2190	1	0.00245
2470	1	0.00245
2860	1	0.00245
2930	1	0.00245
3710	1	0.00246
4690	1	0.00246
5780	1	0.00246
6430	1	0.00246
8000	1	0.00246
8840	1	0.00246
12900	1	0.00246
13000	1	0.00246
15500	1	0.00246
18200	1	0.00246

CL33 ----> CL21

No. of shared pairs: :222

CL33 ----> CL44

No. of shared pairs: :213

CL33 ----> CL64

No. of shared pairs: :34

CL33 ----> CL73

No. of shared pairs: :29

CL33 ----> CL10

No. of shared pairs: :19