Cluster no. 34

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Cluster is part of supercluster: 2

Cluster characteristics:

size	5739
size_real	5739
ecount	105725
supercluster	2
annotations_summary	22.11% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-INT 13.43% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RT 8.35% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RH 8.29% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-GAG 3.83% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-PROT 1.25% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RT 0.68% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-GAG 0.56% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RH 0.42% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-GAG 0.23% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-CHDII 0.14% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RT 0.14% Class_I/LTR/Ty3_gypsy/chromovirus/Chlamyvir:Ty3-RT 0.10% Class_I/LTR/Ty3_gypsy/chromovirus/Tcn1:Ty3-RT 0.09% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RH 0.09% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-PROT 0.05% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RH 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/Chlamyvir:Ty3-INT 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/Galadriel:Ty3-RT 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-INT 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/Galadriel:Ty3-GAG 0.02% Class_I/LTR/Ty3_gypsy/chromovirus/Tcn1:Ty3-INT 0.02% organelle/mitochondria 0.02% Class_I/LTR/Ty1_copia/Ivana:Ty1-RT 0.02% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Athila:Ty3-GAG 0.02% Class_I/LTR/Ty3_gypsy/non-chromovirus/Selgy:Ty3-RT
pair_completeness	0.821326562995874
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.000174246384387524
satellite_probability	1.76339170420733e-23
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S8	1960
S9	1880
S7	1900

comparative analysis - number of edges between species:

	S8	S9	S7
S8	12400	12000	11900
S9	12000	11400	11400
S7	11900	11400	11400

comparative analysis - observed/expected number of edges between species

	S8	S9	S7
S8	0.997	1.000	0.998
S9	1.000	0.998	0.997
S7	0.998	0.997	1.000

protein domains:

Reads annotation summary

cl_string domain Freq proportion

mitochondria mitochondria 1 0.00017

Ivana Ty1-RT Ivana Ty1-RT 1 0.00017

Tekay Ty3-CHDII Tekay Ty3-CHDII 13 0.00227

Athila Ty3-GAG Athila Ty3-GAG 1 0.00017

CRM Ty3-GAG CRM Ty3-GAG 39 0.00680

Galadriel Ty3-GAG Galadriel Ty3-GAG 2 0.00035

Reina Ty3-GAG Reina Ty3-GAG 24 0.00418

Tekay Ty3-GAG Tekay Ty3-GAG 476 0.08294

CRM Ty3-INT CRM Ty3-INT 2 0.00035

Chlamyvir Ty3-INT Chlamyvir Ty3-INT 2 0.00035

Tcn1 Ty3-INT Tcn1 Ty3-INT 1 0.00017

Tekay Ty3-INT Tekay Ty3-INT 1269 0.22112

Reina Ty3-PROT Reina Ty3-PROT 5 0.00087

Tekay Ty3-PROT Tekay Ty3-PROT 220 0.03833

CRM Ty3-RH CRM Ty3-RH 3 0.00052

Reina Ty3-RH Reina Ty3-RH 32 0.00558

TatV Ty3-RH TatV Ty3-RH 5 0.00087

Tekay Ty3-RH Tekay Ty3-RH 479 0.08346

CRM Ty3-RT CRM Ty3-RT 8 0.00139

Chlamyvir Ty3-RT Chlamyvir Ty3-RT 8 0.00139

Galadriel Ty3-RT Galadriel Ty3-RT 2 0.00035

Reina Ty3-RT Reina Ty3-RT 72 0.01255

Selgy Ty3-RT Selgy Ty3-RT 1 0.00017

Tcn1 Ty3-RT Tcn1 Ty3-RT 6 0.00105

Tekay Ty3-RT Tekay Ty3-RT 771 0.13434

clusters with similarity:

Cluster	Number of similarity hits

1	450
10	201
12	155
42	120
62	117
45	44
46	38
22	28
76	13
66	7

clusters connected through mates:

Cluster	Number of shared read pairs	k

12	171	0.143
1	151	0.0507
62	91	0.163
22	20	0.0118
42	8	0.0132
10	7	0.00618
46	5	0.00739
16	4	0.00175
23	3	0.00245
2	2	0.00089
18	2	0.00159
21	2	0.00214
45	2	0.00362
5720	2	0.00707
21100	2	0.00708
3	1	0.000304
4	1	0.000365
6	1	0.000357
7	1	0.000883
8	1	0.00057
13	1	0.000393
15	1	0.000745
39	1	0.000917
53	1	0.00172
54	1	0.00173
55	1	0.00184
60	1	0.00166
69	1	0.0021
78	1	0.00206
209	1	0.00337
232	1	0.00331
1480	1	0.00351
4580	1	0.00355
7040	1	0.00355
18700	1	0.00354

CL34 ----> CL12

No. of shared pairs: :171

CL34 ----> CL1

No. of shared pairs: :151

CL34 ----> CL62

No. of shared pairs: :91

CL34 ----> CL22

No. of shared pairs: :20