Cluster no. 89

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Cluster is part of supercluster: 6

Cluster characteristics:

size	3591
size_real	3591
ecount	169990
supercluster	6
annotations_summary	24.70% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RT 11.92% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-GAG 9.11% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-PROT 3.37% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RH 0.95% Class_I/LTR/Ty3_gypsy/chromovirus/Chlamyvir:Ty3-RT 0.53% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RH 0.22% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-PROT 0.19% Class_I/LTR/Ty3_gypsy/non-chromovirus/Selgy:Ty3-RH 0.08% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-GAG 0.06% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RT 0.06% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RH 0.06% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIV_Ogre:Ty3-RH 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/Galadriel:Ty3-RT 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RH 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/Tcn1:Ty3-RT 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-INT 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-GAG 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RT
pair_completeness	0.714899713467049
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.000278473962684489
satellite_probability	1.39099901770407e-22
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S5	1200
S4	1210
S6	1180

comparative analysis - number of edges between species:

	S5	S4	S6
S5	20600	19900	18600
S4	19900	19000	18100
S6	18600	18100	17200

comparative analysis - observed/expected number of edges between species

	S5	S4	S6
S5	1.000	1.010	0.993
S4	1.010	0.995	1.000
S6	0.993	1.000	1.010

protein domains:

Reads annotation summary

cl_string domain Freq proportion

CRM Ty3-GAG CRM Ty3-GAG 3 0.00084

Reina Ty3-GAG Reina Ty3-GAG 1 0.00028

Tekay Ty3-GAG Tekay Ty3-GAG 428 0.11919

Reina Ty3-INT Reina Ty3-INT 1 0.00028

Reina Ty3-PROT Reina Ty3-PROT 8 0.00223

Tekay Ty3-PROT Tekay Ty3-PROT 327 0.09106

CRM Ty3-RH CRM Ty3-RH 2 0.00056

Reina Ty3-RH Reina Ty3-RH 1 0.00028

Selgy Ty3-RH Selgy Ty3-RH 7 0.00195

TatIV_Ogre Ty3-RH TatIV_Ogre Ty3-RH 2 0.00056

TatV Ty3-RH TatV Ty3-RH 19 0.00529

Tekay Ty3-RH Tekay Ty3-RH 121 0.03370

CRM Ty3-RT CRM Ty3-RT 1 0.00028

Chlamyvir Ty3-RT Chlamyvir Ty3-RT 34 0.00947

Galadriel Ty3-RT Galadriel Ty3-RT 1 0.00028

Reina Ty3-RT Reina Ty3-RT 2 0.00056

Tcn1 Ty3-RT Tcn1 Ty3-RT 1 0.00028

Tekay Ty3-RT Tekay Ty3-RT 887 0.24701

clusters with similarity:

Cluster	Number of similarity hits

88	1480
59	813
92	8
15	1

clusters connected through mates:

Cluster	Number of shared read pairs	k

59	152	0.125
88	142	0.239
221	14	0.042
92	9	0.018
921	8	0.0263
1730	6	0.0198
10	3	0.00119
61	3	0.00202
1	2	0.000553
30	2	0.00105
35	2	0.0015
56	2	0.00139
57	2	0.00141
84	2	0.002
3480	2	0.00663
4400	2	0.00664
6090	2	0.00666
6910	2	0.00668
32300	2	0.00668
47200	2	0.00668
2	1	0.000295
3	1	0.000402
4	1	0.000289
5	1	0.000398
7	1	0.000409
15	1	0.00079
21	1	0.000393
22	1	0.000905
29	1	4e-04
31	1	0.000688
32	1	0.000618
38	1	0.00122
41	1	0.000722
46	1	0.000659
49	1	0.000699
51	1	0.000755
58	1	0.000672
62	1	0.00125
69	1	0.00104
74	1	0.00173
90	1	0.00127
91	1	0.00292
106	1	0.00195
109	1	0.00111
136	1	0.00227
142	1	0.0015
8190	1	0.00333
11600	1	0.00333
12300	1	0.00333
14600	1	0.00334
24100	1	0.00334
30300	1	0.00334
34100	1	0.00334
37600	1	0.00334
39500	1	0.00334
39800	1	0.00334
41700	1	0.00334
42500	1	0.00334
42600	1	0.00334
48100	1	0.00334

CL89 ----> CL59

No. of shared pairs: :152

CL89 ----> CL88

No. of shared pairs: :142

CL89 ----> CL221

No. of shared pairs: :14