Cluster no. 55

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Cluster is part of supercluster: 4

Cluster characteristics:

size	3817
size_real	3817
ecount	249784
supercluster	4
annotations_summary	53.97% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-INT 25.91% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RH 0.50% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RH 0.18% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-INT 0.16% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RH 0.05% Class_I/LTR/Ty3_gypsy/chromovirus/Galadriel:Ty3-RH 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-INT
pair_completeness	0.7201442091032
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.00209588682211161
satellite_probability	1.17014641654426e-22
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S2	1210
S1	1300
S3	1310

comparative analysis - number of edges between species:

	S2	S1	S3
S2	23600	26600	26700
S1	26600	29600	29900
S3	26700	29900	30200

comparative analysis - observed/expected number of edges between species

	S2	S1	S3
S2	0.996	1.000	0.999
S1	1.000	0.997	0.999
S3	0.999	0.999	1.000

protein domains:

Reads annotation summary

cl_string domain Freq proportion

CRM Ty3-INT CRM Ty3-INT 1 0.00026

Reina Ty3-INT Reina Ty3-INT 7 0.00183

Tekay Ty3-INT Tekay Ty3-INT 2060 0.53969

Galadriel Ty3-RH Galadriel Ty3-RH 2 0.00052

Reina Ty3-RH Reina Ty3-RH 19 0.00498

TatV Ty3-RH TatV Ty3-RH 6 0.00157

Tekay Ty3-RH Tekay Ty3-RH 989 0.25910

clusters with similarity:

Cluster	Number of similarity hits

42	2470
43	1680
71	66
78	16
54	4

clusters connected through mates:

Cluster	Number of shared read pairs	k

43	220	0.321
42	210	0.158
71	35	0.0611
78	4	0.00822
9	2	0.0013
13	2	0.00116
29	2	0.00165
38	2	0.00161
40	2	0.00215
52	2	0.00409
75	2	0.00272
36300	2	0.00642
1	1	0.000433
4	1	0.000389
17	1	0.000653
19	1	0.00161
22	1	0.000778
23	1	0.000911
24	1	0.000707
25	1	0.00085
30	1	0.000718
31	1	0.00066
36	1	0.00125
39	1	0.000737
48	1	0.00121
66	1	0.00183
67	1	0.00146
69	1	0.00172
72	1	0.00154
74	1	0.00079
84	1	0.00164
119	1	0.00218
120	1	0.00303
170	1	0.00295
307	1	0.00302
1140	1	0.00316
2870	1	0.00318
3060	1	0.00319
3420	1	0.00319
7650	1	0.0032
17700	1	0.00321
18200	1	0.00321
24800	1	0.00321
51900	1	0.00321
52400	1	0.00321

CL55 ----> CL43

No. of shared pairs: :220

CL55 ----> CL42

No. of shared pairs: :210

CL55 ----> CL71

No. of shared pairs: :35