Cluster no. 89

Cluster no. 89

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Cluster is part of supercluster: 9

Cluster characteristics:

size	3711
size_real	3711
ecount	41068
supercluster	9
annotations_summary	50.15% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-INT 6.95% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-CHDII 0.30% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-INT 0.05% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RH 0.05% Class_I/LTR/Ty3_gypsy/chromovirus/Galadriel:Ty3-INT 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-INT 0.03% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RT
pair_completeness	0.594072164948454
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.000269469145782808
satellite_probability	8.75468016753053e-22
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S8	3
S5	1260
S4	1240
S7	3
S9	2
S6	1200
S2	4
S1	2
S3	3

comparative analysis - number of edges between species:

	S8	S5	S4	S7	S9	S6	S2	S1	S3
S8	0.0	3.5	0.5	0.0	0.0	2.5	0.0	0.0	0.0
S5	3.5	4730.0	4510.0	15.5	19.0	4600.0	16.5	0.0	14.0
S4	0.5	4510.0	4410.0	13.5	12.0	4410.0	14.0	0.0	14.0
S7	0.0	15.5	13.5	0.0	0.0	13.5	0.5	0.0	0.0
S9	0.0	19.0	12.0	0.0	0.0	14.5	0.0	0.0	0.0
S6	2.5	4600.0	4410.0	13.5	14.5	4500.0	12.0	0.5	20.5
S2	0.0	16.5	14.0	0.5	0.0	12.0	0.0	0.0	0.0
S1	0.0	0.0	0.0	0.0	0.0	0.5	0.0	1.0	0.0
S3	0.0	14.0	14.0	0.0	0.0	20.5	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	0.000	1.590	0.236	0.000	0.000	1.160	0.000	0.00	0.000
S5	1.590	1.000	0.995	1.060	1.230	1.000	1.130	0.00	0.852
S4	0.236	0.995	1.010	0.963	0.809	0.996	0.999	0.00	0.885
S7	0.000	1.060	0.963	0.000	0.000	0.950	11.100	0.00	0.000
S9	0.000	1.230	0.809	0.000	0.000	0.964	0.000	0.00	0.000
S6	1.160	1.000	0.996	0.950	0.964	1.000	0.844	1.01	1.280
S2	0.000	1.130	0.999	11.100	0.000	0.844	0.000	0.00	0.000
S1	0.000	0.000	0.000	0.000	0.000	1.010	0.000	18300.00	0.000
S3	0.000	0.852	0.885	0.000	0.000	1.280	0.000	0.00	0.000

protein domains:

protein domains:

Reads annotation summary

cl_string domain Freq proportion

Tekay Ty3-CHDII Tekay Ty3-CHDII 258 0.06952

CRM Ty3-INT CRM Ty3-INT 1 0.00027

Galadriel Ty3-INT Galadriel Ty3-INT 2 0.00054

Reina Ty3-INT Reina Ty3-INT 11 0.00296

Tekay Ty3-INT Tekay Ty3-INT 1861 0.50148

Tekay Ty3-RH Tekay Ty3-RH 2 0.00054

CRM Ty3-RT CRM Ty3-RT 1 0.00027

clusters with similarity:

Cluster	Number of similarity hits

52	109
31	44

clusters connected through mates:

Cluster	Number of shared read pairs	k

52	166	0.162
31	148	0.121
95	5	0.00491
14	4	0.00192
61	4	0.00305
117	4	0.00476
1	3	0.00137
3	3	0.000911
15	3	0.00109
39	3	0.0021
56	3	0.00274
130	3	0.00341
145	3	0.00499
4210	3	0.0063
7630	3	0.00632
6	2	0.000642
48	2	0.00138
55	2	0.00168
86	2	0.00205
99	2	0.00201
126	2	0.00227
146	2	0.00201
5170	2	0.00421
9170	2	0.00421
12500	2	0.00422
12600	2	0.00422
12600	2	0.00422
23200	2	0.00422
23700	2	0.00422
32200	2	0.00422
40300	2	0.00422
44100	2	0.00422
45200	2	0.00422
47900	2	0.00422
52800	2	0.00422
55000	2	0.00422
8	1	0.000437
29	1	0.000662
33	1	0.000448
37	1	0.000823
43	1	0.000578
47	1	0.000703
60	1	0.000687
67	1	0.000753
70	1	0.00126
74	1	0.00125
80	1	0.000825
84	1	0.000821
88	1	0.000889
90	1	0.000875
100	1	0.00111
105	1	0.001
119	1	0.00131
122	1	0.0015
128	1	0.000914
135	1	0.00144
142	1	0.00151
159	1	0.0013
186	1	0.00173
220	1	0.00172
252	1	0.00181
530	1	0.00206
676	1	0.00208
911	1	0.00208
1300	1	0.00209
1410	1	0.00209
1560	1	0.0021
1920	1	0.00209
2320	1	0.0021
2320	1	0.00209
2660	1	0.00211
4350	1	0.0021
6130	1	0.00211
6480	1	0.00211
6960	1	0.00211
7190	1	0.00211
7890	1	0.00211
9940	1	0.00211
11900	1	0.00211
12200	1	0.00211
17100	1	0.00211
17500	1	0.00211
20100	1	0.00211
20200	1	0.00211
23400	1	0.00211
26000	1	0.00211
28300	1	0.00211
29300	1	0.00211
32100	1	0.00211
34500	1	0.00211
35200	1	0.00211
35500	1	0.00211
41100	1	0.00211
41600	1	0.00211
42900	1	0.00211
44300	1	0.00211
45200	1	0.00211
46300	1	0.00211
48700	1	0.00211
48900	1	0.00211
51500	1	0.00211
52000	1	0.00211
57000	1	0.00211
62700	1	0.00211
68600	1	0.00211
70800	1	0.00211

CL89 ----> CL52

No. of shared pairs: :166

CL89 ----> CL31

No. of shared pairs: :148