Cluster no. 63

Cluster no. 63

Go back to cluster table

Cluster is part of supercluster: 2

Cluster characteristics:

size	5077
size_real	5077
ecount	443809
supercluster	2
annotations_summary	0.02% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-GAG 0.02% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Athila:Ty3-RH 0.02% Class_I/LTR/Ty1_copia/SIRE:Ty1-RT
pair_completeness	0.38036976617727
pbs_score	None
TR_score	None
TR_monomer_length	None
loop_index	0.00453023439038802
satellite_probability	7.55887620545779e-21
consensus	None
TAREAN_annotation	Other
orientation_score	1

comparative analysis:

Comparative analysis - species read counts:

Species	Read count
S5	1700
S4	1750
S6	1630

comparative analysis - number of edges between species:

	S5	S4	S6
S5	47900	50600	47400
S4	50600	53600	49800
S6	47400	49800	46500

comparative analysis - observed/expected number of edges between species

	S5	S4	S6
S5	0.998	0.999	1.000
S4	0.999	1.000	0.998
S6	1.000	0.998	0.999

protein domains:

protein domains:

Reads annotation summary

cl_string domain Freq proportion

SIRE Ty1-RT SIRE Ty1-RT 1 2e-04

Reina Ty3-GAG Reina Ty3-GAG 1 2e-04

Athila Ty3-RH Athila Ty3-RH 1 2e-04

clusters with similarity:

Cluster	Number of similarity hits

7	10000
12	5470
1	3010
2	960
61	925
77	11
19	2
41	1
71	1
198	1

clusters connected through mates:

Cluster	Number of shared read pairs	k

12	927	0.239
7	493	0.15
2	138	0.0326
1	54	0.0121
4	39	0.00907
48	19	0.00999
13	17	0.00658
26	17	0.00535
61	16	0.00687
19	7	0.00264
32	7	0.00285
9	6	0.00264
24	6	0.00266
28	6	0.00215
3	5	0.0015
16	5	0.00227
50	5	0.00246
77	5	0.00257
5	4	0.00119
6	4	0.000854
17	4	0.00152
20	4	0.00144
49	4	0.00176
56	4	0.00175
96	4	0.00234
8	3	0.000949
15	3	0.00142
18	3	0.00127
31	3	0.00131
35	3	0.00138
36	3	0.00137
51	3	0.00139
54	3	0.0014
85	3	0.00211
14	2	0.000872
22	2	0.00103
23	2	0.000575
27	2	0.000981
29	2	0.000599
30	2	0.000726
33	2	0.00102
37	2	0.000948
41	2	0.000898
46	2	0.000848
58	2	0.000859
64	2	0.000912
65	2	0.00115
68	2	0.000881
70	2	0.00123
71	2	0.00107
72	2	0.000939
80	2	0.00151
90	2	0.00123
11	1	0.000306
21	1	0.000296
34	1	0.000629
39	1	0.000531
40	1	0.000502
43	1	0.000504
45	1	0.000465
47	1	0.000518
62	1	0.000609
66	1	0.000576
67	1	0.000642
69	1	0.000554
76	1	0.000613
81	1	0.000479
84	1	0.000543
86	1	0.000574
88	1	0.000697
93	1	0.000604
99	1	0.000554
100	1	0.000703
101	1	0.000636
104	1	0.000556
106	1	0.000739
107	1	0.000744
110	1	0.000546
111	1	0.000717
119	1	0.000629
123	1	0.000791
127	1	0.000765
128	1	0.000772
134	1	0.000713
135	1	0.000768
143	1	0.000753
144	1	0.000824
157	1	0.000866
161	1	0.00083
165	1	0.000795
170	1	0.000814
172	1	0.000832
174	1	0.000839
175	1	0.000824
181	1	0.000821
193	1	0.00084
198	1	0.000853
222	1	0.000855
234	1	0.00085
258	1	0.00086
470	1	0.000868
855	1	0.000873
1300	1	0.000873
2360	1	0.000875
2530	1	0.000876
2950	1	0.000875
4000	1	0.000876
6000	1	0.000876
6470	1	0.000876
6640	1	0.000877
9780	1	0.000876
9990	1	0.000876
10000	1	0.000876
10900	1	0.000877
11500	1	0.000876
11900	1	0.000877
13500	1	0.000876
14300	1	0.000877
22400	1	0.000877
24400	1	0.000877
26200	1	0.000877
28300	1	0.000877
28300	1	0.000877
29900	1	0.000877
32000	1	0.000877
38300	1	0.000877
45400	1	0.000877
45600	1	0.000877
48100	1	0.000877

CL63 ----> CL12

No. of shared pairs: :927

CL63 ----> CL7

No. of shared pairs: :493

CL63 ----> CL2

No. of shared pairs: :138

CL63 ----> CL1

No. of shared pairs: :54

CL63 ----> CL4

No. of shared pairs: :39

CL63 ----> CL48

No. of shared pairs: :19

CL63 ----> CL13

No. of shared pairs: :17

CL63 ----> CL26

No. of shared pairs: :17

CL63 ----> CL61

No. of shared pairs: :16