Cluster no. 24

Go back to cluster table

Cluster is part of supercluster: 1

Cluster characteristics:

size 6377
size_real 6377
ecount 404525
supercluster 1
annotations_summary 7.86% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-GAG
0.19% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-GAG
0.06% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-GAG
0.02% Class_I/LTR/Ty3_gypsy/chromovirus/Tcn1:Ty3-INT
0.02% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Athila:Ty3-RT
0.02% Class_I/LTR/Ty1_copia/TAR:Ty1-RT
pair_completeness 0.459935897435897
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.00125450838952485
satellite_probability 3.90603663686178e-21
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S8 2110
S9 2180
S7 2080
comparative analysis - number of edges between species:
S8 S9 S7
S8 43200 44400 44700
S9 44400 45800 45700
S7 44700 45700 45900
comparative analysis - observed/expected number of edges between species
S8 S9 S7
S8 0.999 0.999 1.000
S9 0.999 1.000 0.998
S7 1.000 0.998 0.999

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
TAR Ty1-RT TAR Ty1-RT 1 0.00016
CRM Ty3-GAG CRM Ty3-GAG 12 0.00188
Reina Ty3-GAG Reina Ty3-GAG 4 0.00063
Tekay Ty3-GAG Tekay Ty3-GAG 501 0.07856
Tcn1 Ty3-INT Tcn1 Ty3-INT 1 0.00016
Athila Ty3-RT Athila Ty3-RT 1 0.00016

clusters with similarity:

Cluster Number of similarity hits
3 23800
16 327
48 247
91 57
13 54
25 33
27 16
126 9
68 5
32 1
63 1
70 1
225 1
432 1

clusters connected through mates:

Cluster Number of shared
read pairs		 k
3 992 0.237
13 89 0.0259
25 82 0.0516
91 66 0.0504
16 34 0.0107
48 34 0.0167
4 27 0.00742
5 27 0.00704
27 22 0.00836
2 21 0.00668
126 20 0.0164
68 19 0.0135
432 19 0.016
1 12 0.00309
8 12 0.00452
6 11 0.00297
22 10 0.00387
9 9 0.00275
63 9 0.00516
26 8 0.00274
11 7 0.00229
15 7 0.00312
20 7 0.00229
18 6 0.00278
21 6 0.00328
12 5 0.00239
19 5 0.00163
29 5 0.00206
38 5 0.00245
31 4 0.00214
36 4 0.0022
37 4 0.00224
40 4 0.00232
43 4 0.00216
52 4 0.00179
60 4 0.00267
80 4 0.00284
1370 4 0.00338
23 3 0.00141
32 3 0.00112
41 3 0.0014
45 3 0.00207
61 3 0.00179
70 3 0.00203
272 3 0.00253
1650 3 0.00254
1780 3 0.00254
1970 3 0.00254
2740 3 0.00254
3550 3 0.00254
10 2 0.000985
28 2 0.00118
30 2 0.00111
35 2 0.000947
42 2 0.00133
58 2 0.00157
62 2 0.00137
71 2 0.0014
76 2 0.00142
115 2 0.00164
1070 2 0.00169
2930 2 0.00169
6640 2 0.00169
13500 2 0.00169
16400 2 0.00169
16500 2 0.00169
22300 2 0.00169
23600 2 0.00169
7 1 0.000492
17 1 0.000488
39 1 0.000503
44 1 0.000667
50 1 0.000711
51 1 0.000692
53 1 0.000675
54 1 0.000678
59 1 0.000518
64 1 0.000663
66 1 0.000692
72 1 0.00059
74 1 0.000659
75 1 0.000696
78 1 0.000723
79 1 0.00073
82 1 0.000797
83 1 0.00067
84 1 0.000709
86 1 0.000727
87 1 0.00076
92 1 0.000786
93 1 0.000727
95 1 0.000796
99 1 0.000822
103 1 0.000825
104 1 0.000773
109 1 0.000834
114 1 0.000806
120 1 0.000843
123 1 0.000819
131 1 0.000822
134 1 0.000812
154 1 0.000819
166 1 0.000831
197 1 0.000833
209 1 0.000837
225 1 0.000832
231 1 0.000838
242 1 0.00083
263 1 0.000841
459 1 0.000846
469 1 0.000844
509 1 0.000842
570 1 0.000845
607 1 0.000843
666 1 0.000845
672 1 0.000846
702 1 0.000843
748 1 0.000844
913 1 0.000845
923 1 0.000845
933 1 0.000845
991 1 0.000844
1020 1 0.000845
1490 1 0.000846
1500 1 0.000846
1560 1 0.000846
1580 1 0.000847
1820 1 0.000846
2140 1 0.000846
2580 1 0.000846
2630 1 0.000846
2680 1 0.000846
2810 1 0.000846
3020 1 0.000847
3180 1 0.000846
3300 1 0.000846
3620 1 0.000846
3670 1 0.000846
3690 1 0.000846
3840 1 0.000846
4330 1 0.000847
4700 1 0.000847
5080 1 0.000847
5090 1 0.000847
5350 1 0.000847
5350 1 0.000847
5360 1 0.000847
5460 1 0.000847
6910 1 0.000847
7240 1 0.000847
7340 1 0.000847
8790 1 0.000847
9460 1 0.000847
9640 1 0.000847
10300 1 0.000847
11100 1 0.000847
11100 1 0.000847
12900 1 0.000847
14900 1 0.000847
15300 1 0.000847
15300 1 0.000847
15400 1 0.000847
17100 1 0.000847
17200 1 0.000847
18100 1 0.000847
19300 1 0.000847
19400 1 0.000847
19700 1 0.000847
19900 1 0.000847
20400 1 0.000847
20800 1 0.000847
21400 1 0.000847
21500 1 0.000847
21800 1 0.000847
22100 1 0.000847
22600 1 0.000847
22700 1 0.000847
23200 1 0.000847
23300 1 0.000847
24400 1 0.000847
24600 1 0.000847
25500 1 0.000847
25900 1 0.000847
25900 1 0.000847
26000 1 0.000847

CL24 ----> CL3

image

No. of shared pairs: :992

CL24 ----> CL13

image

No. of shared pairs: :89

CL24 ----> CL25

image

No. of shared pairs: :82

CL24 ----> CL91

image

No. of shared pairs: :66

CL24 ----> CL16

image

No. of shared pairs: :34

CL24 ----> CL48

image

No. of shared pairs: :34

CL24 ----> CL4

image

No. of shared pairs: :27

CL24 ----> CL5

image

No. of shared pairs: :27

CL24 ----> CL27

image

No. of shared pairs: :22

CL24 ----> CL2

image

No. of shared pairs: :21

CL24 ----> CL126

image

No. of shared pairs: :20

CL24 ----> CL68

image

No. of shared pairs: :19

CL24 ----> CL432

image

No. of shared pairs: :19

CL24 ----> CL1

image

No. of shared pairs: :12

CL24 ----> CL8

image

No. of shared pairs: :12

CL24 ----> CL6

image

No. of shared pairs: :11

CL24 ----> CL22

image

No. of shared pairs: :10