Cluster no. 62

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Cluster is part of supercluster: 29

Cluster characteristics:

size 4977
size_real 4977
ecount 42114
supercluster 29
annotations_summary 18.10% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-INT
9.40% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RT
8.14% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RH
2.31% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-CHDII
1.65% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-PROT
0.14% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RH
0.12% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RH
0.04% Class_I/LTR/Ty3_gypsy/chromovirus/Chlamyvir:Ty3-RT
0.04% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-INT
0.04% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-INT
0.02% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-PROT
0.02% Class_I/LTR/Ty3_gypsy/chromovirus/Galadriel:Ty3-INT
0.02% Class_I/LTR/Ty3_gypsy/chromovirus/Galadriel:Ty3-RT
0.02% Class_I/LTR/Ty3_gypsy/chromovirus/Tcn1:Ty3-RT
0.02% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RT
pair_completeness 0.712074303405573
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.000200924251557163
satellite_probability 1.39099901770407e-22
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S8 8
S5 1620
S4 1680
S7 2
S9 6
S6 1650
S2 0
S1 2
S3 4
comparative analysis - number of edges between species:
S8 S5 S4 S7 S9 S6 S2 S1 S3
S8 2.0 9.5 9.0 0.0 0.0 13.5 0 0.0 0.0
S5 9.5 4160.0 4700.0 1.5 33.0 4320.0 0 0.5 9.0
S4 9.0 4700.0 5320.0 2.0 51.5 4820.0 0 0.5 10.5
S7 0.0 1.5 2.0 0.0 0.5 2.5 0 0.0 0.0
S9 0.0 33.0 51.5 0.5 1.0 34.0 0 0.0 0.0
S6 13.5 4320.0 4820.0 2.5 34.0 4590.0 0 1.5 8.0
S2 0.0 0.0 0.0 0.0 0.0 0.0 0 0.0 0.0
S1 0.0 0.5 0.5 0.0 0.0 1.5 0 0.0 0.0
S3 0.0 9.0 10.5 0.0 0.0 8.0 0 0.0 1.0
comparative analysis - observed/expected number of edges between species
S8 S5 S4 S7 S9 S6 S2 S1 S3
S8 72.900 0.890 0.747 0.000 0.000 1.210 NA 0.000 0.000
S5 0.890 1.000 1.000 0.735 0.876 0.997 NA 0.637 1.010
S4 0.747 1.000 1.010 0.869 1.210 0.987 NA 0.565 1.040
S7 0.000 0.735 0.869 0.000 27.000 1.170 NA 0.000 0.000
S9 0.000 0.876 1.210 27.000 2.920 0.865 NA 0.000 0.000
S6 1.210 0.997 0.987 1.170 0.865 1.020 NA 1.830 0.857
S2 NA NA NA NA NA NA NA NA NA
S1 0.000 0.637 0.565 0.000 0.000 1.830 NA 0.000 0.000
S3 0.000 1.010 1.040 0.000 0.000 0.857 NA 0.000 51.800

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
Tekay Ty3-CHDII Tekay Ty3-CHDII 115 0.0231
CRM Ty3-INT CRM Ty3-INT 2 0.0004
Galadriel Ty3-INT Galadriel Ty3-INT 1 0.0002
Reina Ty3-INT Reina Ty3-INT 2 0.0004
Tekay Ty3-INT Tekay Ty3-INT 901 0.1810
Reina Ty3-PROT Reina Ty3-PROT 1 0.0002
Tekay Ty3-PROT Tekay Ty3-PROT 82 0.0165
Reina Ty3-RH Reina Ty3-RH 6 0.0012
TatV Ty3-RH TatV Ty3-RH 7 0.0014
Tekay Ty3-RH Tekay Ty3-RH 405 0.0814
CRM Ty3-RT CRM Ty3-RT 1 0.0002
Chlamyvir Ty3-RT Chlamyvir Ty3-RT 2 0.0004
Galadriel Ty3-RT Galadriel Ty3-RT 1 0.0002
Tcn1 Ty3-RT Tcn1 Ty3-RT 1 0.0002
Tekay Ty3-RT Tekay Ty3-RT 468 0.0940

clusters with similarity:

Cluster Number of similarity hits
43 28
130 22
159 4
183 3
119 1

clusters connected through mates:

Cluster Number of shared
read pairs		 k
130 65 0.0788
119 34 0.048
43 32 0.0191
24 13 0.0125
977 13 0.0305
780 11 0.0259
720 10 0.0231
1760 9 0.0212
2690 9 0.0213
3 7 0.00216
2370 7 0.0166
558 6 0.0141
3790 6 0.0142
6 5 0.00163
159 5 0.00698
515 5 0.0117
804 5 0.0118
6840 5 0.0119
112 4 0.00532
2360 4 0.00947
7490 4 0.00951
10 3 0.0015
37 3 0.00258
44 3 0.00235
48 3 0.00215
67 3 0.00235
2700 3 0.00709
4800 3 0.00713
6840 3 0.00714
8320 3 0.00713
8890 3 0.00713
14000 3 0.00714
14800 3 0.00714
19100 3 0.00714
14 2 0.000988
28 2 0.00138
39 2 0.00145
1020 2 0.00468
2700 2 0.00474
2720 2 0.00475
4610 2 0.00474
5140 2 0.00474
5410 2 0.00474
6310 2 0.00475
7070 2 0.00476
8950 2 0.00476
9650 2 0.00477
10800 2 0.00477
12200 2 0.00476
13500 2 0.00476
14600 2 0.00476
16700 2 0.00476
18100 2 0.00476
19400 2 0.00476
24200 2 0.00477
24500 2 0.00477
30700 2 0.00477
37000 2 0.00477
47200 2 0.00477
48600 2 0.00477
50500 2 0.00477
52900 2 0.00477
58700 2 0.00477
60100 2 0.00477
61900 2 0.00477
65100 2 0.00477
2 1 0.000509
13 1 0.000515
15 1 0.000372
19 1 0.00047
26 1 0.000744
29 1 0.000686
31 1 0.000856
33 1 0.000459
34 1 0.000627
45 1 0.000541
49 1 0.000511
72 1 0.000929
81 1 0.00127
84 1 0.000859
87 1 0.000962
90 1 0.000918
141 1 0.00168
142 1 0.00165
161 1 0.00126
185 1 0.00144
186 1 0.00191
195 1 0.00187
211 1 0.00167
257 1 0.00214
279 1 0.00213
317 1 0.00225
369 1 0.00219
589 1 0.00233
1280 1 0.00235
1620 1 0.00236
1710 1 0.00236
2500 1 0.00237
4040 1 0.00237
4350 1 0.00237
5130 1 0.00238
5400 1 0.00237
6410 1 0.00238
6580 1 0.00238
7910 1 0.00238
9040 1 0.00238
9100 1 0.00238
9920 1 0.00238
10800 1 0.00238
10800 1 0.00238
12100 1 0.00239
12200 1 0.00239
13000 1 0.00239
13500 1 0.00238
13700 1 0.00238
14800 1 0.00239
15800 1 0.00239
16400 1 0.00238
18000 1 0.00238
18500 1 0.00239
18500 1 0.00238
18900 1 0.00238
19000 1 0.00238
19200 1 0.00238
20600 1 0.00238
21800 1 0.00238
23500 1 0.00238
24800 1 0.00238
28000 1 0.00238
28300 1 0.00238
29700 1 0.00238
31200 1 0.00238
31700 1 0.00238
32900 1 0.00238
35900 1 0.00238
37300 1 0.00238
40200 1 0.00238
40400 1 0.00238
41300 1 0.00238
42900 1 0.00238
43000 1 0.00238
43500 1 0.00238
44600 1 0.00238
47800 1 0.00238
48500 1 0.00238
49100 1 0.00238
52300 1 0.00238
54100 1 0.00238
55100 1 0.00238
55600 1 0.00238
56000 1 0.00238
56200 1 0.00238
56700 1 0.00238
60000 1 0.00238
62300 1 0.00238
62800 1 0.00238
65000 1 0.00238
65200 1 0.00238
66400 1 0.00238
67600 1 0.00238
69500 1 0.00238

CL62 ----> CL130

image

No. of shared pairs: :65

CL62 ----> CL119

image

No. of shared pairs: :34

CL62 ----> CL43

image

No. of shared pairs: :32

CL62 ----> CL24

image

No. of shared pairs: :13

CL62 ----> CL977

image

No. of shared pairs: :13

CL62 ----> CL780

image

No. of shared pairs: :11

CL62 ----> CL720

image

No. of shared pairs: :10