Cluster no. 46

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Cluster is part of supercluster: 13

Cluster characteristics:

size 4538
size_real 4538
ecount 41792
supercluster 13
annotations_summary 4.89% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-GAG
0.11% Class_I/LTR/Ty1_copia/TAR:Ty1-RH
0.04% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Athila:Ty3-GAG
0.02% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIV_Ogre:Ty3-GAG
0.02% Class_I/LTR/Ty1_copia/Ivana:Ty1-RT
pair_completeness 0.591164095371669
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.00220361392684002
satellite_probability 8.75468016753053e-22
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S2 1440
S1 1490
S3 1610
comparative analysis - number of edges between species:
S2 S1 S3
S2 4230 4370 4580
S1 4370 4780 4780
S3 4580 4780 5320
comparative analysis - observed/expected number of edges between species
S2 S1 S3
S2 1.020 0.994 0.989
S1 0.994 1.030 0.977
S3 0.989 0.977 1.030

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
TAR Ty1-RH TAR Ty1-RH 5 0.00110
Ivana Ty1-RT Ivana Ty1-RT 1 0.00022
Athila Ty3-GAG Athila Ty3-GAG 2 0.00044
TatIV_Ogre Ty3-GAG TatIV_Ogre Ty3-GAG 1 0.00022
TatV Ty3-GAG TatV Ty3-GAG 222 0.04892

clusters with similarity:

Cluster Number of similarity hits
75 173
50 30
85 22
105 5
110 5
8 2
15 1
19 1
117 1

clusters connected through mates:

Cluster Number of shared
read pairs		 k
50 156 0.133
75 48 0.0477
85 35 0.0453
110 28 0.0414
19 17 0.019
15 14 0.0155
488 11 0.0185
105 10 0.0133
1400 6 0.0102
25 5 0.00345
38 5 0.00329
48 5 0.00456
920 5 0.00847
14 4 0.00174
21 4 0.00291
56 4 0.00261
1230 4 0.00682
1540 4 0.00681
2150 4 0.00681
3710 4 0.00683
3 3 0.00141
5 3 0.0011
8 3 0.0026
13 3 0.0015
39 3 0.00184
100 3 0.00434
995 3 0.00512
1250 3 0.0051
2020 3 0.00511
2080 3 0.00511
2780 3 0.00512
2940 3 0.00512
4930 3 0.00512
9430 3 0.00513
10500 3 0.00513
12900 3 0.00513
14200 3 0.00513
2 2 0.000722
11 2 0.0011
34 2 0.00233
40 2 0.00166
52 2 0.00262
69 2 0.00234
71 2 0.00237
77 2 0.00268
78 2 0.00264
89 2 0.00246
1900 2 0.0034
2640 2 0.00342
3610 2 0.00342
3650 2 0.00342
3810 2 0.00342
4080 2 0.00342
4320 2 0.00342
4530 2 0.00342
4750 2 0.00342
5560 2 0.00342
6170 2 0.00342
7060 2 0.00342
7110 2 0.00342
7460 2 0.00342
9810 2 0.00342
11900 2 0.00342
16000 2 0.00342
17900 2 0.00342
21500 2 0.00342
21900 2 0.00342
23400 2 0.00342
24500 2 0.00342
25200 2 0.00342
25300 2 0.00342
30600 2 0.00342
31500 2 0.00342
34200 2 0.00342
36400 2 0.00342
39500 2 0.00342
44700 2 0.00342
46700 2 0.00342
49900 2 0.00342
1 1 0.000387
6 1 0.000496
9 1 0.000553
10 1 0.00055
17 1 0.000554
20 1 0.00117
23 1 0.00073
24 1 0.000593
26 1 0.000571
27 1 0.000562
28 1 0.000541
29 1 0.000673
30 1 6e-04
33 1 0.00069
35 1 0.000438
41 1 0.00133
42 1 0.000626
43 1 0.00104
44 1 0.000713
49 1 0.000866
51 1 0.00109
53 1 0.000982
60 1 0.001
62 1 0.00158
80 1 0.000754
84 1 0.00114
95 1 0.00126
117 1 0.0015
137 1 0.00168
138 1 0.00164
143 1 0.00164
153 1 0.00148
160 1 0.00155
165 1 0.00162
167 1 0.00156
176 1 0.00155
284 1 0.00169
307 1 0.00166
334 1 0.00167
559 1 0.0017
584 1 0.00168
787 1 0.00169
1240 1 0.0017
1790 1 0.00171
1890 1 0.00171
1920 1 0.00171
2040 1 0.0017
2060 1 0.0017
2310 1 0.00171
2840 1 0.00171
2860 1 0.00171
3200 1 0.00171
3340 1 0.00171
4060 1 0.00171
4060 1 0.00171
4120 1 0.00171
4270 1 0.00171
4820 1 0.00171
5650 1 0.00171
5800 1 0.00171
5840 1 0.00171
5970 1 0.00171
6130 1 0.00171
7080 1 0.00171
7420 1 0.00171
8160 1 0.00171
8290 1 0.00171
8550 1 0.00171
8870 1 0.00171
9380 1 0.00171
9840 1 0.00171
9870 1 0.00171
10100 1 0.00171
10200 1 0.00171
10400 1 0.00171
10600 1 0.00171
10700 1 0.00171
11700 1 0.00171
12400 1 0.00171
12500 1 0.00171
12500 1 0.00171
12600 1 0.00171
12600 1 0.00171
12700 1 0.00171
13500 1 0.00171
14100 1 0.00171
14100 1 0.00171
14400 1 0.00171
14900 1 0.00171
15800 1 0.00171
16300 1 0.00171
16700 1 0.00171
17800 1 0.00171
20500 1 0.00171
20700 1 0.00171
21200 1 0.00171
21200 1 0.00171
21600 1 0.00171
22400 1 0.00171
22500 1 0.00171
23200 1 0.00171
23300 1 0.00171
25000 1 0.00171
25600 1 0.00171
26400 1 0.00171
27700 1 0.00171
27800 1 0.00171
28600 1 0.00171
29600 1 0.00171
30000 1 0.00171
31600 1 0.00171
33600 1 0.00171
33700 1 0.00171
34100 1 0.00171
35700 1 0.00171
36800 1 0.00171
37700 1 0.00171
38200 1 0.00171
38300 1 0.00171
39000 1 0.00171
40100 1 0.00171
40500 1 0.00171
41100 1 0.00171
42800 1 0.00171
43500 1 0.00171
45100 1 0.00171
45200 1 0.00171
45800 1 0.00171
47000 1 0.00171
48900 1 0.00171
49600 1 0.00171
50500 1 0.00171
50600 1 0.00171

CL46 ----> CL50

image

No. of shared pairs: :156

CL46 ----> CL75

image

No. of shared pairs: :48

CL46 ----> CL85

image

No. of shared pairs: :35

CL46 ----> CL110

image

No. of shared pairs: :28

CL46 ----> CL19

image

No. of shared pairs: :17

CL46 ----> CL15

image

No. of shared pairs: :14

CL46 ----> CL488

image

No. of shared pairs: :11

CL46 ----> CL105

image

No. of shared pairs: :10