Cluster no. 100

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Cluster is part of supercluster: 14

Cluster characteristics:

size 3317
size_real 3317
ecount 54581
supercluster 14
annotations_summary 17.61% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RT
11.06% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-GAG
5.46% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-PROT
3.04% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-GAG
2.29% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-PROT
0.60% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RT
0.54% Class_I/LTR/Ty3_gypsy/chromovirus/Chlamyvir:Ty3-RT
0.15% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RT
0.06% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-aRH
0.06% Class_I/LTR/Ty3_gypsy/chromovirus/Galadriel:Ty3-RT
0.06% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-GAG
0.06% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Athila:Ty3-INT
0.06% Class_I/LTR/Ty3_gypsy/chromovirus/Chlamyvir:Ty3-PROT
0.06% Class_I/LTR/Ty3_gypsy/non-chromovirus/Selgy:Ty3-RT
0.03% Class_I/LTR/Ty3_gypsy/chromovirus/chromo-unclass:Ty3-RT
0.03% Class_II/Subclass_1/TIR/MuDR_Mutator:MuDR-TPase
0.03% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIV_Ogre:Ty3-GAG
pair_completeness 0.708032955715757
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.00120590895387398
satellite_probability 1.39099901770407e-22
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S5 1140
S4 1110
S6 1070
comparative analysis - number of edges between species:
S5 S4 S6
S5 6350 6300 6060
S4 6300 6300 5880
S6 6060 5880 5440
comparative analysis - observed/expected number of edges between species
S5 S4 S6
S5 0.990 0.994 1.020
S4 0.994 1.010 0.999
S6 1.020 0.999 0.983

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
MuDR_Mutator MuDR-TPase MuDR_Mutator MuDR-TPase 1 0.0003
CRM Ty3-GAG CRM Ty3-GAG 101 0.0304
Reina Ty3-GAG Reina Ty3-GAG 2 0.0006
TatIV_Ogre Ty3-GAG TatIV_Ogre Ty3-GAG 1 0.0003
Tekay Ty3-GAG Tekay Ty3-GAG 367 0.1106
Athila Ty3-INT Athila Ty3-INT 2 0.0006
Chlamyvir Ty3-PROT Chlamyvir Ty3-PROT 2 0.0006
Reina Ty3-PROT Reina Ty3-PROT 76 0.0229
Tekay Ty3-PROT Tekay Ty3-PROT 181 0.0546
CRM Ty3-RT CRM Ty3-RT 5 0.0015
Chlamyvir Ty3-RT Chlamyvir Ty3-RT 18 0.0054
Galadriel Ty3-RT Galadriel Ty3-RT 2 0.0006
Reina Ty3-RT Reina Ty3-RT 20 0.0060
Selgy Ty3-RT Selgy Ty3-RT 2 0.0006
Tekay Ty3-RT Tekay Ty3-RT 584 0.1761
chromo-unclass Ty3-RT chromo-unclass Ty3-RT 1 0.0003
TatV Ty3-aRH TatV Ty3-aRH 2 0.0006

clusters with similarity:

Cluster Number of similarity hits
19 345
67 194
27 13
79 9
2 5
165 1

clusters connected through mates:

Cluster Number of shared
read pairs		 k
19 136 0.0759
67 117 0.167
2 37 0.011
536 16 0.0542
79 9 0.0134
1130 9 0.0311
1670 6 0.0208
2860 5 0.0175
823 4 0.0139
3700 3 0.0105
27 2 0.00169
70 2 0.00261
1340 2 0.00691
3040 2 0.00698
8890 2 0.00702
9040 2 0.00702
17800 2 0.00703
43200 2 0.00703
47600 2 0.00703
3 1 0.000404
4 1 0.00029
6 1 0.000261
10 1 0.000398
11 1 0.000415
14 1 0.000695
26 1 0.00043
29 1 0.000402
32 1 0.000624
33 1 0.000903
47 1 0.000931
49 1 0.000707
54 1 0.000776
61 1 0.000679
62 1 0.00127
63 1 0.000703
73 1 0.000857
84 1 0.00101
94 1 0.000917
122 1 0.00148
142 1 0.00153
149 1 0.0023
159 1 0.00197
211 1 0.00321
237 1 0.00333
1040 1 0.00346
2120 1 0.00348
2790 1 0.0035
3800 1 0.0035
4590 1 0.00351
4840 1 0.0035
7070 1 0.0035
9620 1 0.00351
11000 1 0.00352
12600 1 0.00351
12700 1 0.00351
14300 1 0.00351
17900 1 0.00351
28100 1 0.00351
29800 1 0.00351
33100 1 0.00351
35900 1 0.00351
36600 1 0.00351
37400 1 0.00351
38100 1 0.00351
40200 1 0.00351
42100 1 0.00351
42100 1 0.00351
43500 1 0.00351
43500 1 0.00351
45000 1 0.00351

CL100 ----> CL19

image

No. of shared pairs: :136

CL100 ----> CL67

image

No. of shared pairs: :117

CL100 ----> CL2

image

No. of shared pairs: :37

CL100 ----> CL536

image

No. of shared pairs: :16