Cluster no. 217

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Cluster is part of supercluster: 118

Cluster characteristics:

size 661
size_real 661
ecount 2848
supercluster 118
annotations_summary 14.52% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RT
12.71% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RH
11.65% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-aRH
3.93% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIV_Ogre:Ty3-aRH
2.27% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-PROT
0.15% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIV_Ogre:Ty3-RH
pair_completeness 0.716883116883117
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.00151285930408472
satellite_probability 1.17014641654426e-22
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S8 0
S5 219
S4 206
S7 0
S9 0
S6 234
S2 0
S1 0
S3 2
comparative analysis - number of edges between species:
S8 S5 S4 S7 S9 S6 S2 S1 S3
S8 0 0.0 0 0 0 0.0 0 0 0.0
S5 0 294.0 286 0 0 336.0 0 0 1.5
S4 0 286.0 292 0 0 330.0 0 0 1.0
S7 0 0.0 0 0 0 0.0 0 0 0.0
S9 0 0.0 0 0 0 0.0 0 0 0.0
S6 0 336.0 330 0 0 353.0 0 0 1.5
S2 0 0.0 0 0 0 0.0 0 0 0.0
S1 0 0.0 0 0 0 0.0 0 0 0.0
S3 0 1.5 1 0 0 1.5 0 0 0.0
comparative analysis - observed/expected number of edges between species
S8 S5 S4 S7 S9 S6 S2 S1 S3
S8 NA NA NA NA NA NA NA NA NA
S5 NA 0.997 0.977 NA NA 1.020 NA NA 1.170
S4 NA 0.977 1.010 NA NA 1.010 NA NA 0.784
S7 NA NA NA NA NA NA NA NA NA
S9 NA NA NA NA NA NA NA NA NA
S6 NA 1.020 1.010 NA NA 0.967 NA NA 1.050
S2 NA NA NA NA NA NA NA NA NA
S1 NA NA NA NA NA NA NA NA NA
S3 NA 1.170 0.784 NA NA 1.050 NA NA 0.000

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
TatV Ty3-PROT TatV Ty3-PROT 15 0.0227
TatIV_Ogre Ty3-RH TatIV_Ogre Ty3-RH 1 0.0015
TatV Ty3-RH TatV Ty3-RH 84 0.1271
TatV Ty3-RT TatV Ty3-RT 96 0.1452
TatIV_Ogre Ty3-aRH TatIV_Ogre Ty3-aRH 26 0.0393
TatV Ty3-aRH TatV Ty3-aRH 77 0.1165

clusters with similarity:

Cluster Number of similarity hits
144 1

clusters connected through mates:

Cluster Number of shared
read pairs		 k
144 11 0.0435
374 11 0.159
7120 5 0.0877
1230 4 0.0661
1990 3 0.0504
3420 3 0.0522
18400 3 0.0536
299 2 0.027
4760 2 0.0348
6330 2 0.0351
8070 2 0.0354
9110 2 0.0354
15800 2 0.0357
19300 2 0.0357
35800 2 0.036
66600 2 0.036
69300 2 0.036
14 1 0.000602
48 1 0.000972
132 1 0.00573
186 1 0.00625
1680 1 0.0164
7580 1 0.0177
9570 1 0.018
13100 1 0.0179
14100 1 0.0179
14500 1 0.0182
39900 1 0.018
47400 1 0.018

CL217 ----> CL144

image

No. of shared pairs: :11

CL217 ----> CL374

image

No. of shared pairs: :11