Cluster no. 70

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Cluster is part of supercluster: 1

Cluster characteristics:

size 4272
size_real 4272
ecount 343095
supercluster 1
annotations_summary 44.55% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-INT
28.25% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RH
4.26% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RT
0.47% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-INT
0.21% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Athila:Ty3-RH
0.14% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RH
0.09% Class_I/LTR/Ty3_gypsy/chromovirus/Galadriel:Ty3-RT
0.09% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RT
0.05% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Athila:Ty3-RT
0.05% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-INT
0.02% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RH
0.02% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RT
0.02% Class_I/LTR/Ty3_gypsy/chromovirus/Chlamyvir:Ty3-RT
0.02% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RH
pair_completeness 0.73729158194388
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.00140449438202247
satellite_probability 8.20691448488047e-23
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S8 0
S5 1420
S4 1490
S7 6
S9 4
S6 1340
S2 2
S1 0
S3 0
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 0
S5 0 36300.0 38800 211 150.0 35800.0 85.5 0 0
S4 0 38800.0 42000 246 164.0 38800.0 78.0 0 0
S7 0 211.0 246 1 1.0 222.0 0.0 0 0
S9 0 150.0 164 1 0.0 159.0 0.5 0 0
S6 0 35800.0 38800 222 159.0 35300.0 67.5 0 0
S2 0 85.5 78 0 0.5 67.5 0.0 0 0
S1 0 0.0 0 0 0.0 0.0 0.0 0 0
S3 0 0.0 0 0 0.0 0.0 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 1.000 0.996 0.955 0.973 1.000 1.140 NA NA
S4 NA 0.996 1.000 1.030 0.986 1.000 0.962 NA NA
S7 NA 0.955 1.030 0.740 1.060 1.020 0.000 NA NA
S9 NA 0.973 0.986 1.060 0.000 1.040 1.560 NA NA
S6 NA 1.000 1.000 1.020 1.040 0.995 0.907 NA NA
S2 NA 1.140 0.962 0.000 1.560 0.907 0.000 NA NA
S1 NA NA NA NA NA NA NA NA NA
S3 NA NA NA NA NA NA NA NA NA

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
CRM Ty3-INT CRM Ty3-INT 2 0.00047
Reina Ty3-INT Reina Ty3-INT 20 0.00468
Tekay Ty3-INT Tekay Ty3-INT 1903 0.44546
Athila Ty3-RH Athila Ty3-RH 9 0.00211
CRM Ty3-RH CRM Ty3-RH 1 0.00023
Reina Ty3-RH Reina Ty3-RH 1 0.00023
TatV Ty3-RH TatV Ty3-RH 6 0.00140
Tekay Ty3-RH Tekay Ty3-RH 1207 0.28254
Athila Ty3-RT Athila Ty3-RT 2 0.00047
CRM Ty3-RT CRM Ty3-RT 1 0.00023
Chlamyvir Ty3-RT Chlamyvir Ty3-RT 1 0.00023
Galadriel Ty3-RT Galadriel Ty3-RT 4 0.00094
Reina Ty3-RT Reina Ty3-RT 4 0.00094
Tekay Ty3-RT Tekay Ty3-RT 182 0.04260

clusters with similarity:

Cluster Number of similarity hits
101 1920
63 1730
56 37
155 7

clusters connected through mates:

Cluster Number of shared
read pairs		 k
101 265 0.33
63 257 0.362
48 5 0.00386
3 3 0.000954
56 3 0.00318
14 2 0.00104
16 2 0.00239
86 2 0.00243
4800 2 0.00615
24 1 0.00106
26 1 0.000801
39 1 0.00078
43 1 0.000633
44 1 0.000849
47 1 0.000785
49 1 0.000537
61 1 0.000862
67 1 0.000849
80 1 0.000941
84 1 0.000936
88 1 0.00103
89 1 0.00126
95 1 0.00115
97 1 0.00199
109 1 0.00127
117 1 0.00145
128 1 0.00106
130 1 0.00137
135 1 0.00183
155 1 0.00193
186 1 0.00233
218 1 0.00298
1470 1 0.00308
7600 1 0.00308
8270 1 0.00308
26500 1 0.00309
44500 1 0.00309
47200 1 0.00309
53500 1 0.00309
60800 1 0.00309

CL70 ----> CL101

image

No. of shared pairs: :265

CL70 ----> CL63

image

No. of shared pairs: :257