Cluster no. 229

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Cluster is part of supercluster: 136

Cluster characteristics:

size 120
size_real 120
ecount 367
supercluster 136
annotations_summary 10.00% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-GAG
3.33% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-GAG
2.50% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-GAG
pair_completeness 0.318681318681319
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.00833333333333333
satellite_probability 1.17858386578192e-20
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S5 40
S4 42
S6 38
comparative analysis - number of edges between species:
S5 S4 S6
S5 56.0 43.5 48.5
S4 43.5 36.0 28.5
S6 48.5 28.5 34.0
comparative analysis - observed/expected number of edges between species
S5 S4 S6
S5 0.938 0.999 1.080
S4 0.999 1.130 0.872
S6 1.080 0.872 1.010

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
CRM Ty3-GAG CRM Ty3-GAG 3 0.025
Reina Ty3-GAG Reina Ty3-GAG 4 0.033
Tekay Ty3-GAG Tekay Ty3-GAG 12 0.100

clusters connected through mates:

Cluster Number of shared
read pairs		 k
86 18 0.0284
72 10 0.00978
12100 3 0.0923
32 1 0.000741
58 1 0.000819
66 1 0.00159
104 1 0.00145
113 1 0.00215
3460 1 0.0312
23600 1 0.0312

CL229 ----> CL86

image

No. of shared pairs: :18

CL229 ----> CL72

image

No. of shared pairs: :10