Cluster no. 179

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Cluster is part of supercluster: 87

Cluster characteristics:

size 417
size_real 417
ecount 1157
supercluster 87
annotations_summary 35.49% Class_I/LINE:LINE-RT
1.92% Class_I/LTR/Ty1_copia/Ale:Ty1-GAG
pair_completeness 0.709016393442623
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.00239808153477218
satellite_probability 1.39099901770407e-22
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S5 129
S4 155
S6 133
comparative analysis - number of edges between species:
S5 S4 S6
S5 115 120 102
S4 120 170 148
S6 102 148 131
comparative analysis - observed/expected number of edges between species
S5 S4 S6
S5 1.170 0.939 0.921
S4 0.939 1.030 1.020
S6 0.921 1.020 1.040

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
LINE LINE-RT LINE LINE-RT 148 0.355
Ale Ty1-GAG Ale Ty1-GAG 8 0.019

clusters connected through mates:

Cluster Number of shared
read pairs		 k
323 6 0.121
475 6 0.135
3180 4 0.104
2340 3 0.0769
2690 3 0.0769
10300 3 0.0811
12600 3 0.0811
12900 3 0.0811
13300 3 0.0811
13600 2 0.0541
30700 2 0.0548
13 1 0.000677
24 1 0.000869
35 1 0.000933
58 1 0.000816
847 1 0.0244
5790 1 0.0274
6710 1 0.0267
8720 1 0.027
21700 1 0.0274
26000 1 0.0274
28000 1 0.0274
33500 1 0.0274
33800 1 0.0274