Cluster no. 264

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Cluster is part of supercluster: 162

Cluster characteristics:

size 309
size_real 309
ecount 1310
supercluster 162
annotations_summary 28.80% Class_I/LTR/Ty1_copia/TAR:Ty1-RH
25.89% Class_I/LTR/Ty1_copia/TAR:Ty1-RT
0.32% Class_I/LTR/Ty1_copia/Ikeros:Ty1-RT
pair_completeness 0.707182320441989
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.00323624595469256
satellite_probability 1.39099901770407e-22
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S8 97
S5 0
S4 0
S7 80
S9 73
S6 1
S2 16
S1 23
S3 19
comparative analysis - number of edges between species:
S8 S5 S4 S7 S9 S6 S2 S1 S3
S8 133.0 0 0 112.0 101.0 1.5 18.5 21.5 16.5
S5 0.0 0 0 0.0 0.0 0.0 0.0 0.0 0.0
S4 0.0 0 0 0.0 0.0 0.0 0.0 0.0 0.0
S7 112.0 0 0 123.0 105.0 0.0 9.5 16.5 13.5
S9 101.0 0 0 105.0 82.0 0.0 10.0 15.5 14.0
S6 1.5 0 0 0.0 0.0 0.0 0.0 0.0 0.0
S2 18.5 0 0 9.5 10.0 0.0 8.0 7.0 4.0
S1 21.5 0 0 16.5 15.5 0.0 7.0 14.0 5.5
S3 16.5 0 0 13.5 14.0 0.0 4.0 5.5 6.0
comparative analysis - observed/expected number of edges between species
S8 S5 S4 S7 S9 S6 S2 S1 S3
S8 1.060 NA NA 0.959 0.999 3.24 1.050 0.870 0.898
S5 NA NA NA NA NA NA NA NA NA
S4 NA NA NA NA NA NA NA NA NA
S7 0.959 NA NA 1.120 1.110 0.00 0.575 0.711 0.782
S9 0.999 NA NA 1.110 1.000 0.00 0.702 0.775 0.941
S6 3.240 NA NA 0.000 0.000 0.00 0.000 0.000 0.000
S2 1.050 NA NA 0.575 0.702 0.00 3.230 2.010 1.550
S1 0.870 NA NA 0.711 0.775 0.00 2.010 2.870 1.510
S3 0.898 NA NA 0.782 0.941 0.00 1.550 1.510 2.220

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
TAR Ty1-RH TAR Ty1-RH 89 0.2880
Ikeros Ty1-RT Ikeros Ty1-RT 1 0.0032
TAR Ty1-RT TAR Ty1-RT 80 0.2589

clusters connected through mates:

Cluster Number of shared
read pairs		 k
768 9 0.254
338 5 0.104
2520 5 0.164
319 3 0.0638
875 2 0.0548
577 1 0.0267
2820 1 0.0345
10600 1 0.0351
17100 1 0.0357
47800 1 0.0364
67800 1 0.0364