Cluster no. 226

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Cluster is part of supercluster: 127

Cluster characteristics:

size 567
size_real 567
ecount 3100
supercluster 127
annotations_summary 9.70% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-GAG
1.06% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Athila:Ty3-GAG
0.18% Class_I/LTR/Ty1_copia/Angela:Ty1-INT
pair_completeness 0.638728323699422
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.0564373897707231
satellite_probability 1.80308446237332e-18
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S8 0
S5 2
S4 0
S7 0
S9 0
S6 0
S2 150
S1 208
S3 207
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
S5 0 0 0 0 0 0 1 1 0
S4 0 0 0 0 0 0 0 0 0
S7 0 0 0 0 0 0 0 0 0
S9 0 0 0 0 0 0 0 0 0
S6 0 0 0 0 0 0 0 0 0
S2 0 1 0 0 0 0 187 308 264
S1 0 1 0 0 0 0 308 494 434
S3 0 0 0 0 0 0 264 434 402
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 0.00 NA NA NA NA 2.04 1.250 0.000
S4 NA NA NA NA NA NA NA NA NA
S7 NA NA NA NA NA NA NA NA NA
S9 NA NA NA NA NA NA NA NA NA
S6 NA NA NA NA NA NA NA NA NA
S2 NA 2.04 NA NA NA NA 1.00 1.010 0.980
S1 NA 1.25 NA NA NA NA 1.01 1.000 0.989
S3 NA 0.00 NA NA NA NA 0.98 0.989 1.030

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
Angela Ty1-INT Angela Ty1-INT 1 0.0018
Athila Ty3-GAG Athila Ty3-GAG 6 0.0106
TatV Ty3-GAG TatV Ty3-GAG 55 0.0970

clusters with similarity:

Cluster Number of similarity hits
108 2

clusters connected through mates:

Cluster Number of shared
read pairs		 k
108 18 0.0381
50 3 0.011
175 3 0.0116
10200 3 0.0465
124 2 0.00703
129 2 0.00676
3930 2 0.0308
4310 2 0.0308
6120 2 0.0308
17600 2 0.0312
64400 2 0.0315
30 1 0.000933
180 1 0.0112
550 1 0.0129
3100 1 0.0153
3450 1 0.0153
5410 1 0.0155
11600 1 0.0156
12400 1 0.0159
15700 1 0.0159
46300 1 0.0157

CL226 ----> CL108

image

No. of shared pairs: :18