Cluster no. 136

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Cluster is part of supercluster: 50

Cluster characteristics:

size 1469
size_real 1469
ecount 10747
supercluster 50
annotations_summary 0.14% Class_I/LTR/Ty1_copia/Tork:Ty1-GAG
0.07% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-INT
0.07% Class_I/LTR/Ty1_copia/Ale:Ty1-INT
0.07% Class_I/LINE:LINE-RT
0.07% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-PROT
pair_completeness 0.67502850627138
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.149761742682097
satellite_probability 3.73250889398218e-15
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S5 493
S4 501
S6 475
comparative analysis - number of edges between species:
S5 S4 S6
S5 1250 1300 1060
S4 1300 1420 1190
S6 1060 1190 980
comparative analysis - observed/expected number of edges between species
S5 S4 S6
S5 1.030 0.99 0.976
S4 0.990 1.00 1.010
S6 0.976 1.01 1.010

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
LINE LINE-RT LINE LINE-RT 1 0.00068
Tork Ty1-GAG Tork Ty1-GAG 2 0.00136
Ale Ty1-INT Ale Ty1-INT 1 0.00068
CRM Ty3-INT CRM Ty3-INT 1 0.00068
Tekay Ty3-PROT Tekay Ty3-PROT 1 0.00068

clusters with similarity:

Cluster Number of similarity hits
123 2

clusters connected through mates:

Cluster Number of shared
read pairs		 k
123 23 0.0858
418 14 0.09
370 6 0.0404
303 5 0.0319
85 3 0.00712
930 3 0.0203
2340 3 0.0205
5050 3 0.0208
5130 3 0.0208
8050 3 0.0208
9850 3 0.0208
12100 3 0.0208
3 2 0.000857
4 2 0.000606
7 2 0.000874
30 2 0.00114
3460 2 0.0138
6280 2 0.0138
7590 2 0.0139
8440 2 0.0139
10100 2 0.0139
11000 2 0.0139
11600 2 0.0139
13400 2 0.0139
35300 2 0.0139
35400 2 0.0139
40700 2 0.0139
47500 2 0.0139
1 1 0.000289
6 1 0.000271
9 1 0.000784
13 1 0.000631
15 1 9e-04
22 1 0.00105
25 1 0.00132
27 1 0.000961
29 1 0.000427
34 1 0.00169
36 1 0.000833
37 1 0.000898
41 1 0.000813
47 1 0.00107
69 1 0.00124
71 1 0.00115
73 1 0.000974
74 1 0.00236
89 1 0.00227
92 1 0.00291
94 1 0.00105
104 1 0.00125
132 1 0.00338
134 1 0.00247
142 1 0.00195
166 1 0.00501
176 1 0.00556
203 1 0.00581
1480 1 0.00685
1720 1 0.0068
1990 1 0.00683
2940 1 0.00687
3480 1 0.00687
3920 1 0.0069
4230 1 0.00694
4600 1 0.00694
5670 1 0.00697
6400 1 0.00692
6900 1 0.00692
8530 1 0.00694
11800 1 0.00694
13000 1 0.00694
18200 1 0.00697
18700 1 0.00697
20900 1 0.00697
25900 1 0.00697
28700 1 0.00697
31000 1 0.00697
36600 1 0.00697
37900 1 0.00697
38700 1 0.00697
41000 1 0.00697
42300 1 0.00697
46800 1 0.00697

CL136 ----> CL123

image

No. of shared pairs: :23

CL136 ----> CL418

image

No. of shared pairs: :14