Cluster no. 34

Go back to cluster table

Cluster is part of supercluster: 12

Cluster characteristics:

size 5504
size_real 5504
ecount 198929
supercluster 12
annotations_summary 5.52% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-GAG
0.24% Class_I/LINE:LINE-RT
0.07% Class_I/LTR/Ty3_gypsy/chromovirus/Tcn1:Ty3-INT
0.02% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-INT
0.02% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-GAG
pair_completeness 0.818301949124546
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.00236191860465116
satellite_probability 1.76339170420733e-23
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S2 1770
S1 1910
S3 1820
comparative analysis - number of edges between species:
S2 S1 S3
S2 20000 22100 20700
S1 22100 24800 23300
S3 20700 23300 21900
comparative analysis - observed/expected number of edges between species
S2 S1 S3
S2 1.010 0.998 0.996
S1 0.998 1.000 1.000
S3 0.996 1.000 1.000

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
LINE LINE-RT LINE LINE-RT 13 0.00236
CRM Ty3-GAG CRM Ty3-GAG 1 0.00018
Tekay Ty3-GAG Tekay Ty3-GAG 304 0.05523
Reina Ty3-INT Reina Ty3-INT 1 0.00018
Tcn1 Ty3-INT Tcn1 Ty3-INT 4 0.00073

clusters with similarity:

Cluster Number of similarity hits
52 235
74 1
135 1

clusters connected through mates:

Cluster Number of shared
read pairs		 k
52 131 0.289
19 8 0.0137
15 7 0.0118
75 4 0.00572
5920 4 0.0144
6730 4 0.0144
3 3 0.00165
4 3 0.00118
9 3 0.002
20 3 0.00546
28 3 0.00195
35 3 0.00152
36 3 0.00391
779 3 0.0107
2800 3 0.0108
3460 3 0.0108
6340 3 0.0108
7830 3 0.0108
10900 3 0.0108
1 2 0.000879
5 2 0.000824
14 2 0.001
16 2 0.00104
37 2 0.00144
46 2 0.00233
67 2 0.00309
1250 2 0.00717
1940 2 0.00721
1980 2 0.00718
2380 2 0.00722
2420 2 0.00719
3080 2 0.00719
4760 2 0.00721
4990 2 0.00721
5350 2 0.00722
5770 2 0.00725
7360 2 0.00722
7390 2 0.00722
11200 2 0.00723
11400 2 0.00723
13400 2 0.00723
13900 2 0.00723
14300 2 0.00723
16800 2 0.00725
21800 2 0.00725
26700 2 0.00725
31100 2 0.00725
35400 2 0.00725
38100 2 0.00725
40700 2 0.00725
44000 2 0.00725
48100 2 0.00725
6 1 0.000586
8 1 0.00118
11 1 0.000663
12 1 0.000506
17 1 0.000669
18 1 0.000468
23 1 0.000941
24 1 0.000725
25 1 0.000876
27 1 0.00068
39 1 0.000757
41 1 0.00225
44 1 0.000914
45 1 0.00141
50 1 0.00115
51 1 0.00164
56 1 0.000815
69 1 0.00183
70 1 0.00171
74 1 0.000813
85 1 0.00215
86 1 0.00213
92 1 0.00174
100 1 0.00261
182 1 0.00321
193 1 0.00299
206 1 0.00308
215 1 0.00341
226 1 0.00356
571 1 0.0035
1920 1 0.00362
2240 1 0.00361
2860 1 0.00359
3060 1 0.0036
3210 1 0.0036
4060 1 0.00362
4330 1 0.00362
5060 1 0.00362
6330 1 0.00362
6730 1 0.00362
6770 1 0.00361
7790 1 0.00361
8630 1 0.00362
8870 1 0.00362
12100 1 0.00363
13000 1 0.00362
13200 1 0.00362
13300 1 0.00363
13900 1 0.00362
18700 1 0.00362
19800 1 0.00362
20200 1 0.00362
24900 1 0.00362
27000 1 0.00362
29000 1 0.00362
29600 1 0.00362
32200 1 0.00362
33200 1 0.00362
34100 1 0.00362
37200 1 0.00362
37200 1 0.00362
39500 1 0.00362
40400 1 0.00362
41400 1 0.00362
41600 1 0.00362
42800 1 0.00362
43900 1 0.00362
46300 1 0.00362
47500 1 0.00362
48100 1 0.00362
48200 1 0.00362
49800 1 0.00362
51200 1 0.00362
51400 1 0.00362

CL34 ----> CL52

image

No. of shared pairs: :131