Cluster no. 48

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Cluster is part of supercluster: 20

Cluster characteristics:

size 4458
size_real 4458
ecount 77456
supercluster 20
annotations_summary 0.02% Class_I/LTR/Ty3_gypsy/chromovirus/Galadriel:Ty3-RT
0.02% Class_I/LTR/Ty1_copia/SIRE:Ty1-INT
0.02% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RT
0.02% Class_I/LINE:LINE-RT
0.02% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-INT
pair_completeness 0.62582056892779
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.584118438761777
satellite_probability 0.000636514367620183
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S2 1430
S1 1510
S3 1520
comparative analysis - number of edges between species:
S2 S1 S3
S2 7320 8350 8210
S1 8350 9080 9230
S3 8210 9230 9490
comparative analysis - observed/expected number of edges between species
S2 S1 S3
S2 0.994 1.020 0.989
S1 1.020 0.989 0.996
S3 0.989 0.996 1.010

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
LINE LINE-RT LINE LINE-RT 1 0.00022
SIRE Ty1-INT SIRE Ty1-INT 1 0.00022
Tekay Ty3-INT Tekay Ty3-INT 1 0.00022
Galadriel Ty3-RT Galadriel Ty3-RT 1 0.00022
TatV Ty3-RT TatV Ty3-RT 1 0.00022

clusters with similarity:

Cluster Number of similarity hits
25 207
186 5

clusters connected through mates:

Cluster Number of shared
read pairs
k
25 86 0.0624
186 20 0.037
961 11 0.0211
284 8 0.0153
8 7 0.00645
46 5 0.00456
2240 5 0.00967
4 4 0.00144
22 4 0.00269
37 4 0.00245
3050 4 0.00777
19 3 0.00364
24 3 0.00186
101 3 0.00462
2 2 0.00074
5 2 0.000751
6 2 0.00103
9 2 0.00115
16 2 0.000923
29 2 0.00141
38 2 0.00138
40 2 0.00177
42 2 0.00131
44 2 0.0015
45 2 0.00211
50 2 0.00181
54 2 0.00272
64 2 0.00244
68 2 0.00176
72 2 0.00234
74 2 0.00136
80 2 0.00159
90 2 0.00219
100 2 0.00322
2090 2 0.00388
5140 2 0.00389
5720 2 0.00388
8110 2 0.00389
11600 2 0.00389
13800 2 0.00389
14200 2 0.00389
21200 2 0.00389
22800 2 0.00389
32700 2 0.00389
35200 2 0.00389
41400 2 0.00389
43400 2 0.00389
50700 2 0.00389
10 1 0.000572
11 1 0.000572
12 1 0.000452
13 1 0.000519
17 1 0.000577
18 1 0.000421
20 1 0.00127
23 1 0.000769
31 1 0.000582
35 1 0.000451
36 1 0.000995
39 1 0.000641
43 1 0.00113
53 1 0.00105
55 1 0.00121
58 1 0.00119
59 1 0.00108
63 1 0.00136
65 1 0.00145
66 1 0.00134
73 1 0.00106
75 1 0.00107
88 1 0.00133
92 1 0.00123
96 1 0.00124
98 1 0.0013
106 1 0.00153
111 1 0.0016
115 1 0.00179
116 1 0.00149
147 1 0.0019
174 1 0.00187
178 1 0.00183
191 1 0.00173
198 1 0.0018
218 1 0.00177
257 1 0.00182
351 1 0.00189
356 1 0.0019
473 1 0.00189
539 1 0.0019
566 1 0.0019
788 1 0.00191
835 1 0.00193
956 1 0.00193
1220 1 0.00193
1250 1 0.00193
1580 1 0.00193
2360 1 0.00194
2630 1 0.00194
3930 1 0.00194
4520 1 0.00194
4530 1 0.00194
5700 1 0.00195
5870 1 0.00194
6390 1 0.00194
6850 1 0.00194
7460 1 0.00194
7600 1 0.00195
7700 1 0.00194
8120 1 0.00194
8610 1 0.00194
9640 1 0.00194
9790 1 0.00194
10200 1 0.00194
11300 1 0.00194
11500 1 0.00194
11500 1 0.00194
11900 1 0.00195
12700 1 0.00194
13000 1 0.00194
13400 1 0.00194
14000 1 0.00195
14100 1 0.00194
17300 1 0.00195
17600 1 0.00195
20600 1 0.00195
22900 1 0.00195
23000 1 0.00195
26300 1 0.00195
27000 1 0.00195
27400 1 0.00195
28500 1 0.00195
29700 1 0.00195
31400 1 0.00195
36600 1 0.00195
36800 1 0.00195
37800 1 0.00195
40200 1 0.00195
40800 1 0.00195
41400 1 0.00195
42400 1 0.00195
42700 1 0.00195
42800 1 0.00195
43200 1 0.00195
46800 1 0.00195
47100 1 0.00195
47400 1 0.00195
49200 1 0.00195
50700 1 0.00195
51000 1 0.00195
51300 1 0.00195

CL48 ----> CL25

image

No. of shared pairs: :86

CL48 ----> CL186

image

No. of shared pairs: :20

CL48 ----> CL961

image

No. of shared pairs: :11