Cluster no. 182

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Cluster is part of supercluster: 88

Cluster characteristics:

size 1179
size_real 1179
ecount 12865
supercluster 88
annotations_summary 8.23% Class_I/LTR/Ty1_copia/SIRE:Ty1-GAG
0.59% Class_I/LTR/Ty1_copia/TAR:Ty1-GAG
0.08% Class_I/LTR/Ty1_copia/Ivana:Ty1-GAG
pair_completeness 0.547244094488189
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.000848176420695505
satellite_probability 1.46614129999921e-21
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S8 152
S5 1
S4 2
S7 146
S9 131
S6 0
S2 236
S1 258
S3 253
comparative analysis - number of edges between species:
S8 S5 S4 S7 S9 S6 S2 S1 S3
S8 254 0.0 0.0 258.0 215.0 0 0.0 0.0 1.0
S5 0 0.0 0.0 0.0 0.0 0 2.0 6.5 2.5
S4 0 0.0 0.0 0.0 0.0 0 13.5 14.0 14.0
S7 258 0.0 0.0 248.0 224.0 0 0.0 1.5 0.5
S9 215 0.0 0.0 224.0 192.0 0 0.5 2.0 0.5
S6 0 0.0 0.0 0.0 0.0 0 0.0 0.0 0.0
S2 0 2.0 13.5 0.0 0.5 0 1010.0 1130.0 1110.0
S1 0 6.5 14.0 1.5 2.0 0 1130.0 1400.0 1290.0
S3 1 2.5 14.0 0.5 0.5 0 1110.0 1290.0 1180.0
comparative analysis - observed/expected number of edges between species
S8 S5 S4 S7 S9 S6 S2 S1 S3
S8 6.1600 0.000 0.00 6.23000 5.99000 NA 0.0000 0.00000 0.00490
S5 0.0000 0.000 0.00 0.00000 0.00000 NA 0.7140 1.98000 0.81200
S4 0.0000 0.000 0.00 0.00000 0.00000 NA 1.2800 1.13000 1.21000
S7 6.2300 0.000 0.00 5.95000 6.21000 NA 0.0000 0.00686 0.00244
S9 5.9900 0.000 0.00 6.21000 6.15000 NA 0.0031 0.01060 0.00282
S6 NA NA NA NA NA NA NA NA NA
S2 0.0000 0.714 1.28 0.00000 0.00310 NA 1.2200 1.16000 1.21000
S1 0.0000 1.980 1.13 0.00686 0.01060 NA 1.1600 1.22000 1.20000
S3 0.0049 0.812 1.21 0.00244 0.00282 NA 1.2100 1.20000 1.17000

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
Ivana Ty1-GAG Ivana Ty1-GAG 1 0.00085
SIRE Ty1-GAG SIRE Ty1-GAG 97 0.08227
TAR Ty1-GAG TAR Ty1-GAG 7 0.00594

clusters with similarity:

Cluster Number of similarity hits
200 4
196 3
91 1

clusters connected through mates:

Cluster Number of shared
read pairs		 k
200 28 0.0959
963 9 0.0497
196 7 0.0213
343 4 0.02
2780 4 0.0229
4830 3 0.0172
5840 3 0.0172
4 2 0.00113
5 2 0.000984
22 2 0.00111
91 2 0.00242
106 2 0.00347
108 2 0.00343
113 2 0.00361
673 2 0.011
3770 2 0.0114
4570 2 0.0114
46300 2 0.0115
50700 2 0.0115
57300 2 0.0115
58600 2 0.0115
7 1 0.000621
8 1 0.000503
11 1 0.000707
23 1 0.000767
32 1 0.00131
38 1 0.000833
51 1 0.000724
53 1 0.00137
57 1 0.00103
59 1 0.000743
74 1 0.002
78 1 0.000792
85 1 0.00147
100 1 0.00167
124 1 0.00253
125 1 0.00152
129 1 0.00246
143 1 0.00169
176 1 0.00503
199 1 0.00376
210 1 0.00262
247 1 0.00467
275 1 0.00422
1640 1 0.0056
2070 1 0.00568
2110 1 0.00571
3230 1 0.0057
3720 1 0.00568
4040 1 0.00575
4050 1 0.00571
4150 1 0.00571
5370 1 0.00573
5600 1 0.00571
6260 1 0.00575
6400 1 0.00575
6410 1 0.00571
8110 1 0.00573
9490 1 0.00573
9680 1 0.00573
9800 1 0.00573
13300 1 0.00578
16300 1 0.00578
19200 1 0.00575
19400 1 0.00575
21400 1 0.00576
23700 1 0.00576
24500 1 0.00576
28800 1 0.00576
33600 1 0.00576
35100 1 0.00576
38700 1 0.00576
39800 1 0.00576
42200 1 0.00576
44100 1 0.00576
48300 1 0.00576
48700 1 0.00576
49600 1 0.00576
51000 1 0.00576
52500 1 0.00576
53200 1 0.00576
53800 1 0.00576
54600 1 0.00576
58600 1 0.00576
59200 1 0.00576
61000 1 0.00576
62400 1 0.00576
64300 1 0.00576
67100 1 0.00576
68600 1 0.00576
69400 1 0.00576
69700 1 0.00576

CL182 ----> CL200

image

No. of shared pairs: :28