Cluster no. 150

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Cluster is part of supercluster: 32

Cluster characteristics:

size 2081
size_real 2081
ecount 22309
supercluster 32
annotations_summary 20.95% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RT
19.37% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-RH
4.04% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-PROT
3.51% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-GAG
2.21% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RT
1.59% Class_I/pararetrovirus:PARA-RT
1.15% Class_I/LTR/Ty3_gypsy/chromovirus/Chlamyvir:Ty3-RT
1.01% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-INT
0.96% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RH
0.24% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-RH
0.19% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RH
0.10% Class_I/LTR/Ty3_gypsy/chromovirus/CRM:Ty3-RT
0.05% Class_I/LTR/Ty3_gypsy/chromovirus/Tcn1:Ty3-RT
0.05% Class_I/LTR/Ty3_gypsy/chromovirus/Reina:Ty3-PROT
pair_completeness 0.757601351351351
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.000480538202787122
satellite_probability 5.68788576307886e-23
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S8 681
S5 8
S4 0
S7 678
S9 686
S6 4
S2 13
S1 6
S3 5
comparative analysis - number of edges between species:
S8 S5 S4 S7 S9 S6 S2 S1 S3
S8 2370.0 30.0 0 2390.0 2420.0 17.0 49.5 44.0 24.0
S5 30.0 0.0 0 21.0 26.5 0.0 0.5 0.0 0.0
S4 0.0 0.0 0 0.0 0.0 0.0 0.0 0.0 0.0
S7 2390.0 21.0 0 2380.0 2330.0 21.5 49.5 42.0 25.5
S9 2420.0 26.5 0 2330.0 2300.0 22.0 44.5 35.5 26.0
S6 17.0 0.0 0 21.5 22.0 0.0 0.5 0.0 0.5
S2 49.5 0.5 0 49.5 44.5 0.5 0.0 0.5 0.5
S1 44.0 0.0 0 42.0 35.5 0.0 0.5 2.0 0.0
S3 24.0 0.0 0 25.5 26.0 0.5 0.5 0.0 0.0
comparative analysis - observed/expected number of edges between species
S8 S5 S4 S7 S9 S6 S2 S1 S3
S8 0.978 1.170 NA 1.000 1.020 0.839 1.030 1.080 0.952
S5 1.170 0.000 NA 0.827 1.050 0.000 0.983 0.000 0.000
S4 NA NA NA NA NA NA NA NA NA
S7 1.000 0.827 NA 1.000 0.994 1.070 1.050 1.040 1.020
S9 1.020 1.050 NA 0.994 0.985 1.110 0.946 0.886 1.050
S6 0.839 0.000 NA 1.070 1.110 0.000 1.250 0.000 2.370
S2 1.030 0.983 NA 1.050 0.946 1.250 0.000 0.618 1.000
S1 1.080 0.000 NA 1.040 0.886 0.000 0.618 2.900 0.000
S3 0.952 0.000 NA 1.020 1.050 2.370 1.000 0.000 0.000

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
pararetrovirus PARA-RT pararetrovirus PARA-RT 33 0.01586
Tekay Ty3-GAG Tekay Ty3-GAG 73 0.03508
Tekay Ty3-INT Tekay Ty3-INT 21 0.01009
Reina Ty3-PROT Reina Ty3-PROT 1 0.00048
Tekay Ty3-PROT Tekay Ty3-PROT 84 0.04037
CRM Ty3-RH CRM Ty3-RH 20 0.00961
Reina Ty3-RH Reina Ty3-RH 5 0.00240
TatV Ty3-RH TatV Ty3-RH 4 0.00192
Tekay Ty3-RH Tekay Ty3-RH 403 0.19366
CRM Ty3-RT CRM Ty3-RT 2 0.00096
Chlamyvir Ty3-RT Chlamyvir Ty3-RT 24 0.01153
Reina Ty3-RT Reina Ty3-RT 46 0.02210
Tcn1 Ty3-RT Tcn1 Ty3-RT 1 0.00048
Tekay Ty3-RT Tekay Ty3-RT 436 0.20951

clusters with similarity:

Cluster Number of similarity hits
139 56
91 5

clusters connected through mates:

Cluster Number of shared
read pairs		 k
139 77 0.19
91 33 0.0413
2040 4 0.0268
4 3 0.00172
9 3 0.00357
446 3 0.0183
4060 3 0.0205
15600 3 0.0207
5 2 0.000999
22 2 0.00113
866 2 0.0129
3760 2 0.0136
5340 2 0.0137
5390 2 0.0137
12500 2 0.0138
13500 2 0.0138
16200 2 0.0138
46400 2 0.0138
59200 2 0.0138
60600 2 0.0138
69000 2 0.0138
8 1 0.00051
11 1 0.000722
12 1 0.000749
17 1 0.000569
21 1 0.00161
32 1 0.00136
53 1 0.00143
131 1 0.00207
660 1 0.0066
1520 1 0.00667
3230 1 0.00687
4320 1 0.0068
7800 1 0.00687
8670 1 0.00687
12700 1 0.0069
15600 1 0.0069
20100 1 0.00692
24100 1 0.00692
38200 1 0.00692
46000 1 0.00692
47900 1 0.00692
55400 1 0.00692
56600 1 0.00692
60200 1 0.00692
62900 1 0.00692
65100 1 0.00692
70200 1 0.00692

CL150 ----> CL139

image

No. of shared pairs: :77

CL150 ----> CL91

image

No. of shared pairs: :33