Cluster no. 193

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Cluster is part of supercluster: 96

Cluster characteristics:

size 985
size_real 985
ecount 4294
supercluster 96
annotations_summary 18.17% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-INT
9.24% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RT
6.60% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RH
4.77% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-aRH
3.65% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-GAG
3.05% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-PROT
0.61% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIV_Ogre:Ty3-aRH
0.20% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatI:Ty3-INT
0.10% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIV_Ogre:Ty3-INT
pair_completeness 0.784420289855073
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.00101522842639594
satellite_probability 3.89552186042479e-23
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S8 370
S5 0
S4 0
S7 331
S9 278
S6 0
S2 4
S1 0
S3 2
comparative analysis - number of edges between species:
S8 S5 S4 S7 S9 S6 S2 S1 S3
S8 608.0 0 0 570.0 461.0 0 7.5 0 3.5
S5 0.0 0 0 0.0 0.0 0 0.0 0 0.0
S4 0.0 0 0 0.0 0.0 0 0.0 0 0.0
S7 570.0 0 0 476.0 386.0 0 4.5 0 7.0
S9 461.0 0 0 386.0 321.0 0 3.5 0 2.0
S6 0.0 0 0 0.0 0.0 0 0.0 0 0.0
S2 7.5 0 0 4.5 3.5 0 0.0 0 0.0
S1 0.0 0 0 0.0 0.0 0 0.0 0 0.0
S3 3.5 0 0 7.0 2.0 0 0.0 0 0.0
comparative analysis - observed/expected number of edges between species
S8 S5 S4 S7 S9 S6 S2 S1 S3
S8 0.959 NA NA 1.030 1.020 NA 1.260 NA 0.729
S5 NA NA NA NA NA NA NA NA NA
S4 NA NA NA NA NA NA NA NA NA
S7 1.030 NA NA 0.982 0.978 NA 0.864 NA 1.670
S9 1.020 NA NA 0.978 1.000 NA 0.827 NA 0.586
S6 NA NA NA NA NA NA NA NA NA
S2 1.260 NA NA 0.864 0.827 NA 0.000 NA 0.000
S1 NA NA NA NA NA NA NA NA NA
S3 0.729 NA NA 1.670 0.586 NA 0.000 NA 0.000

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
TatV Ty3-GAG TatV Ty3-GAG 36 0.0365
TatI Ty3-INT TatI Ty3-INT 2 0.0020
TatIV_Ogre Ty3-INT TatIV_Ogre Ty3-INT 1 0.0010
TatV Ty3-INT TatV Ty3-INT 179 0.1817
TatV Ty3-PROT TatV Ty3-PROT 30 0.0305
TatV Ty3-RH TatV Ty3-RH 65 0.0660
TatV Ty3-RT TatV Ty3-RT 91 0.0924
TatIV_Ogre Ty3-aRH TatIV_Ogre Ty3-aRH 6 0.0061
TatV Ty3-aRH TatV Ty3-aRH 47 0.0477

clusters connected through mates:

Cluster Number of shared
read pairs		 k
381 15 0.185
265 10 0.0826
2480 7 0.109
3660 4 0.0645
10300 4 0.065
1670 3 0.0469
9010 3 0.0488
53 2 0.00325
624 2 0.028
4210 2 0.0323
5440 2 0.032
10600 2 0.0325
19300 2 0.0328
54400 2 0.0331
9 1 0.00132
22 1 0.000593
51 1 0.000789
124 1 0.00355
219 1 0.012
2930 1 0.0161
11800 1 0.0164
13200 1 0.0164
14000 1 0.0164
15800 1 0.0164
16000 1 0.0164
19500 1 0.0164
33500 1 0.0165
40100 1 0.0165
42900 1 0.0165
53300 1 0.0165
55200 1 0.0165
70000 1 0.0165

CL193 ----> CL381

image

No. of shared pairs: :15

CL193 ----> CL265

image

No. of shared pairs: :10