Cluster no. 47

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Cluster is part of supercluster: 10

Cluster characteristics:

size 3509
size_real 3509
ecount 35171
supercluster 10
annotations_summary 16.67% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-INT
8.35% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RT
5.59% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-RH
4.25% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-aRH
3.28% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-GAG
2.51% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-PROT
0.17% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIV_Ogre:Ty3-aRH
0.09% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIV_Ogre:Ty3-RT
0.09% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIV_Ogre:Ty3-INT
0.06% Class_I/LTR/Ty3_gypsy/non-chromovirus/Selgy:Ty3-RH
0.03% Class_II/Subclass_1/TIR/PIF_Harbinger:Harbinger-TPase
0.03% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-PROT
pair_completeness 0.803186022610483
pbs_score None
TR_score None
TR_monomer_length None
loop_index 0.0230834995725278
satellite_probability 3.35082732254717e-21
consensus None
TAREAN_annotation Other
orientation_score 1

comparative analysis:


Comparative analysis - species read counts:
Species Read count
S8 1140
S9 1160
S7 1200
comparative analysis - number of edges between species:
S8 S9 S7
S8 3860 3820 3830
S9 3820 4050 3950
S7 3830 3950 4070
comparative analysis - observed/expected number of edges between species
S8 S9 S7
S8 1.020 0.988 0.989
S9 0.988 1.020 0.991
S7 0.989 0.991 1.020

protein domains:

protein domains:


Reads annotation summary

  cl_string domain Freq proportion
PIF_Harbinger Harbinger-TPase PIF_Harbinger Harbinger-TPase 1 0.00028
TatV Ty3-GAG TatV Ty3-GAG 115 0.03277
TatIV_Ogre Ty3-INT TatIV_Ogre Ty3-INT 3 0.00085
TatV Ty3-INT TatV Ty3-INT 585 0.16671
TatV Ty3-PROT TatV Ty3-PROT 88 0.02508
Tekay Ty3-PROT Tekay Ty3-PROT 1 0.00028
Selgy Ty3-RH Selgy Ty3-RH 2 0.00057
TatV Ty3-RH TatV Ty3-RH 196 0.05586
TatIV_Ogre Ty3-RT TatIV_Ogre Ty3-RT 3 0.00085
TatV Ty3-RT TatV Ty3-RT 293 0.08350
TatIV_Ogre Ty3-aRH TatIV_Ogre Ty3-aRH 6 0.00171
TatV Ty3-aRH TatV Ty3-aRH 149 0.04246

clusters with similarity:

Cluster Number of similarity hits
77 14
50 4
92 3
85 1

clusters connected through mates:

Cluster Number of shared
read pairs		 k
50 41 0.0981
92 28 0.0986
77 26 0.0963
85 17 0.0675
212 17 0.0817
494 8 0.0399
1020 5 0.0256
722 4 0.0204
819 4 0.0204
1520 4 0.0205
3590 4 0.0207
1 3 0.00104
23 3 0.00264
1560 3 0.0154
1580 3 0.0155
2150 3 0.0154
2200 3 0.0155
2220 3 0.0155
3880 3 0.0155
3970 3 0.0155
5370 3 0.0155
5860 3 0.0155
4 2 0.000754
22 2 0.00125
1110 2 0.0102
1650 2 0.0103
1710 2 0.0103
2240 2 0.0104
5020 2 0.0104
5950 2 0.0104
13100 2 0.0104
14300 2 0.0104
15800 2 0.0104
16800 2 0.0104
19800 2 0.0104
21000 2 0.0104
21100 2 0.0104
2 1 0.000464
12 1 0.000905
17 1 0.000942
18 1 0.000855
31 1 0.00114
41 1 0.000864
51 1 0.00218
60 1 0.00196
65 1 0.00223
69 1 0.00259
70 1 0.00204
75 1 0.00223
550 1 0.00509
573 1 0.00505
1710 1 0.00514
1930 1 0.00519
2690 1 0.00515
3160 1 0.00519
3290 1 0.00517
3520 1 0.00519
4260 1 0.00518
4750 1 0.00521
5840 1 0.00518
5940 1 0.00521
6130 1 0.00518
6360 1 0.00518
7770 1 0.00519
8590 1 0.00519
9610 1 0.00519
9970 1 0.00519
15100 1 0.00519
15400 1 0.00519
15500 1 0.00519
19200 1 0.00519
19900 1 0.00519
21900 1 0.00519
22700 1 0.00519
22800 1 0.00519

CL47 ----> CL50

image

No. of shared pairs: :41

CL47 ----> CL92

image

No. of shared pairs: :28

CL47 ----> CL77

image

No. of shared pairs: :26

CL47 ----> CL85

image

No. of shared pairs: :17

CL47 ----> CL212

image

No. of shared pairs: :17