Cluster no. 19

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Cluster is part of supercluster: 8

Cluster characteristics:

size 7144
size_real 7144
ecount 5819298
supercluster 8
annotations_summary 0.17% Class_II/Subclass_1/TIR/hAT:hAT-TPase
0.04% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatV:Ty3-GAG
0.01% Class_I/LTR/Ty1_copia/Ivana:Ty1-RT
0.01% organelle/plastid
0.01% Class_I/LTR/Ty1_copia/Osser:Ty1-RT
0.01% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Ogre_Tat/TatIV_Ogre:Ty3-RH
pair_completeness 0.839814576358486
pbs_score 0.0
TR_score 0.6088555422168868
TR_monomer_length 356.0
loop_index 0.926750700280112
satellite_probability 0.543020748003191
consensus 
TAGAACTCACAGATACCTTCGTTTTGACTGGTTATGGCTCCCGTAACTCTAAACGAGCCAAGAGTTATGGCCCTCCGAAG
AATCGATATCCACAGGGTGCAACATCCGTCCAAAATGACGAAACAGTGCCGTACGACCTTTAGAAATGGGTGCATGGATT
TGAAACGGTGCAGTACCATGGTGCACCACTCTCCAGCGATGGTAAATCATAGACCAGCCACGGGGATCCCGTTTTACAGA
AAAAATCCACGTGACGAAAAAACGAAGGGTAAAAAACTTCCATGACCCGATTGAGGTTCGGATAGGATTTTTTGGGTATG
AAACTAACCAGTGACGGCTGAAAGCTGTCATAGCTG

  

  

    TAREAN_annotation
    Putative satellite (low confidence)
  

  

    orientation_score
    0.999999312633403
  

 


 
 comparative analysis:


  





 
 Comparative analysis - species read counts:



  

    Species
    Read count
  

   

    S2
    2310
  

  

    S1
    2320
  

  

    S3
    2520
  

 


 
 comparative analysis - number of edges between species:



  

    
    S2
    S1
    S3
  

   

    S2
    614000
    620000
    656000
  

  

    S1
    620000
    627000
    663000
  

  

    S3
    656000
    663000
    701000
  

 


 
 comparative analysis - observed/expected number of edges between species



  

    
    S2
    S1
    S3
  

   

    S2
    1.000
    0.999
    1
  

  

    S1
    0.999
    1.000
    1
  

  

    S3
    1.000
    1.000
    1
  

 


 
 protein domains:



protein domains:


  





 
 Reads annotation summary










	

	 
	
 
		   
		cl_string  
		domain  
		Freq  
		proportion 
	
 

 
plastid 

plastid



 1

0.00014


 

 
Ivana Ty1-RT

Ivana

Ty1-RT

 1

0.00014


 

 
Osser Ty1-RT

Osser

Ty1-RT

 1

0.00014


 

 
TatV Ty3-GAG

TatV

Ty3-GAG

 3

0.00042


 

 
TatIV_Ogre Ty3-RH

TatIV_Ogre

Ty3-RH

 1

0.00014


 

 
hAT hAT-TPase

hAT

hAT-TPase

12

0.00168


 
	


 

 


 
 clusters with similarity:



  

    
      



 

    Cluster
    Number of similarity hits
  

      

   		
 

 

   
     

       



  

    15
    1170000
  

  

    227
    64
  

  

    223
    7
  

  

    52
    2
  

  

    2640
    2
  

  

    46
    1
  

       

     

  		
 




 
 clusters connected through mates:



  

    
      




 

    Cluster
    Number of shared
 read pairs		
    k
  

      

   		
 

 

   
     

       




  

    15
    117
    0.185
  

  

    227
    46
    0.126
  

  

    46
    17
    0.019
  

  

    50
    14
    0.0155
  

  

    34
    8
    0.0137
  

  

    75
    6
    0.00816
  

  

    52
    5
    0.0102
  

  

    2640
    5
    0.0159
  

  

    48
    3
    0.00364
  

  

    223
    3
    0.00866
  

  

    4
    2
    0.000778
  

  

    8
    2
    0.00226
  

  

    11
    2
    0.00129
  

  

    64
    2
    0.00324
  

  

    73
    2
    0.0027
  

  

    85
    2
    0.00399
  

  

    1
    1
    0.000433
  

  

    2
    1
    4e-04
  

  

    6
    1
    0.000574
  

  

    7
    1
    0.000407
  

  

    14
    1
    0.000492
  

  

    29
    1
    0.000824
  

  

    38
    1
    0.000803
  

  

    55
    1
    0.00161
  

  

    59
    1
    0.00138
  

  

    76
    1
    0.00145
  

  

    97
    1
    0.00139
  

  

    105
    1
    0.00209
  

  

    119
    1
    0.00218
  

  

    121
    1
    0.0029
  

  

    180
    1
    0.003
  

  

    518
    1
    0.00314
  

  

    1420
    1
    0.00319
  

  

    4000
    1
    0.00319
  

  

    9710
    1
    0.0032
  

  

    10100
    1
    0.0032
  

  

    17400
    1
    0.00321
  

  

    25700
    1
    0.00321
  

  

    30600
    1
    0.00321
  

  

    31700
    1
    0.00321
  

  

    49600
    1
    0.00321
  

       

     

  		
 





  
CL19 ----> CL15

       image
     
 No. of shared pairs: :117





  
CL19 ----> CL227

       image
     
 No. of shared pairs: :46





  
CL19 ----> CL46

       image
     
 No. of shared pairs: :17





  
CL19 ----> CL50

       image
     
 No. of shared pairs: :14