Cluster no. 128

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Cluster is part of supercluster: 42

Cluster characteristics:

size 1690
size_real 1690
ecount 61157
supercluster 42
annotations_summary 0.12% Class_I/LTR/Ty3_gypsy/non-chromovirus/OTA/Athila:Ty3-GAG
0.06% Class_I/LTR/Ty1_copia/Ale:Ty1-INT
0.06% Class_I/LTR/Ty3_gypsy/chromovirus/Tcn1:Ty3-RT
0.06% Class_I/LTR/Ty1_copia/Ale:Ty1-RH
pair_completeness 0.688311688311688
pbs_score 0.0
TR_score 0.5001109467455624
TR_monomer_length 136.0
loop_index 0.750295857988166
satellite_probability 0.0277356330291112
consensus 
TTGAAAATTATCCTTCTCCTGGGAGGGTATCATTCGACTTGGGGCATGTACAGGCTAATTTGAGCTCTGTATGCCCTCTT
GGTTGATCCCTTCCCTTGGGAGAATGATTTTTGCCAAATATGTTTGGTCTTTTATT

  

  

    TAREAN_annotation
    Putative satellite (low confidence)
  

  

    orientation_score
    1
  

 


 
 comparative analysis:


  





 
 Comparative analysis - species read counts:



  

    Species
    Read count
  

   

    S5
    555
  

  

    S4
    544
  

  

    S6
    591
  

 


 
 comparative analysis - number of edges between species:



  

    
    S5
    S4
    S6
  

   

    S5
    6160
    6130
    6980
  

  

    S4
    6130
    6220
    7110
  

  

    S6
    6980
    7110
    8330
  

 


 
 comparative analysis - observed/expected number of edges between species



  

    
    S5
    S4
    S6
  

   

    S5
    1.010
    1.000
    0.988
  

  

    S4
    1.000
    1.000
    0.996
  

  

    S6
    0.988
    0.996
    1.010
  

 


 
 protein domains:



protein domains:


  





 
 Reads annotation summary










	

	 
	
 
		   
		cl_string  
		domain  
		Freq  
		proportion 
	
 

 
Ale Ty1-INT

Ale

Ty1-INT

1

0.00059


 

 
Ale Ty1-RH

Ale

Ty1-RH

1

0.00059


 

 
Athila Ty3-GAG

Athila

Ty3-GAG

2

0.00118


 

 
Tcn1 Ty3-RT

Tcn1

Ty3-RT

1

0.00059


 
	


 

 


 
 clusters with similarity:



  

    
      



 

    Cluster
    Number of similarity hits
  

      

   		
 

 

   
     

       



  

    126
    136
  

       

     

  		
 




 
 clusters connected through mates:



  

    
      




 

    Cluster
    Number of shared
 read pairs		
    k
  

      

   		
 

 

   
     

       




  

    126
    26
    0.0864
  

  

    359
    7
    0.0417
  

  

    1860
    6
    0.0374
  

  

    315
    5
    0.0294
  

  

    685
    4
    0.0245
  

  

    999
    4
    0.0248
  

  

    1
    3
    0.000863
  

  

    10
    3
    0.00126
  

  

    558
    3
    0.0179
  

  

    56
    2
    0.00154
  

  

    640
    2
    0.0123
  

  

    1070
    2
    0.0123
  

  

    1230
    2
    0.0124
  

  

    4880
    2
    0.0127
  

  

    6620
    2
    0.0127
  

  

    6940
    2
    0.0127
  

  

    9950
    2
    0.0127
  

  

    10500
    2
    0.0127
  

  

    45500
    2
    0.0127
  

  

    3
    1
    0.000426
  

  

    8
    1
    0.000459
  

  

    19
    1
    0.000601
  

  

    20
    1
    0.000556
  

  

    24
    1
    0.000787
  

  

    25
    1
    0.0013
  

  

    30
    1
    0.000565
  

  

    63
    1
    0.000772
  

  

    64
    1
    0.000826
  

  

    83
    1
    0.000801
  

  

    86
    1
    0.00132
  

  

    111
    1
    0.00243
  

  

    113
    1
    0.00169
  

  

    115
    1
    0.00148
  

  

    1780
    1
    0.00627
  

  

    2490
    1
    0.00635
  

  

    3900
    1
    0.00631
  

  

    4220
    1
    0.00635
  

  

    4480
    1
    0.00635
  

  

    4520
    1
    0.00635
  

  

    5060
    1
    0.00633
  

  

    5580
    1
    0.00633
  

  

    6350
    1
    0.00637
  

  

    7730
    1
    0.00635
  

  

    11800
    1
    0.00635
  

  

    14900
    1
    0.00637
  

  

    18300
    1
    0.00637
  

  

    19900
    1
    0.00637
  

  

    25200
    1
    0.00637
  

  

    36900
    1
    0.00637
  

  

    37500
    1
    0.00637
  

  

    39000
    1
    0.00637
  

  

    42500
    1
    0.00637
  

  

    44300
    1
    0.00637
  

  

    45600
    1
    0.00637
  

  

    47600
    1
    0.00637
  

       

     

  		
 





  
CL128 ----> CL126

       image
     
 No. of shared pairs: :26