Cluster no. 15

Go back to cluster table

Cluster is part of supercluster: 8

Cluster characteristics:

size 7692
size_real 7692
ecount 5582409
supercluster 8
annotations_summary 0.04% Class_I/LTR/Ty1_copia/Ivana:Ty1-RT
0.01% Class_I/LTR/Ty3_gypsy/chromovirus/Tekay:Ty3-INT
0.01% Class_II/Subclass_1/TIR/PIF_Harbinger:Harbinger-TPase
pair_completeness 0.846375420067211
pbs_score 0.0
TR_score 0.5831874849042231
TR_monomer_length 356.0
loop_index 0.927688906229679
satellite_probability 0.573606572240136
consensus 
AGCTTTCAGCCGTCAACGGATAGATTAATGCCCAAAAAGGACAACCCGAATCTCAATCGGGTCTCGTAAGTTTTTTACCC
TTCGTTTTTTCGACACGTGGATTTTTACGGTAAAACGGGATTACCGTGGCTGGTCTTCGATTTACCATCGCTGGAGAGTG
GTGCACCATGGTACTGTTCCGTTTCAAATCCATGCACGCATTTCTAAAAGTCGTACGGCACTGTTTCGCCATTTCGGACG
GATGTTGCACCCTGTAGATATCGATTATTCGGACGGCCATAACTTCTGGCTCGTTTAGAGTTACGGGAGCCATAACCTGT
CAAAACGAAGGCCTCGATGAGTTCTACGGCTTTGAC

  

  

    TAREAN_annotation
    Putative satellite (low confidence)
  

  

    orientation_score
    0.999999641732182
  

 


 
 comparative analysis:


  





 
 Comparative analysis - species read counts:



  

    Species
    Read count
  

   

    S2
    2590
  

  

    S1
    2550
  

  

    S3
    2550
  

 


 
 comparative analysis - number of edges between species:



  

    
    S2
    S1
    S3
  

   

    S2
    642000
    626000
    627000
  

  

    S1
    626000
    608000
    609000
  

  

    S3
    627000
    609000
    609000
  

 


 
 comparative analysis - observed/expected number of edges between species



  

    
    S2
    S1
    S3
  

   

    S2
    0.999
    1.000
    1.000
  

  

    S1
    1.000
    0.999
    1.000
  

  

    S3
    1.000
    1.000
    0.999
  

 


 
 protein domains:



protein domains:


  





 
 Reads annotation summary










	

	 
	
 
		   
		cl_string  
		domain  
		Freq  
		proportion 
	
 

 
PIF_Harbinger Harbinger-TPase

PIF_Harbinger

Harbinger-TPase

1

0.00013


 

 
Ivana Ty1-RT

Ivana

Ty1-RT

3

0.00039


 

 
Tekay Ty3-INT

Tekay

Ty3-INT

1

0.00013


 
	


 

 


 
 clusters with similarity:



  

    
      



 

    Cluster
    Number of similarity hits
  

      

   		
 

 

   
     

       



  

    19
    1170000
  

  

    227
    89
  

  

    223
    69
  

  

    2640
    6
  

  

    46
    1
  

  

    52
    1
  

       

     

  		
 




 
 clusters connected through mates:



  

    
      




 

    Cluster
    Number of shared
 read pairs		
    k
  

      

   		
 

 

   
     

       




  

    19
    117
    0.185
  

  

    227
    42
    0.112
  

  

    223
    29
    0.0816
  

  

    50
    16
    0.0175
  

  

    46
    14
    0.0155
  

  

    75
    12
    0.0161
  

  

    34
    7
    0.0118
  

  

    105
    3
    0.00614
  

  

    4000
    3
    0.0093
  

  

    4
    2
    0.000775
  

  

    9
    2
    0.00129
  

  

    11
    2
    0.00129
  

  

    44
    2
    0.00176
  

  

    52
    2
    0.00401
  

  

    28600
    2
    0.00623
  

  

    28700
    2
    0.00623
  

  

    6
    1
    0.000571
  

  

    12
    1
    0.000495
  

  

    14
    1
    0.00049
  

  

    20
    1
    0.00168
  

  

    26
    1
    0.000672
  

  

    30
    1
    0.000713
  

  

    37
    1
    0.000695
  

  

    39
    1
    0.000732
  

  

    45
    1
    0.00132
  

  

    62
    1
    0.0027
  

  

    64
    1
    0.0016
  

  

    69
    1
    0.00169
  

  

    77
    1
    0.00207
  

  

    79
    1
    0.00144
  

  

    84
    1
    0.00162
  

  

    85
    1
    0.00196
  

  

    87
    1
    0.00264
  

  

    974
    1
    0.00307
  

  

    1190
    1
    0.00309
  

  

    2640
    1
    0.00309
  

  

    3760
    1
    0.0031
  

  

    6240
    1
    0.00311
  

  

    6490
    1
    0.00311
  

  

    30800
    1
    0.00312
  

  

    37100
    1
    0.00312
  

  

    49600
    1
    0.00312
  

       

     

  		
 





  
CL15 ----> CL19

       image
     
 No. of shared pairs: :117





  
CL15 ----> CL227

       image
     
 No. of shared pairs: :42





  
CL15 ----> CL223

       image
     
 No. of shared pairs: :29





  
CL15 ----> CL50

       image
     
 No. of shared pairs: :16





  
CL15 ----> CL46

       image
     
 No. of shared pairs: :14





  
CL15 ----> CL75

       image
     
 No. of shared pairs: :12