Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01016281.1 Corchorus olitorius cultivar O-4 contig16314, whole genome shotgun sequence

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000

Length: 10154
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31


Found at i:8210 original size:6 final size:7

Alignment explanation


    Indices: 8198--8248  Score: 54
    Period size: 7  Copynumber: 7.3  Consensus size: 7

       8188 CTAGAACTAG

                   
       8198 AAGAGAA
          1 AAGAGAA

                   
       8205 AA-AGAA
          1 AAGAGAA

                    
       8211 GAAGAGAA
          1 -AAGAGAA

                   
       8219 AA-AGAA
          1 AAGAGAA

                    
       8225 GAAGAGAA
          1 -AAGAGAA

                   
       8233 AA-AGAA
          1 AAGAGAA

                    
       8239 GAAGAGAA
          1 -AAGAGAA

              
       8247 AA
          1 AA

       8249 TTATCTAGAT


Statistics
Matches: 38,  Mismatches: 0, Indels: 12
        0.76            0.00        0.24

Matches are distributed among these distances:
   6   12  0.32
   7   14  0.37
   8   12  0.32

ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00


Consensus pattern (7 bp):   
AAGAGAA

Found at i:8215 original size:14 final size:14

Alignment explanation


    Indices: 8196--8248  Score: 106
    Period size: 14  Copynumber: 3.8  Consensus size: 14

       8186 AACTAGAACT

                          
       8196 AGAAGAGAAAAAGA
          1 AGAAGAGAAAAAGA

                          
       8210 AGAAGAGAAAAAGA
          1 AGAAGAGAAAAAGA

                          
       8224 AGAAGAGAAAAAGA
          1 AGAAGAGAAAAAGA

                       
       8238 AGAAGAGAAAA
          1 AGAAGAGAAAA

       8249 TTATCTAGAT


Statistics
Matches: 39,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  14   39  1.00

ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00


Consensus pattern (14 bp):   
AGAAGAGAAAAAGA
Done.