Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020679.1 Corchorus olitorius cultivar O-4 contig20712, 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: 6974
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32


Found at i:951 original size:13 final size:13

Alignment explanation


    Indices: 933--957  Score: 50
    Period size: 13  Copynumber: 1.9  Consensus size: 13

        923 TTGATGAAGC

                         
        933 TATATATTTACTA
          1 TATATATTTACTA

                        
        946 TATATATTTACT
          1 TATATATTTACT

        958 TTTTTAAAAA


Statistics
Matches: 12,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   12  1.00

ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56


Consensus pattern (13 bp):   
TATATATTTACTA

Found at i:4356 original size:29 final size:29

Alignment explanation


    Indices: 4297--4357  Score: 77
    Period size: 29  Copynumber: 2.1  Consensus size: 29

       4287 TGAGGATCCA

                         *       *   **  
       4297 TCAATTGCGCTGATGTGGCGTTGACGGCG
          1 TCAATTGCGCTGACGTGGCGTCGACCACG

                                   *     
       4326 TCAATTGCGCTGACGTGGCGTCGTCCACG
          1 TCAATTGCGCTGACGTGGCGTCGACCACG

               
       4355 TCA
          1 TCA

       4358 GATTATCAGA


Statistics
Matches: 27,  Mismatches: 5, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  29   27  1.00

ACGTcount: A:0.15, C:0.26, G:0.33, T:0.26


Consensus pattern (29 bp):   
TCAATTGCGCTGACGTGGCGTCGACCACG
Done.