Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020756.1 Corchorus olitorius cultivar O-4 contig20789, 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: 6765
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33


Found at i:2862 original size:16 final size:15

Alignment explanation


    Indices: 2827--2858  Score: 55
    Period size: 15  Copynumber: 2.1  Consensus size: 15

       2817 CAATAAAAAC

                  *        
       2827 AATAAAGAGATATTA
          1 AATAAAAAGATATTA

                           
       2842 AATAAAAAGATATTA
          1 AATAAAAAGATATTA

              
       2857 AA
          1 AA

       2859 ATAACAAAAA


Statistics
Matches: 16,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  15   16  1.00

ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25


Consensus pattern (15 bp):   
AATAAAAAGATATTA

Found at i:3894 original size:16 final size:15

Alignment explanation


    Indices: 3859--3890  Score: 64
    Period size: 15  Copynumber: 2.1  Consensus size: 15

       3849 CCTAAAAAAC

                           
       3859 AATAAAGAGATATTA
          1 AATAAAGAGATATTA

                           
       3874 AATAAAGAGATATTA
          1 AATAAAGAGATATTA

              
       3889 AA
          1 AA

       3891 ATAACAAAAA


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   17  1.00

ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25


Consensus pattern (15 bp):   
AATAAAGAGATATTA

Found at i:5025 original size:16 final size:15

Alignment explanation


    Indices: 4990--5021  Score: 64
    Period size: 15  Copynumber: 2.1  Consensus size: 15

       4980 CCTAAAAAAC

                           
       4990 AATAAAGAGATATTA
          1 AATAAAGAGATATTA

                           
       5005 AATAAAGAGATATTA
          1 AATAAAGAGATATTA

              
       5020 AA
          1 AA

       5022 ATAACAAAAA


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   17  1.00

ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25


Consensus pattern (15 bp):   
AATAAAGAGATATTA

Found at i:6166 original size:16 final size:15

Alignment explanation


    Indices: 6131--6162  Score: 55
    Period size: 15  Copynumber: 2.1  Consensus size: 15

       6121 AATAAAAAAC

                  *        
       6131 AATAAAGAGATATTA
          1 AATAAAAAGATATTA

                           
       6146 AATAAAAAGATATTA
          1 AATAAAAAGATATTA

              
       6161 AA
          1 AA

       6163 ATAACAAAAA


Statistics
Matches: 16,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  15   16  1.00

ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25


Consensus pattern (15 bp):   
AATAAAAAGATATTA
Done.