Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022770.1 Corchorus olitorius cultivar O-4 contig22803, 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: 2047
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35


Found at i:445 original size:20 final size:20

Alignment explanation


    Indices: 418--464  Score: 60
    Period size: 20  Copynumber: 2.4  Consensus size: 20

        408 GATCCTACAG

                         *  *   
        418 ATGC-AAATGTGAGATTAAT
          1 ATGCAAAATGTGACATAAAT

                     *          
        437 ATGCAAAATTTGACATAAAT
          1 ATGCAAAATGTGACATAAAT

                    
        457 ATGCAAAA
          1 ATGCAAAA

        465 GAACACAACA


Statistics
Matches: 24,  Mismatches: 3, Indels: 1
        0.86            0.11        0.04

Matches are distributed among these distances:
  19    4  0.17
  20   20  0.83

ACGTcount: A:0.49, C:0.09, G:0.15, T:0.28


Consensus pattern (20 bp):   
ATGCAAAATGTGACATAAAT

Found at i:607 original size:27 final size:27

Alignment explanation


    Indices: 588--642  Score: 92
    Period size: 27  Copynumber: 2.0  Consensus size: 27

        578 ATGTCTCCTG

                                       
        588 AAGTACAAATGACCAAAATGCCCCTAA
          1 AAGTACAAATGACCAAAATGCCCCTAA

                *              *       
        615 AAGTGCAAATGACCAAAATACCCCTAA
          1 AAGTACAAATGACCAAAATGCCCCTAA

             
        642 A
          1 A

        643 TGACCTTAAT


Statistics
Matches: 26,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  27   26  1.00

ACGTcount: A:0.49, C:0.25, G:0.11, T:0.15


Consensus pattern (27 bp):   
AAGTACAAATGACCAAAATGCCCCTAA
Done.