Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000641.1 Corchorus olitorius cultivar O-4 contig00641, 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: 5909
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31


Found at i:67 original size:28 final size:27

Alignment explanation


    Indices: 30--86  Score: 78
    Period size: 28  Copynumber: 2.1  Consensus size: 27

         20 ACTCTTAAAT

                                        
         30 TATTAATAAAATAATAATTAATAAATCA
          1 TATTAATAAAATAATAATTAAT-AATCA

                 *    *     *          
         58 TATTATTAAATTAATACTTAATAATCA
          1 TATTAATAAAATAATAATTAATAATCA

              
         85 TA
          1 TA

         87 ACTCTTAAAT


Statistics
Matches: 26,  Mismatches: 3, Indels: 1
        0.87            0.10        0.03

Matches are distributed among these distances:
  27    7  0.27
  28   19  0.73

ACGTcount: A:0.54, C:0.05, G:0.00, T:0.40


Consensus pattern (27 bp):   
TATTAATAAAATAATAATTAATAATCA

Found at i:99 original size:27 final size:27

Alignment explanation


    Indices: 38--99  Score: 72
    Period size: 28  Copynumber: 2.3  Consensus size: 27

         28 ATTATTAATA

                                  *    
         38 AAATAATAATTAATAAATCATATTATT
          1 AAATAATAATTAATAAATCATACTATT

                     *                *  
         65 AAATTAATACTTAAT-AATCATAACTCTT
          1 AAA-TAATAATTAATAAATCAT-ACTATT

                   
         93 AAATAAT
          1 AAATAAT

        100 CAATAAATTA


Statistics
Matches: 30,  Mismatches: 3, Indels: 4
        0.81            0.08        0.11

Matches are distributed among these distances:
  27   13  0.43
  28   17  0.57

ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39


Consensus pattern (27 bp):   
AAATAATAATTAATAAATCATACTATT
Done.