Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01016053.1 Corchorus capsularis cultivar CVL-1 contig16074, 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: 11624
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33


Found at i:145 original size:25 final size:25

Alignment explanation


    Indices: 95--145  Score: 68
    Period size: 25  Copynumber: 2.0  Consensus size: 25

         85 TAAAATAATT

                   *             *   
         95 ATAAAATGTTGAATTTTTTGAGATA
          1 ATAAAATATTGAATTTTTTGAAATA

                                      
        120 ATAAAATATTGAATTTATTT-AAATA
          1 ATAAAATATTGAATTT-TTTGAAATA

             
        145 A
          1 A

        146 AAATAGTGTT


Statistics
Matches: 23,  Mismatches: 2, Indels: 2
        0.85            0.07        0.07

Matches are distributed among these distances:
  25   20  0.87
  26    3  0.13

ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43


Consensus pattern (25 bp):   
ATAAAATATTGAATTTTTTGAAATA

Found at i:7585 original size:33 final size:34

Alignment explanation


    Indices: 7514--7654  Score: 166
    Period size: 33  Copynumber: 4.3  Consensus size: 34

       7504 AAAGGATCGT

                               *    *         *
       7514 GTGGCCGGTTG-TGGCCGGGCATGGCCGA-GTCGT
          1 GTGGCCGGTTGATGGCCGGACATGTCC-ATGTCGC

            *            *     *              
       7547 TTGGCCGGTTG-TAGCCGGCCATGTCCATGTCGC
          1 GTGGCCGGTTGATGGCCGGACATGTCCATGTCGC

                                              
       7580 GTGGCCGG-TGATGGCCGGACATGTCCATGTCGC
          1 GTGGCCGGTTGATGGCCGGACATGTCCATGTCGC

                                           * *
       7613 GTGGCCGG-TGATGGCCGGACATGTCCATGTTGT
          1 GTGGCCGGTTGATGGCCGGACATGTCCATGTCGC

                     
       7646 GTGGCCGGT
          1 GTGGCCGGT

       7655 CTTGTGGCCG


Statistics
Matches: 95,  Mismatches: 10, Indels: 5
        0.86            0.09        0.05

Matches are distributed among these distances:
  32    3  0.03
  33   92  0.97

ACGTcount: A:0.09, C:0.26, G:0.41, T:0.24


Consensus pattern (34 bp):   
GTGGCCGGTTGATGGCCGGACATGTCCATGTCGC

Done.