Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024508.1 Corchorus olitorius cultivar O-4 contig24541, 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: 7477
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27


Found at i:469 original size:29 final size:29

Alignment explanation


    Indices: 436--544  Score: 148
    Period size: 29  Copynumber: 3.8  Consensus size: 29

        426 AGTGCACTTG

                    *    *     *         
        436 AAATGACCGAAATACCCCTAGATGTGCAA
          1 AAATGACCAAAATGCCCCTGGATGTGCAA

                                   *     
        465 AAATGACCAAAATGCCCCTGGATATGCAA
          1 AAATGACCAAAATGCCCCTGGATGTGCAA

              *    *                      
        494 AAGTGACTAAAATGTCCCCTGGATGTGC-A
          1 AAATGACCAAAATG-CCCCTGGATGTGCAA

                                  
        523 AAATGACCAAAATGCCCCTGGA
          1 AAATGACCAAAATGCCCCTGGA

        545 CATGAATAAT


Statistics
Matches: 70,  Mismatches: 9, Indels: 3
        0.85            0.11        0.04

Matches are distributed among these distances:
  28    8  0.11
  29   50  0.71
  30   12  0.17

ACGTcount: A:0.39, C:0.24, G:0.19, T:0.18


Consensus pattern (29 bp):   
AAATGACCAAAATGCCCCTGGATGTGCAA

Found at i:555 original size:28 final size:28

Alignment explanation


    Indices: 436--561  Score: 137
    Period size: 29  Copynumber: 4.4  Consensus size: 28

        426 AGTGCACTTG

                    *    *     *   *     
        436 AAATGACCGAAATACCCCTAGATGTGCAA
          1 AAATGACCAAAATGCCCCTGGATATGC-A

                                        
        465 AAATGACCAAAATGCCCCTGGATATGCA
          1 AAATGACCAAAATGCCCCTGGATATGCA

                    *                *    
        493 AAAGTGACTAAAATGTCCCCTGGATGTGCA
          1 AAA-TGACCAAAATG-CCCCTGGATATGCA

                                  *     
        523 AAATGACCAAAATGCCCCTGGACATG-A
          1 AAATGACCAAAATGCCCCTGGATATGCA

                   *    
        550 ATAATGAGCAAA
          1 A-AATGACCAAA

        562 GTGATTTGAT


Statistics
Matches: 84,  Mismatches: 10, Indels: 7
        0.83            0.10        0.07

Matches are distributed among these distances:
  27    2  0.02
  28   23  0.27
  29   43  0.51
  30   16  0.19

ACGTcount: A:0.40, C:0.22, G:0.19, T:0.18


Consensus pattern (28 bp):   
AAATGACCAAAATGCCCCTGGATATGCA
Done.