Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018396.1 Corchorus olitorius cultivar O-4 contig18429, 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: 2265
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26


Found at i:700 original size:29 final size:28

Alignment explanation


    Indices: 610--800  Score: 154
    Period size: 29  Copynumber: 6.6  Consensus size: 28

        600 AAGTGATCCT

                                   **   
        610 AAAATGACCAAAATGCCCCTGAACATGC
          1 AAAATGACCAAAATGCCCCTGAATGTGC

                   *             *      **
        638 -AAATGATCAAAATGCCCCTGTATGTAAAA
          1 AAAATGACCAAAATGCCCCTGAATGT--GC

                              *     *   
        667 AAAATGACCAAAATGCCCTTGAATATGC
          1 AAAATGACCAAAATGCCCCTGAATGTGC

                       *    *             
        695 GAAAATGACCACAATGTCCCT-AAGTGTGC
          1 -AAAATGACCAAAATGCCCCTGAA-TGTGC

                               *        *
        724 AGAAATGACCAAAATGCCCTTGAATGTGA
          1 A-AAATGACCAAAATGCCCCTGAATGTGC

                     *               * *   
        753 AAAATGACCGAAATGCCCCTGGATCTTTTG-
          1 AAAATGACCAAAATGCCCCT-GA--ATGTGC

                              
        783 AAAATGACCAAAATGCCC
          1 AAAATGACCAAAATGCCC

        801 TTAGGTGATC


Statistics
Matches: 128,  Mismatches: 25, Indels: 18
        0.75            0.15        0.11

Matches are distributed among these distances:
  27   21  0.16
  28   20  0.16
  29   44  0.34
  30   40  0.31
  31    3  0.02

ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20


Consensus pattern (28 bp):   
AAAATGACCAAAATGCCCCTGAATGTGC

Found at i:802 original size:58 final size:57

Alignment explanation


    Indices: 610--772  Score: 156
    Period size: 57  Copynumber: 2.9  Consensus size: 57

        600 AAGTGATCCT

                              *    *            *  *          *       **
        610 AAAATGACCAAAATGCCCCTGAACATGC--AAATGATCAAAATGCCCCTGTA-TGTAAAA
          1 AAAATGACCAAAATGCCCTTGAATATGCAAAAATGACCACAATGCCCCT-AAGTGT--GC

                                        *               *            
        667 AAAATGACCAAAATGCCCTTGAATATGCGAAAATGACCACAATGTCCCTAAGTGTGC
          1 AAAATGACCAAAATGCCCTTGAATATGCAAAAATGACCACAATGCCCCTAAGTGTGC

                                     *                         
        724 AGAAATGACCAAAATGCCCTTGAATGTG-AAAAATGACCGA-AATGCCCCT
          1 A-AAATGACCAAAATGCCCTTGAATATGCAAAAATGACC-ACAATGCCCCT

        773 GGATCTTTTG


Statistics
Matches: 90,  Mismatches: 11, Indels: 10
        0.81            0.10        0.09

Matches are distributed among these distances:
  57   44  0.49
  58   27  0.30
  59   19  0.21

ACGTcount: A:0.41, C:0.23, G:0.17, T:0.20


Consensus pattern (57 bp):   
AAAATGACCAAAATGCCCTTGAATATGCAAAAATGACCACAATGCCCCTAAGTGTGC
Done.