Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01012721.1 Corchorus olitorius cultivar O-4 contig12754, 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, 976

Length: 1628
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31


Found at i:573 original size:27 final size:27

Alignment explanation


    Indices: 543--615  Score: 110
    Period size: 27  Copynumber: 2.7  Consensus size: 27

        533 AATGTACTTG

                                *      
        543 AAATGACTAAAATGCCCCTGGACGAGC
          1 AAATGACTAAAATGCCCCTGAACGAGC

                   *              * *  
        570 AAATGACCAAAATGCCCCTGAATGTGC
          1 AAATGACTAAAATGCCCCTGAACGAGC

                               
        597 AAATGACTAAAATGCCCCT
          1 AAATGACTAAAATGCCCCT

        616 AAACATTGAA


Statistics
Matches: 41,  Mismatches: 5, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  27   41  1.00

ACGTcount: A:0.38, C:0.26, G:0.18, T:0.18


Consensus pattern (27 bp):   
AAATGACTAAAATGCCCCTGAACGAGC

Found at i:637 original size:28 final size:27

Alignment explanation


    Indices: 543--642  Score: 85
    Period size: 27  Copynumber: 3.7  Consensus size: 27

        533 AATGTACTTG

                   *           ** * * *
        543 AAATGACTAAAATGCCCCTGGACGAGC
          1 AAATGACCAAAATGCCCCTAAATGTGA

                               *      *
        570 AAATGACCAAAATGCCCCTGAATGTGC
          1 AAATGACCAAAATGCCCCTAAATGTGA

                   *                     
        597 AAATGACTAAAATGCCCCTAAACAT-TGA
          1 AAATGACCAAAATGCCCCT-AA-ATGTGA

                    *         
        625 AAATGACCGAAATGCCCC
          1 AAATGACCAAAATGCCCC

        643 CTAGTTGATC


Statistics
Matches: 62,  Mismatches: 9, Indels: 3
        0.84            0.12        0.04

Matches are distributed among these distances:
  27   41  0.66
  28   19  0.31
  29    2  0.03

ACGTcount: A:0.40, C:0.26, G:0.17, T:0.17


Consensus pattern (27 bp):   
AAATGACCAAAATGCCCCTAAATGTGA
Done.