Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023230.1 Corchorus olitorius cultivar O-4 contig23263, 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: 8871
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33


Found at i:194 original size:17 final size:18

Alignment explanation


    Indices: 157--197  Score: 66
    Period size: 19  Copynumber: 2.3  Consensus size: 18

        147 TTAAAATGAC

                               
        157 CAAAATGCCCCTGAACATG
          1 CAAAATGCCCCTG-ACATG

                              
        176 CAAAATGCCCCTG-CATG
          1 CAAAATGCCCCTGACATG

                 
        193 CAAAA
          1 CAAAA

        198 ATGACCAAAA


Statistics
Matches: 22,  Mismatches: 0, Indels: 2
        0.92            0.00        0.08

Matches are distributed among these distances:
  17    9  0.41
  19   13  0.59

ACGTcount: A:0.39, C:0.32, G:0.15, T:0.15


Consensus pattern (18 bp):   
CAAAATGCCCCTGACATG

Found at i:2029 original size:27 final size:27

Alignment explanation


    Indices: 1985--2083  Score: 135
    Period size: 27  Copynumber: 3.7  Consensus size: 27

       1975 AGTGAGCTTA

                                      *
       1985 AAATGACCAAAATGCCCCTGAATGTGT
          1 AAATGACCAAAATGCCCCTGAATGTGC

                      *  *             
       2012 AAATGACCAAGATTCCCCTGAATGTGC
          1 AAATGACCAAAATGCCCCTGAATGTGC

                   *            * *    
       2039 AAATGACAAAAATGCCCCTGGACGTGC
          1 AAATGACCAAAATGCCCCTGAATGTGC

                   *          
       2066 AAATGACAAAAATGCCCC
          1 AAATGACCAAAATGCCCC

       2084 ACAAATGACC


Statistics
Matches: 64,  Mismatches: 8, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  27   64  1.00

ACGTcount: A:0.38, C:0.25, G:0.18, T:0.18


Consensus pattern (27 bp):   
AAATGACCAAAATGCCCCTGAATGTGC
Done.