Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01006301.1 Corchorus olitorius cultivar O-4 contig06326, 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, 903

Length: 1505
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.35


Found at i:170 original size:26 final size:27

Alignment explanation


    Indices: 104--177  Score: 96
    Period size: 29  Copynumber: 2.7  Consensus size: 27

         94 CCTGGAGTAC

                         *         *     
        104 AAATGACCAAAATACCCCTGAATGTGCAA
          1 AAATGACCAAAATGCCCCTGAATAT--AA

                   *                   
        133 AAATGACTAAAATGCCCCTGAATAT-A
          1 AAATGACCAAAATGCCCCTGAATATAA

                               
        159 AAATGACCAAAATGCCCCT
          1 AAATGACCAAAATGCCCCT

        178 AGATGACCCT


Statistics
Matches: 41,  Mismatches: 4, Indels: 3
        0.85            0.08        0.06

Matches are distributed among these distances:
  26   19  0.46
  29   22  0.54

ACGTcount: A:0.45, C:0.24, G:0.12, T:0.19


Consensus pattern (27 bp):   
AAATGACCAAAATGCCCCTGAATATAA

Found at i:678 original size:24 final size:24

Alignment explanation


    Indices: 631--680  Score: 64
    Period size: 24  Copynumber: 2.0  Consensus size: 24

        621 AATTTAATAT

                      *        *    
        631 ATATATATATTATAAATATGAAAA
          1 ATATATATATCATAAATATAAAAA

                               *     
        655 ATATATATATCATCAAATAAAAAAA
          1 ATATATATATCAT-AAATATAAAAA

             
        680 A
          1 A

        681 ACCCCCTCAT


Statistics
Matches: 22,  Mismatches: 3, Indels: 1
        0.85            0.12        0.04

Matches are distributed among these distances:
  24   12  0.55
  25   10  0.45

ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32


Consensus pattern (24 bp):   
ATATATATATCATAAATATAAAAA
Done.