Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000453.1 Corchorus olitorius cultivar O-4 contig00453, 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, 705

Length: 1175
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26


Found at i:215 original size:21 final size:20

Alignment explanation


    Indices: 174--222  Score: 62
    Period size: 21  Copynumber: 2.4  Consensus size: 20

        164 GATTATGTAA

                           **   
        174 ATGCAAAATGTGAAATTAAT
          1 ATGCAAAATGTGAAACAAAT

                          *      
        194 ATGCGAAAATGTGATACAAAT
          1 ATGC-AAAATGTGAAACAAAT

                    
        215 ATGCAAAA
          1 ATGCAAAA

        223 GAACACAACA


Statistics
Matches: 25,  Mismatches: 3, Indels: 2
        0.83            0.10        0.07

Matches are distributed among these distances:
  20    8  0.32
  21   17  0.68

ACGTcount: A:0.51, C:0.08, G:0.16, T:0.24


Consensus pattern (20 bp):   
ATGCAAAATGTGAAACAAAT

Found at i:380 original size:28 final size:29

Alignment explanation


    Indices: 321--420  Score: 111
    Period size: 28  Copynumber: 3.6  Consensus size: 29

        311 AATGGAGTAG

                     *             *  * *
        321 AAATGACCATAATGCCCCCT-GAAG-CAC
          1 AAATGACCAAAATGCCCCCTGGATGTGAA

                   *                      
        348 AAATGACTAAAATGCCCCCTAGG-TGT-AA
          1 AAATGACCAAAATGCCCCCT-GGATGTGAA

                                         
        376 AAATGACCAAAATG-CCCCTGGATGTGAA
          1 AAATGACCAAAATGCCCCCTGGATGTGAA

                             
        404 AAATGACCAAAATGCCC
          1 AAATGACCAAAATGCCC

        421 TTAGGTGATC


Statistics
Matches: 62,  Mismatches: 5, Indels: 10
        0.81            0.06        0.13

Matches are distributed among these distances:
  26    2  0.03
  27   26  0.42
  28   31  0.50
  29    3  0.05

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


Consensus pattern (29 bp):   
AAATGACCAAAATGCCCCCTGGATGTGAA

Done.