Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010906.1 Corchorus olitorius cultivar O-4 contig10938, 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, 780

Length: 1300
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.34


Found at i:660 original size:33 final size:33

Alignment explanation


    Indices: 574--718  Score: 134
    Period size: 33  Copynumber: 4.4  Consensus size: 33

        564 AAGAGTAATT

                                     *     * 
        574 CTAAATCTGTTTTAGATGTTGTTTGCGATGATA
          1 CTAAATCTGTTTTAGATGTTGTTTGTGATGAAA

                 *   **  *                  * 
        607 CTAAACCT-AATTCGAATGTTGTTTGTGATGACA
          1 CTAAATCTGTTTTAG-ATGTTGTTTGTGATGAAA

                           *                 
        640 CTAAATCTGTTTTAGGTGTTGTTTGTGATGAAA
          1 CTAAATCTGTTTTAGATGTTGTTTGTGATGAAA

                          *    * **            
        673 C-AAATTCTGTTTTGGATGCTAATTGTGATGAAAA
          1 CTAAA-TCTGTTTTAGATGTTGTTTGTGATG-AAA

                         
        707 C-AAATCTGTTTT
          1 CTAAATCTGTTTT

        719 GGTTGATCAT


Statistics
Matches: 91,  Mismatches: 17, Indels: 8
        0.78            0.15        0.07

Matches are distributed among these distances:
  32    6  0.07
  33   75  0.82
  34   10  0.11

ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42


Consensus pattern (33 bp):   
CTAAATCTGTTTTAGATGTTGTTTGTGATGAAA
Done.