Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01002564.1 Corchorus olitorius cultivar O-4 contig02565, 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, 693

Length: 1155
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38


Found at i:64 original size:33 final size:33

Alignment explanation


    Indices: 11--91  Score: 92
    Period size: 33  Copynumber: 2.5  Consensus size: 33

          1 ATGTTTTAGA

                     *   * *                  
         11 TGTTGTTTGCGATAATACTAAACCTAATTTGA-G
          1 TGTTGTTTGTGATGACACTAAACCT-ATTTGAGG

                                  *  *   *   
         44 TGTTGTTTGTGATGACACTAAATCTGTTTTAGG
          1 TGTTGTTTGTGATGACACTAAACCTATTTGAGG

                           
         77 TGTTGTTTGTGATGA
          1 TGTTGTTTGTGATGA

         92 AACAAATTCT


Statistics
Matches: 41,  Mismatches: 6, Indels: 2
        0.84            0.12        0.04

Matches are distributed among these distances:
  32    4  0.10
  33   37  0.90

ACGTcount: A:0.23, C:0.09, G:0.23, T:0.44


Consensus pattern (33 bp):   
TGTTGTTTGTGATGACACTAAACCTATTTGAGG

Found at i:103 original size:33 final size:31

Alignment explanation


    Indices: 38--142  Score: 120
    Period size: 33  Copynumber: 3.2  Consensus size: 31

         28 CTAAACCTAA

                                 *           
         38 TTTGAGTGTTGTTTGTGATGACACTAAATCTGT
          1 TTTG-GTGTTGTTTGTGATGAAAC-AAATCTGT

                                             
         71 TTTAGGTGTTGTTTGTGATGAAACAAATTCTGT
          1 TTT-GGTGTTGTTTGTGATGAAACAAA-TCTGT

                    * **                     
        104 TTTGGATGCTAATTGTGATGAAAACAAATCTGT
          1 TTTGG-TGTTGTTTGTGATG-AAACAAATCTGT

                  
        137 TTTGGT
          1 TTTGGT

        143 TGATCATAGA


Statistics
Matches: 64,  Mismatches: 4, Indels: 9
        0.83            0.05        0.12

Matches are distributed among these distances:
  32    6  0.09
  33   50  0.78
  34    8  0.12

ACGTcount: A:0.25, C:0.08, G:0.24, T:0.44


Consensus pattern (31 bp):   
TTTGGTGTTGTTTGTGATGAAACAAATCTGT
Done.