Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024184.1 Corchorus olitorius cultivar O-4 contig24217, 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: 12900
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34


Found at i:5954 original size:21 final size:21

Alignment explanation


    Indices: 5912--5954  Score: 61
    Period size: 22  Copynumber: 2.0  Consensus size: 21

       5902 TGAAAGTCTC

                       *         
       5912 ATTCATAGCATTTATATCTTG
          1 ATTCATAGCATATATATCTTG

                                  
       5933 ATTCTATAGCATATATAT-TTG
          1 ATTC-ATAGCATATATATCTTG

             
       5954 A
          1 A

       5955 GGATTGAAGG


Statistics
Matches: 20,  Mismatches: 1, Indels: 2
        0.87            0.04        0.09

Matches are distributed among these distances:
  21    8  0.40
  22   12  0.60

ACGTcount: A:0.33, C:0.12, G:0.09, T:0.47


Consensus pattern (21 bp):   
ATTCATAGCATATATATCTTG

Found at i:8962 original size:5 final size:6

Alignment explanation


    Indices: 8946--8974  Score: 51
    Period size: 6  Copynumber: 5.0  Consensus size: 6

       8936 TAAAAATGGG

                                              
       8946 ATTTTT ATTTTT ATTTTT A-TTTT ATTTTT
          1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT

       8975 CATAGTTAAT


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

Matches are distributed among these distances:
   5    5  0.23
   6   17  0.77

ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83


Consensus pattern (6 bp):   
ATTTTT

Found at i:8968 original size:11 final size:12

Alignment explanation


    Indices: 8946--8974  Score: 51
    Period size: 11  Copynumber: 2.5  Consensus size: 12

       8936 TAAAAATGGG

                        
       8946 ATTTTTATTTTT
          1 ATTTTTATTTTT

                        
       8958 ATTTTTA-TTTT
          1 ATTTTTATTTTT

                  
       8969 ATTTTT
          1 ATTTTT

       8975 CATAGTTAAT


Statistics
Matches: 17,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  11   10  0.59
  12    7  0.41

ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83


Consensus pattern (12 bp):   
ATTTTTATTTTT
Done.