Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022006.1 Corchorus olitorius cultivar O-4 contig22039, 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: 3775
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32


Found at i:589 original size:10 final size:10

Alignment explanation


    Indices: 574--606  Score: 52
    Period size: 10  Copynumber: 3.5  Consensus size: 10

        564 CCATTCACAT

                      
        574 TTTTTTTGGA
          1 TTTTTTTGGA

                      
        584 TTTTTTTGGA
          1 TTTTTTTGGA

                      
        594 --TTTTTGGA
          1 TTTTTTTGGA

                 
        602 TTTTT
          1 TTTTT

        607 GAACCTAATC


Statistics
Matches: 21,  Mismatches: 0, Indels: 4
        0.84            0.00        0.16

Matches are distributed among these distances:
   8    8  0.38
  10   13  0.62

ACGTcount: A:0.09, C:0.00, G:0.18, T:0.73


Consensus pattern (10 bp):   
TTTTTTTGGA

Found at i:938 original size:27 final size:27

Alignment explanation


    Indices: 873--945  Score: 103
    Period size: 27  Copynumber: 2.7  Consensus size: 27

        863 AAGTGAACCT

                                  *    
        873 AAAATGACCAAAATGCCCC-CACTGTA
          1 AAAATGACCAAAATGCCCCTCAATGTA

                                *     *
        899 AAAATGACCAAAATGCCCCTGAATGTG
          1 AAAATGACCAAAATGCCCCTCAATGTA

            *                   
        926 CAAATGACCAAAATGCCCCT
          1 AAAATGACCAAAATGCCCCT

        946 ATGTGACCCT


Statistics
Matches: 42,  Mismatches: 4, Indels: 1
        0.89            0.09        0.02

Matches are distributed among these distances:
  26   19  0.45
  27   23  0.55

ACGTcount: A:0.41, C:0.29, G:0.14, T:0.16


Consensus pattern (27 bp):   
AAAATGACCAAAATGCCCCTCAATGTA
Done.