Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015952.1 Corchorus olitorius cultivar O-4 contig15985, 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: 2954
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.29


Found at i:212 original size:22 final size:22

Alignment explanation


    Indices: 185--234  Score: 82
    Period size: 22  Copynumber: 2.3  Consensus size: 22

        175 AGTTTAATAG

                                  
        185 TTGCATTTTTGCATGGCACCTT
          1 TTGCATTTTTGCATGGCACCTT

                            * *   
        207 TTGCATTTTTGCATGGTATCTT
          1 TTGCATTTTTGCATGGCACCTT

                  
        229 TTGCAT
          1 TTGCAT

        235 CCATCCTTTT


Statistics
Matches: 26,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  22   26  1.00

ACGTcount: A:0.14, C:0.18, G:0.18, T:0.50


Consensus pattern (22 bp):   
TTGCATTTTTGCATGGCACCTT

Found at i:2687 original size:14 final size:14

Alignment explanation


    Indices: 2664--2693  Score: 51
    Period size: 14  Copynumber: 2.1  Consensus size: 14

       2654 ACCATGTTTA

                 *        
       2664 AAAATCAAAACTTG
          1 AAAATAAAAACTTG

                          
       2678 AAAATAAAAACTTG
          1 AAAATAAAAACTTG

              
       2692 AA
          1 AA

       2694 TTTTCTTTCT


Statistics
Matches: 15,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  14   15  1.00

ACGTcount: A:0.63, C:0.10, G:0.07, T:0.20


Consensus pattern (14 bp):   
AAAATAAAAACTTG
Done.