Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01006059.1 Corchorus olitorius cultivar O-4 contig06084, 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, 711

Length: 1185
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32


Found at i:596 original size:15 final size:15

Alignment explanation


    Indices: 578--643  Score: 55
    Period size: 15  Copynumber: 4.5  Consensus size: 15

        568 CAAGATTTTT

                           
        578 AAATTCAATAATTTG
          1 AAATTCAATAATTTG

                   * **     
        593 AAATTC-TTTGTTTGG
          1 AAATTCAATAATTT-G

            *              
        608 GAATT-AATAATTTG
          1 AAATTCAATAATTTG

                  *       *
        622 AAATTCTATAATTTC
          1 AAATTCAATAATTTG

                   
        637 AAATTCA
          1 AAATTCA

        644 TTGTTTGGAT


Statistics
Matches: 37,  Mismatches: 11, Indels: 6
        0.69            0.20        0.11

Matches are distributed among these distances:
  14    9  0.24
  15   28  0.76

ACGTcount: A:0.39, C:0.08, G:0.09, T:0.44


Consensus pattern (15 bp):   
AAATTCAATAATTTG

Found at i:641 original size:29 final size:30

Alignment explanation


    Indices: 578--643  Score: 73
    Period size: 29  Copynumber: 2.2  Consensus size: 30

        568 CAAGATTTTT

                                   **    *
        578 AAATTCAATAATTTGAAATTCTTTGTTTGG
          1 AAATTCAATAATTTGAAATTCTTAATTTGC

            *                              
        608 GAATT-AATAATTTGAAATTCTATAATTT-C
          1 AAATTCAATAATTTGAAATTCT-TAATTTGC

                   
        637 AAATTCA
          1 AAATTCA

        644 TTGTTTGGAT


Statistics
Matches: 29,  Mismatches: 5, Indels: 4
        0.76            0.13        0.11

Matches are distributed among these distances:
  29   20  0.69
  30    9  0.31

ACGTcount: A:0.39, C:0.08, G:0.09, T:0.44


Consensus pattern (30 bp):   
AAATTCAATAATTTGAAATTCTTAATTTGC
Done.