Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000933.1 Corchorus olitorius cultivar O-4 contig00933, 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, 653

Length: 1089
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40


Found at i:385 original size:42 final size:40

Alignment explanation


    Indices: 326--409  Score: 141
    Period size: 42  Copynumber: 2.0  Consensus size: 40

        316 ATACCTAAGA

                                                      
        326 ATTTAATTAATGTAAGTATTTCAGTTATTATAGTATTATTAC
          1 ATTTAATTAATGTAAGTATTTCAGTTATTATA-TA-TATTAC

                                 *                  
        368 ATTTAATTAATGTAAGTATTTTAGTTATTATATATATTAC
          1 ATTTAATTAATGTAAGTATTTCAGTTATTATATATATTAC

              
        408 AT
          1 AT

        410 AGGAATTAAA


Statistics
Matches: 41,  Mismatches: 1, Indels: 2
        0.93            0.02        0.05

Matches are distributed among these distances:
  40    8  0.20
  41    2  0.05
  42   31  0.76

ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51


Consensus pattern (40 bp):   
ATTTAATTAATGTAAGTATTTCAGTTATTATATATATTAC

Found at i:762 original size:29 final size:29

Alignment explanation


    Indices: 709--764  Score: 71
    Period size: 29  Copynumber: 1.9  Consensus size: 29

        699 AAATAATATA

                              *          
        709 AATATAATAAATGACATATTATAATTTGT
          1 AATATAATAAATGACATAATATAATTTGT

                                         
        738 AATATATATAAGATGA-ATAAT-TAATTT
          1 AATATA-ATAA-ATGACATAATATAATTT

        765 TTATAAATCG


Statistics
Matches: 24,  Mismatches: 1, Indels: 4
        0.83            0.03        0.14

Matches are distributed among these distances:
  29   12  0.50
  30    8  0.33
  31    4  0.17

ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41


Consensus pattern (29 bp):   
AATATAATAAATGACATAATATAATTTGT
Done.