Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001397.1 Corchorus olitorius cultivar O-4 contig01397, 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, 675

Length: 1126
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36


Found at i:174 original size:42 final size:42

Alignment explanation


    Indices: 115--201  Score: 131
    Period size: 42  Copynumber: 2.0  Consensus size: 42

        105 AAAACTAAGA

                                   *                   
        115 ATTTAATTAATGTAAGTATTTCAGTTATTATAGTAT-TATTAC
          1 ATTTAATTAATGTAAGTATTTCAATTATTATA-TATATATTAC

                                 *                     
        157 ATTTAATTAATGTAAGTATTTTAATTATTATATATAATATTAC
          1 ATTTAATTAATGTAAGTATTTCAATTATTATATAT-ATATTAC

              
        200 AT
          1 AT

        202 CGGAATTAAA


Statistics
Matches: 41,  Mismatches: 2, Indels: 3
        0.89            0.04        0.07

Matches are distributed among these distances:
  41    3  0.07
  42   30  0.73
  43    8  0.20

ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51


Consensus pattern (42 bp):   
ATTTAATTAATGTAAGTATTTCAATTATTATATATATATTAC

Found at i:443 original size:14 final size:14

Alignment explanation


    Indices: 418--453  Score: 56
    Period size: 14  Copynumber: 2.6  Consensus size: 14

        408 GTTTAGACTT

                          
        418 ATATAG-TATATAG
          1 ATATAGATATATAG

                          
        431 ATATAGATATATAG
          1 ATATAGATATATAG

              *      
        445 ATGTAGATA
          1 ATATAGATA

        454 GAGATATTTG


Statistics
Matches: 21,  Mismatches: 1, Indels: 1
        0.91            0.04        0.04

Matches are distributed among these distances:
  13    6  0.29
  14   15  0.71

ACGTcount: A:0.47, C:0.00, G:0.17, T:0.36


Consensus pattern (14 bp):   
ATATAGATATATAG
Done.