Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003052.1 Corchorus capsularis cultivar CVL-1 contig03060, 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: 2697
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33


Found at i:607 original size:27 final size:27

Alignment explanation


    Indices: 569--683  Score: 158
    Period size: 27  Copynumber: 4.3  Consensus size: 27

        559 ACCCAAGGCA

                             * *       
        569 AAGTGGGAGGATCCACTGCCGGGGTCG
          1 AAGTGGGAGGATCCACTTCTGGGGTCG

                             *  *      
        596 AAGTGGGAGGATCCACTACTTGGGTCG
          1 AAGTGGGAGGATCCACTTCTGGGGTCG

                *        *             
        623 AAGTAGGAGGATCGACTTCTGGGGTCG
          1 AAGTGGGAGGATCCACTTCTGGGGTCG

                **                     
        650 AAGTAAGAGGATCCACTTCTGGGGTCG
          1 AAGTGGGAGGATCCACTTCTGGGGTCG

                   
        677 AAGTGGG
          1 AAGTGGG

        684 GAGAGCTGGA


Statistics
Matches: 77,  Mismatches: 11, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  27   77  1.00

ACGTcount: A:0.23, C:0.17, G:0.40, T:0.20


Consensus pattern (27 bp):   
AAGTGGGAGGATCCACTTCTGGGGTCG

Found at i:1917 original size:6 final size:7

Alignment explanation


    Indices: 1866--1910  Score: 83
    Period size: 7  Copynumber: 6.6  Consensus size: 7

       1856 TCGCTTCTGT

                   
       1866 TTTTTTG
          1 TTTTTTG

                   
       1873 TTTTTTG
          1 TTTTTTG

                   
       1880 TTTTTTG
          1 TTTTTTG

                   
       1887 TTTTTTG
          1 TTTTTTG

                   
       1894 TTTTTTG
          1 TTTTTTG

                   
       1901 -TTTTTG
          1 TTTTTTG

                
       1907 TTTT
          1 TTTT

       1911 GTTTTTGCTG


Statistics
Matches: 37,  Mismatches: 0, Indels: 2
        0.95            0.00        0.05

Matches are distributed among these distances:
   6    6  0.16
   7   31  0.84

ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87


Consensus pattern (7 bp):   
TTTTTTG
Done.