Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013940.1 Corchorus olitorius cultivar O-4 contig13973, 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: 3247
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31


Found at i:60 original size:27 final size:27

Alignment explanation


    Indices: 25--86  Score: 76
    Period size: 27  Copynumber: 2.3  Consensus size: 27

         15 CCTTTTTTTC

                                         
         25 AAAT-ATATTTCTAA-ATTGCCATTATT-
          1 AAATAATATTT-TAATATT-CCATTATTA

                                        
         51 AAATAATATTTTAATTATTCCATTATTA
          1 AAATAATATTTTAA-TATTCCATTATTA

                    
         79 AAATAATA
          1 AAATAATA

         87 GAAAATTAGA


Statistics
Matches: 32,  Mismatches: 0, Indels: 6
        0.84            0.00        0.16

Matches are distributed among these distances:
  26    7  0.22
  27   14  0.44
  28   11  0.34

ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45


Consensus pattern (27 bp):   
AAATAATATTTTAATATTCCATTATTA

Found at i:3110 original size:59 final size:59

Alignment explanation


    Indices: 3018--3146  Score: 249
    Period size: 59  Copynumber: 2.2  Consensus size: 59

       3008 TCCGGTCGAT

                                                                       
       3018 CCACGTCAGCAACCGCGTCAGCCGTTGGACCGTTGAGATCGTGCCACGTCAGAAGAAGG
          1 CCACGTCAGCAACCGCGTCAGCCGTTGGACCGTTGAGATCGTGCCACGTCAGAAGAAGG

                                                             *         
       3077 CCACGTCAGCAACCGCGTCAGCCGTTGGACCGTTGAGATCGTGCCACGTTAGAAGAAGG
          1 CCACGTCAGCAACCGCGTCAGCCGTTGGACCGTTGAGATCGTGCCACGTCAGAAGAAGG

                       
       3136 CCACGTCAGCA
          1 CCACGTCAGCA

       3147 TATCCGGCGA


Statistics
Matches: 69,  Mismatches: 1, Indels: 0
        0.99            0.01        0.00

Matches are distributed among these distances:
  59   69  1.00

ACGTcount: A:0.24, C:0.31, G:0.29, T:0.16


Consensus pattern (59 bp):   
CCACGTCAGCAACCGCGTCAGCCGTTGGACCGTTGAGATCGTGCCACGTCAGAAGAAGG
Done.