Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009021.1 Corchorus olitorius cultivar O-4 contig09049, 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, 672

Length: 1121
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.26


Found at i:790 original size:30 final size:30

Alignment explanation


    Indices: 754--818  Score: 94
    Period size: 30  Copynumber: 2.2  Consensus size: 30

        744 CTCTATCCTT

                      **                  
        754 AGGCGAAGGGTTAAAAGAAGGTGAGCCGAA
          1 AGGCGAAGGGGGAAAAGAAGGTGAGCCGAA

                        *                 
        784 AGGCGAAGGGGGCAAAGAAGGTGAGCCGAA
          1 AGGCGAAGGGGGAAAAGAAGGTGAGCCGAA

            *    
        814 GGGCG
          1 AGGCG

        819 CTATAGATTA


Statistics
Matches: 31,  Mismatches: 4, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  30   31  1.00

ACGTcount: A:0.35, C:0.12, G:0.46, T:0.06


Consensus pattern (30 bp):   
AGGCGAAGGGGGAAAAGAAGGTGAGCCGAA

Found at i:839 original size:22 final size:22

Alignment explanation


    Indices: 811--854  Score: 88
    Period size: 22  Copynumber: 2.0  Consensus size: 22

        801 AAGGTGAGCC

                                  
        811 GAAGGGCGCTATAGATTATTTG
          1 GAAGGGCGCTATAGATTATTTG

                                  
        833 GAAGGGCGCTATAGATTATTTG
          1 GAAGGGCGCTATAGATTATTTG

        855 TTGGTTTAGG


Statistics
Matches: 22,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  22   22  1.00

ACGTcount: A:0.27, C:0.09, G:0.32, T:0.32


Consensus pattern (22 bp):   
GAAGGGCGCTATAGATTATTTG
Done.