Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020835.1 Corchorus olitorius cultivar O-4 contig20868, 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: 29853
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33


Found at i:2860 original size:7 final size:7

Alignment explanation


    Indices: 2848--2881  Score: 68
    Period size: 7  Copynumber: 4.9  Consensus size: 7

       2838 TCAGGTTCCA

                   
       2848 TCCCAAG
          1 TCCCAAG

                   
       2855 TCCCAAG
          1 TCCCAAG

                   
       2862 TCCCAAG
          1 TCCCAAG

                   
       2869 TCCCAAG
          1 TCCCAAG

                  
       2876 TCCCAA
          1 TCCCAA

       2882 CGACTGCAAA


Statistics
Matches: 27,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   7   27  1.00

ACGTcount: A:0.29, C:0.44, G:0.12, T:0.15


Consensus pattern (7 bp):   
TCCCAAG

Found at i:13045 original size:65 final size:65

Alignment explanation


    Indices: 12966--13092  Score: 173
    Period size: 65  Copynumber: 2.0  Consensus size: 65

      12956 CCCTACATCC

                                 *   *        *    *    *   *                
      12966 CCCATCCCAGGATTTGAACATGTGATCTCCTATTGGAGATCCAAGCTCTTAACCACTGGGCTACT
          1 CCCATCCCAGGATTTGAACATATGACCTCCTATTAGAGACCCAAACTCCTAACCACTGGGCTACT

                    *          *                                   *      
      13031 CCCATCCCCGGATTTGAACCTATGACCTCCTATTAGAGACCCAAACTCCTAACCATTGGGCT
          1 CCCATCCCAGGATTTGAACATATGACCTCCTATTAGAGACCCAAACTCCTAACCACTGGGCT

      13093 GTCCCCTTGA


Statistics
Matches: 53,  Mismatches: 9, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  65   53  1.00

ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26


Consensus pattern (65 bp):   
CCCATCCCAGGATTTGAACATATGACCTCCTATTAGAGACCCAAACTCCTAACCACTGGGCTACT

Found at i:28748 original size:49 final size:49

Alignment explanation


    Indices: 28691--28785  Score: 154
    Period size: 49  Copynumber: 1.9  Consensus size: 49

      28681 TACAATATAC

                              *  *    *                      
      28691 TCAGTGGAGTTTAGCAGATTATACAAGCGGGTCCTAAAGAGTGACACCG
          1 TCAGTGGAGTTTAGCAGACTACACAAACGGGTCCTAAAGAGTGACACCG

                                                   *      
      28740 TCAGTGGAGTTTAGCAGACTACACAAACGGGTCCTAAAGGGTGACA
          1 TCAGTGGAGTTTAGCAGACTACACAAACGGGTCCTAAAGAGTGACA

      28786 TGTATCCTCT


Statistics
Matches: 42,  Mismatches: 4, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  49   42  1.00

ACGTcount: A:0.32, C:0.19, G:0.28, T:0.21


Consensus pattern (49 bp):   
TCAGTGGAGTTTAGCAGACTACACAAACGGGTCCTAAAGAGTGACACCG
Done.