Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01009300.1 Corchorus capsularis cultivar CVL-1 contig09321, 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: 19926
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33


Found at i:18533 original size:32 final size:33

Alignment explanation


    Indices: 18442--18533  Score: 93
    Period size: 32  Copynumber: 2.9  Consensus size: 33

      18432 GCAAAATAAT

                                   *      *  
      18442 GGCGTCTAATG-AATCAAACG-CTCTATTTCGC
          1 GGCGTCTAATGAAATCAAACGCCGCTATTTAGC

                *     *     *   *   *        
      18473 GGCGCCTAA-CAAATCCAACACCGTTATTTAGC
          1 GGCGTCTAATGAAATCAAACGCCGCTATTTAGC

                                          
      18505 GGCGTCTAATGAAAT-AAACGCCGCTATTT
          1 GGCGTCTAATGAAATCAAACGCCGCTATTT

      18534 GGTGGAGTCC


Statistics
Matches: 46,  Mismatches: 12, Indels: 5
        0.73            0.19        0.08

Matches are distributed among these distances:
  31   15  0.33
  32   27  0.59
  33    4  0.09

ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26


Consensus pattern (33 bp):   
GGCGTCTAATGAAATCAAACGCCGCTATTTAGC

Found at i:18752 original size:32 final size:32

Alignment explanation


    Indices: 18706--18774  Score: 111
    Period size: 32  Copynumber: 2.2  Consensus size: 32

      18696 TTCTCGAATA

                 *   *           *          
      18706 GCGGCGTCTGATGTATAAAACGCCACTATTTC
          1 GCGGCATCTAATGTATAAAACCCCACTATTTC

                                            
      18738 GCGGCATCTAATGTATAAAACCCCACTATTTC
          1 GCGGCATCTAATGTATAAAACCCCACTATTTC

                 
      18770 GCGGC
          1 GCGGC

      18775 GTCTTTTTAT


Statistics
Matches: 34,  Mismatches: 3, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  32   34  1.00

ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26


Consensus pattern (32 bp):   
GCGGCATCTAATGTATAAAACCCCACTATTTC
Done.