Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007613.1 Corchorus olitorius cultivar O-4 contig07639, 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: 1679
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30


Found at i:53 original size:34 final size:34

Alignment explanation


    Indices: 1--69  Score: 111
    Period size: 34  Copynumber: 2.0  Consensus size: 34

                *                             
          1 AACTCTGATCATAAAAACTTCTTGAAATGAGATC
          1 AACTATGATCATAAAAACTTCTTGAAATGAGATC

                        **                    
         35 AACTATGATCATCGAAACTTCTTGAAATGAGATC
          1 AACTATGATCATAAAAACTTCTTGAAATGAGATC

             
         69 A
          1 A

         70 CTGGATCATC


Statistics
Matches: 32,  Mismatches: 3, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  34   32  1.00

ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29


Consensus pattern (34 bp):   
AACTATGATCATAAAAACTTCTTGAAATGAGATC

Found at i:129 original size:35 final size:35

Alignment explanation


    Indices: 83--192  Score: 150
    Period size: 35  Copynumber: 3.1  Consensus size: 35

         73 GATCATCTGG

                                            *  
         83 GATCAACTCTGATCCTCGAAAACTTCTTGAAATGA
          1 GATCAACTCTGATCCTCGAAAACTTCTTGAAACGA

                             *                  
        118 GATCAACTCTGA-CCATTGAAAACTTCTTGAAACGA
          1 GATCAACTCTGATCC-TCGAAAACTTCTTGAAACGA

                       *  *             *   *  
        153 GATCAACTCTGGTCATCGAAAACTTCTTAAAAGGA
          1 GATCAACTCTGATCCTCGAAAACTTCTTGAAACGA

                 
        188 GATCA
          1 GATCA

        193 CTGGATCATC


Statistics
Matches: 66,  Mismatches: 7, Indels: 4
        0.86            0.09        0.05

Matches are distributed among these distances:
  34    2  0.03
  35   63  0.95
  36    1  0.02

ACGTcount: A:0.36, C:0.22, G:0.15, T:0.26


Consensus pattern (35 bp):   
GATCAACTCTGATCCTCGAAAACTTCTTGAAACGA
Done.