Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01008304.1 Corchorus olitorius cultivar O-4 contig08331, 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, 717

Length: 1195
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35


Found at i:627 original size:27 final size:26

Alignment explanation


    Indices: 594--667  Score: 96
    Period size: 27  Copynumber: 2.8  Consensus size: 26

        584 GTCGGGTTGA

                             *         
        594 TCGGGTTCGGGTCATTTTGGGTCATTT
          1 TCGGGTTCGGGTCATTTCGGGTCA-TT

                        *             
        621 TCGGGTTCGGGTAATTTCGGGTCATT
          1 TCGGGTTCGGGTCATTTCGGGTCATT

                                  
        647 TCTGGGTT-GGGTCAGTTTCGG
          1 TC-GGGTTCGGGTCA-TTTCGG

        668 TTTCGGGTTG


Statistics
Matches: 42,  Mismatches: 3, Indels: 4
        0.86            0.06        0.08

Matches are distributed among these distances:
  26    9  0.21
  27   33  0.79

ACGTcount: A:0.08, C:0.15, G:0.36, T:0.41


Consensus pattern (26 bp):   
TCGGGTTCGGGTCATTTCGGGTCATT

Found at i:675 original size:17 final size:17

Alignment explanation


    Indices: 635--675  Score: 50
    Period size: 16  Copynumber: 2.5  Consensus size: 17

        625 GTTCGGGTAA

                             
        635 TTTCGGGTCATTTCTGG
          1 TTTCGGGTCATTTCTGG

            *                 
        652 GTT-GGGTCAGTTTC-GG
          1 TTTCGGGTCA-TTTCTGG

                    
        668 TTTCGGGT
          1 TTTCGGGT

        676 TGGGCGGATT


Statistics
Matches: 20,  Mismatches: 2, Indels: 4
        0.77            0.08        0.15

Matches are distributed among these distances:
  16   10  0.50
  17   10  0.50

ACGTcount: A:0.05, C:0.15, G:0.37, T:0.44


Consensus pattern (17 bp):   
TTTCGGGTCATTTCTGG
Done.