Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01006398.1 Corchorus olitorius cultivar O-4 contig06423, 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: 2754
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.35


Found at i:553 original size:15 final size:16

Alignment explanation


    Indices: 520--559  Score: 64
    Period size: 15  Copynumber: 2.6  Consensus size: 16

        510 TTACTCTATT

                            
        520 TTGTTTTCTAGTATAA
          1 TTGTTTTCTAGTATAA

                        *   
        536 TTGTTTTCT-GTTTAA
          1 TTGTTTTCTAGTATAA

                     
        551 TTGTTTTCT
          1 TTGTTTTCT

        560 TTCAACCTCT


Statistics
Matches: 23,  Mismatches: 1, Indels: 1
        0.92            0.04        0.04

Matches are distributed among these distances:
  15   14  0.61
  16    9  0.39

ACGTcount: A:0.15, C:0.07, G:0.12, T:0.65


Consensus pattern (16 bp):   
TTGTTTTCTAGTATAA

Found at i:1749 original size:29 final size:28

Alignment explanation


    Indices: 1660--1758  Score: 171
    Period size: 28  Copynumber: 3.5  Consensus size: 28

       1650 TTTTACTTCT

                                        
       1660 CATTTTGGTCATTTTTCATGTCCAGGGG
          1 CATTTTGGTCATTTTTCATGTCCAGGGG

                                        
       1688 CATTTTGGTCATTTTTCATGTCCAGGGG
          1 CATTTTGGTCATTTTTCATGTCCAGGGG

                                 *       
       1716 CATTTTGGTCATTTTTCATGTTCAGGGGG
          1 CATTTTGGTCATTTTTCATGTCCA-GGGG

            *             
       1745 GATTTTGGTCATTT
          1 CATTTTGGTCATTT

       1759 CAAGTGTACT


Statistics
Matches: 68,  Mismatches: 2, Indels: 1
        0.96            0.03        0.01

Matches are distributed among these distances:
  28   51  0.75
  29   17  0.25

ACGTcount: A:0.14, C:0.15, G:0.25, T:0.45


Consensus pattern (28 bp):   
CATTTTGGTCATTTTTCATGTCCAGGGG
Done.