Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023370.1 Corchorus olitorius cultivar O-4 contig23403, 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: 3318
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30


Found at i:1623 original size:27 final size:28

Alignment explanation


    Indices: 1593--1666  Score: 89
    Period size: 28  Copynumber: 2.7  Consensus size: 28

       1583 GGTCATCTAT

                                         
       1593 GGGGAATTTTGGTCATTTGCGCAT-T-CA
          1 GGGGAATTTTGGTCATTT-CGCATGTCCA

                *     *       *         
       1620 GGGGTATTTTAGTCATTTTGCATGTCCA
          1 GGGGAATTTTGGTCATTTCGCATGTCCA

                *              
       1648 GGGGCATTTTGGTCATTTC
          1 GGGGAATTTTGGTCATTTC

       1667 TACTTCATTG


Statistics
Matches: 39,  Mismatches: 6, Indels: 3
        0.81            0.12        0.06

Matches are distributed among these distances:
  26    4  0.10
  27   17  0.44
  28   18  0.46

ACGTcount: A:0.16, C:0.15, G:0.28, T:0.41


Consensus pattern (28 bp):   
GGGGAATTTTGGTCATTTCGCATGTCCA

Found at i:1791 original size:21 final size:20

Alignment explanation


    Indices: 1763--1811  Score: 62
    Period size: 21  Copynumber: 2.4  Consensus size: 20

       1753 TGTTATGTTC

                       **       
       1763 TTTTGCATATTCGTATCACA
          1 TTTTGCATATTAATATCACA

                           *     
       1783 TTTTCGCATATTAATTTCACA
          1 TTTT-GCATATTAATATCACA

                    
       1804 TTTTGCAT
          1 TTTTGCAT

       1812 TTACATAATC


Statistics
Matches: 25,  Mismatches: 3, Indels: 2
        0.83            0.10        0.07

Matches are distributed among these distances:
  20    8  0.32
  21   17  0.68

ACGTcount: A:0.24, C:0.18, G:0.08, T:0.49


Consensus pattern (20 bp):   
TTTTGCATATTAATATCACA
Done.