Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020432.1 Corchorus olitorius cultivar O-4 contig20465, 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: 6962
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32


Found at i:3778 original size:34 final size:34

Alignment explanation


    Indices: 3740--3817  Score: 120
    Period size: 34  Copynumber: 2.3  Consensus size: 34

       3730 AAAAATTGAA

                             **               
       3740 TGGGAACTTTCCCAATTTGAAAACTTAAAACCGG
          1 TGGGAACTTTCCCAATTACAAAACTTAAAACCGG

                         *                 *  
       3774 TGGGAACTTTCCCGATTACAAAACTTAAAACTGG
          1 TGGGAACTTTCCCAATTACAAAACTTAAAACCGG

                      
       3808 TGGGAACTTT
          1 TGGGAACTTT

       3818 TCTAATAAAA


Statistics
Matches: 40,  Mismatches: 4, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  34   40  1.00

ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28


Consensus pattern (34 bp):   
TGGGAACTTTCCCAATTACAAAACTTAAAACCGG

Found at i:3899 original size:22 final size:21

Alignment explanation


    Indices: 3877--3914  Score: 62
    Period size: 21  Copynumber: 1.9  Consensus size: 21

       3867 TTTTGAATTT

                                 
       3877 TTTTTG-T-ATTTTGAAAACC
          1 TTTTTGTTAATTTTGAAAACC

                               
       3896 TTTTTGTTAATTTTGAAAA
          1 TTTTTGTTAATTTTGAAAA

       3915 GCTCAATTTT


Statistics
Matches: 17,  Mismatches: 0, Indels: 2
        0.89            0.00        0.11

Matches are distributed among these distances:
  19    6  0.35
  20    1  0.06
  21   10  0.59

ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55


Consensus pattern (21 bp):   
TTTTTGTTAATTTTGAAAACC
Done.