Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013591.1 Corchorus olitorius cultivar O-4 contig13624, 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: 5093
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32


Found at i:3837 original size:42 final size:42

Alignment explanation


    Indices: 3786--3866  Score: 153
    Period size: 42  Copynumber: 1.9  Consensus size: 42

       3776 GCTAAATCTT

                                                      
       3786 GAAAATTCTTTGTAAATTAAGAAATACTCAACTCAAATCATA
          1 GAAAATTCTTTGTAAATTAAGAAATACTCAACTCAAATCATA

                           *                       
       3828 GAAAATTCTTTGTAAGTTAAGAAATACTCAACTCAAATC
          1 GAAAATTCTTTGTAAATTAAGAAATACTCAACTCAAATC

       3867 TCAAATCCTG


Statistics
Matches: 38,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  42   38  1.00

ACGTcount: A:0.46, C:0.15, G:0.09, T:0.31


Consensus pattern (42 bp):   
GAAAATTCTTTGTAAATTAAGAAATACTCAACTCAAATCATA

Found at i:4038 original size:55 final size:56

Alignment explanation


    Indices: 3939--4052  Score: 203
    Period size: 55  Copynumber: 2.0  Consensus size: 56

       3929 TTTATTTTGT

                            *                                        
       3939 AGAATAATTAAGTAGAGATAGGGGGGATAGGATTTATTATAACATTTATTGTGTGAA
          1 AGAATAATTAAGTAGAAATA-GGGGGATAGGATTTATTATAACATTTATTGTGTGAA

                                                                    
       3996 AGAATAATTAAGTAGAAATA-GGGGATAGGATTTATTATAACATTTATTGTGTGAA
          1 AGAATAATTAAGTAGAAATAGGGGGATAGGATTTATTATAACATTTATTGTGTGAA

              
       4051 AG
          1 AG

       4053 GAAACAGATA


Statistics
Matches: 56,  Mismatches: 1, Indels: 2
        0.95            0.02        0.03

Matches are distributed among these distances:
  55   37  0.66
  57   19  0.34

ACGTcount: A:0.40, C:0.02, G:0.25, T:0.33


Consensus pattern (56 bp):   
AGAATAATTAAGTAGAAATAGGGGGATAGGATTTATTATAACATTTATTGTGTGAA
Done.