Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01003930.1 Corchorus olitorius cultivar O-4 contig03940, 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: 2505
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.30


Found at i:158 original size:7 final size:7

Alignment explanation


    Indices: 148--197  Score: 55
    Period size: 7  Copynumber: 7.1  Consensus size: 7

        138 AGGTTTGAGG

                   
        148 GATTTTA
          1 GATTTTA

                   
        155 GATTTTA
          1 GATTTTA

            *      
        162 AATTTTA
          1 GATTTTA

                * *
        169 GATTCTG
          1 GATTTTA

                  *
        176 GATTTTG
          1 GATTTTA

                  *
        183 GATTTTG
          1 GATTTTA

                   
        190 GATTTTA
          1 GATTTTA

             
        197 G
          1 G

        198 TGTGTTGCCA


Statistics
Matches: 37,  Mismatches: 6, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
   7   37  1.00

ACGTcount: A:0.24, C:0.02, G:0.20, T:0.54


Consensus pattern (7 bp):   
GATTTTA

Found at i:180 original size:14 final size:14

Alignment explanation


    Indices: 147--197  Score: 66
    Period size: 14  Copynumber: 3.6  Consensus size: 14

        137 GAGGTTTGAG

                          
        147 GGATTTTAGATTTT
          1 GGATTTTAGATTTT

            **          * 
        161 AAATTTTAGATTCT
          1 GGATTTTAGATTTT

                   *      
        175 GGATTTTGGATTTT
          1 GGATTTTAGATTTT

                     
        189 GGATTTTAG
          1 GGATTTTAG

        198 TGTGTTGCCA


Statistics
Matches: 29,  Mismatches: 8, Indels: 0
        0.78            0.22        0.00

Matches are distributed among these distances:
  14   29  1.00

ACGTcount: A:0.24, C:0.02, G:0.22, T:0.53


Consensus pattern (14 bp):   
GGATTTTAGATTTT
Done.