Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01012131.1 Corchorus olitorius cultivar O-4 contig12164, 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: 13019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33


Found at i:5864 original size:37 final size:38

Alignment explanation


    Indices: 5802--5876  Score: 125
    Period size: 37  Copynumber: 2.0  Consensus size: 38

       5792 AAGTTCAAAC

                                                  
       5802 ATAATTCAATAGTTGGGAAACAATGTGGAAGCCTTTAT
          1 ATAATTCAATAGTTGGGAAACAATGTGGAAGCCTTTAT

                  *             *                 
       5840 ATAATTGAATAG-TGGGAAATAATGTGGAAGCCTTTAT
          1 ATAATTCAATAGTTGGGAAACAATGTGGAAGCCTTTAT

       5877 TTTTTTAGTG


Statistics
Matches: 35,  Mismatches: 2, Indels: 1
        0.92            0.05        0.03

Matches are distributed among these distances:
  37   24  0.69
  38   11  0.31

ACGTcount: A:0.37, C:0.08, G:0.23, T:0.32


Consensus pattern (38 bp):   
ATAATTCAATAGTTGGGAAACAATGTGGAAGCCTTTAT

Found at i:12793 original size:14 final size:14

Alignment explanation


    Indices: 12771--12800  Score: 51
    Period size: 14  Copynumber: 2.1  Consensus size: 14

      12761 AAAAGGTAGT

                *         
      12771 AAAAGTGTTTTTTC
          1 AAAAATGTTTTTTC

                          
      12785 AAAAATGTTTTTTC
          1 AAAAATGTTTTTTC

              
      12799 AA
          1 AA

      12801 GTCATGCTCT


Statistics
Matches: 15,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  14   15  1.00

ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47


Consensus pattern (14 bp):   
AAAAATGTTTTTTC
Done.