Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01006324.1 Corchorus olitorius cultivar O-4 contig06349, 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: 1712
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:649 original size:31 final size:31

Alignment explanation


    Indices: 600--693  Score: 156
    Period size: 31  Copynumber: 3.1  Consensus size: 31

        590 AAGGGACTAA

                                    *      
        600 TTTGTCCC-AAA-AAAAACATAAGCGATTTT
          1 TTTGTCCCAAAAGAAAAACATAAGGGATTTT

                                           
        629 TTTGTCCCAAAAGAAAAACATAAGGGATTTT
          1 TTTGTCCCAAAAGAAAAACATAAGGGATTTT

                                 *         
        660 TTTGTCCCAAAAGAAAAACATTAGGGATTTT
          1 TTTGTCCCAAAAGAAAAACATAAGGGATTTT

               
        691 TTT
          1 TTT

        694 AGTATTTAGT


Statistics
Matches: 61,  Mismatches: 2, Indels: 2
        0.94            0.03        0.03

Matches are distributed among these distances:
  29    8  0.13
  30    3  0.05
  31   50  0.82

ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33


Consensus pattern (31 bp):   
TTTGTCCCAAAAGAAAAACATAAGGGATTTT

Found at i:1046 original size:126 final size:124

Alignment explanation


    Indices: 840--1078  Score: 311
    Period size: 126  Copynumber: 1.9  Consensus size: 124

        830 ATTCCCTAAA

                       *                                                     
        840 AAAATGGTAAAGATAAAATAGTTATAAAAATATTGAATTTAATTAAATAAAAATAGAATTTTTTG
          1 AAAATGGTAAAAATAAAATAGTTATAAAAATATTGAATTTAATTAAATAAAAATAGAATTTTTTG

                                *         *       *                      
        905 GAAAAAAAAACTGTAAAAGTTTAAAAAATGTCATTTAAGAAATATATTTAATTAAAATAGT
         66 G-AAAAAAAACTGTAAAAGTAT-AAAAATGGCATTTAAAAAATATATTTAATTAAAATAGT

                             *          *            *                *      
        966 AAAATGGTAAAAATAAATTAGTTATAAATATATT-AGATTTGATTAAATAAAAATAGAGTTTTTA
          1 AAAATGGTAAAAATAAAATAGTTATAAAAATATTGA-ATTTAATTAAATAAAAATAGAATTTTT-

              *   **    *                                     
       1030 ATTG-AGTAAAATTGTAAAAGTATAAAAATGGCATTTAAAAAATATATTT
         64 -TGGAAAAAAAACTGTAAAAGTATAAAAATGGCATTTAAAAAATATATTT

       1079 GAAAAATAAG


Statistics
Matches: 98,  Mismatches: 12, Indels: 7
        0.84            0.10        0.06

Matches are distributed among these distances:
 125   25  0.26
 126   71  0.72
 128    2  0.02

ACGTcount: A:0.53, C:0.01, G:0.11, T:0.35


Consensus pattern (124 bp):   
AAAATGGTAAAAATAAAATAGTTATAAAAATATTGAATTTAATTAAATAAAAATAGAATTTTTTG
GAAAAAAAACTGTAAAAGTATAAAAATGGCATTTAAAAAATATATTTAATTAAAATAGT
Done.