Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01006558.1 Corchorus capsularis cultivar CVL-1 contig06579, 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: 7052
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32


Found at i:6916 original size:2 final size:2

Alignment explanation


    Indices: 6904--7033  Score: 53
    Period size: 2  Copynumber: 69.0  Consensus size: 2

       6894 ATAAAAACAA

                                                *   *          *      *   
       6904 AT AT A- AT AT AT AT A- AT AT AT -T TT AA AT AT AT TT AT AG A-
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

             *          *                                 *   *    *       
       6942 AA AT AT AT TT AT A- AT AT AT AT AGT AT AT -T TT AA AT TT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT

                  *                  *  *  *                            * 
       6983 AT AT TT AT AT AT A- AT AA AA AC AT AT AT AT A- AT AT AT -T TT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

             *               
       7022 AA AT AT AT AT AT
          1 AT AT AT AT AT AT

       7034 TATGTAAAAA


Statistics
Matches: 96,  Mismatches: 22, Indels: 20
        0.70            0.16        0.14

Matches are distributed among these distances:
   1    9  0.09
   2   85  0.89
   3    2  0.02

ACGTcount: A:0.50, C:0.01, G:0.02, T:0.48


Consensus pattern (2 bp):   
AT
Done.