Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018211.1 Corchorus olitorius cultivar O-4 contig18244, 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: 4452
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32


Found at i:881 original size:32 final size:32

Alignment explanation


    Indices: 834--1011  Score: 277
    Period size: 32  Copynumber: 5.5  Consensus size: 32

        824 TTAAAGCAAT

                                               
        834 TAAATATAGCGGCGTTTTGTAT-TGTAGACGCCGC
          1 TAAATA-AG-GGCGTTTTGT-TCTGTAGACGCCGC

                                 *  *       
        868 TAAATAAGGGCGTTTTGTTCTATAAACGCCGC
          1 TAAATAAGGGCGTTTTGTTCTGTAGACGCCGC

                                            
        900 TAAATAAGGGCGTTTTGTTCTGTAGACGCCGC
          1 TAAATAAGGGCGTTTTGTTCTGTAGACGCCGC

                                            
        932 TAAATAAGGGCGTTTTGTTCTGTAGACGCCGC
          1 TAAATAAGGGCGTTTTGTTCTGTAGACGCCGC

                   *             *          
        964 TAAATAACGGCGTTTTGTTCTATAGACGCCGC
          1 TAAATAAGGGCGTTTTGTTCTGTAGACGCCGC

                   *        
        996 TAAATAACGGCGTTTT
          1 TAAATAAGGGCGTTTT

       1012 CTTTTCGCGC


Statistics
Matches: 137,  Mismatches: 6, Indels: 4
        0.93            0.04        0.03

Matches are distributed among these distances:
  31    1  0.01
  32  128  0.93
  33    2  0.01
  34    6  0.04

ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32


Consensus pattern (32 bp):   
TAAATAAGGGCGTTTTGTTCTGTAGACGCCGC

Found at i:3444 original size:27 final size:27

Alignment explanation


    Indices: 3406--3505  Score: 173
    Period size: 27  Copynumber: 3.7  Consensus size: 27

       3396 ACCCGAGGCA

                              *        
       3406 AAGTGGGAGGATCCACTGTTGGGGTCG
          1 AAGTGGGAGGATCCACTGCTGGGGTCG

                 *                     
       3433 AAGTGTGAGGATCCACTGCTGGGGTCG
          1 AAGTGGGAGGATCCACTGCTGGGGTCG

                                     * 
       3460 AAGTGGGAGGATCCACTGCTGGGGTAG
          1 AAGTGGGAGGATCCACTGCTGGGGTCG

                               
       3487 AAGTGGGAGGATCCACTGC
          1 AAGTGGGAGGATCCACTGC

       3506 GGCATCAGTC


Statistics
Matches: 69,  Mismatches: 4, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  27   69  1.00

ACGTcount: A:0.21, C:0.17, G:0.42, T:0.20


Consensus pattern (27 bp):   
AAGTGGGAGGATCCACTGCTGGGGTCG
Done.