Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01006517.1 Corchorus capsularis cultivar CVL-1 contig06538, 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: 3231
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30


Found at i:3026 original size:23 final size:23

Alignment explanation


    Indices: 2983--3026  Score: 54
    Period size: 23  Copynumber: 1.9  Consensus size: 23

       2973 AAAATAAAGC

                          *        
       2983 AAAGCAAATTTAAATCTAAATCT
          1 AAAGCAAATTTAAAGCTAAATCT

                  *               
       3006 AAAGCAGATTATAAAGC-AAAT
          1 AAAGCAAATT-TAAAGCTAAAT

       3027 TAATAAAGCA


Statistics
Matches: 18,  Mismatches: 2, Indels: 2
        0.82            0.09        0.09

Matches are distributed among these distances:
  23   13  0.72
  24    5  0.28

ACGTcount: A:0.55, C:0.11, G:0.09, T:0.25


Consensus pattern (23 bp):   
AAAGCAAATTTAAAGCTAAATCT

Found at i:3034 original size:13 final size:12

Alignment explanation


    Indices: 2983--3038  Score: 53
    Period size: 12  Copynumber: 4.7  Consensus size: 12

       2973 AAAATAAAGC

                        
       2983 AAAGCAAATT-T
          1 AAAGCAAATTAT

               *       * 
       2994 AAATCTAAA-TCT
          1 AAAGC-AAATTAT

                  *     
       3006 AAAGCAGATTAT
          1 AAAGCAAATTAT

                         
       3018 AAAGCAAATTAAT
          1 AAAGCAAATT-AT

                    
       3031 AAAGCAAA
          1 AAAGCAAA

       3039 CAATAATTAA


Statistics
Matches: 36,  Mismatches: 5, Indels: 6
        0.77            0.11        0.13

Matches are distributed among these distances:
  11    7  0.19
  12   19  0.53
  13   10  0.28

ACGTcount: A:0.57, C:0.11, G:0.09, T:0.23


Consensus pattern (12 bp):   
AAAGCAAATTAT
Done.