Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01011602.1 Corchorus capsularis cultivar CVL-1 contig11623, 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: 3944
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.32


Found at i:2686 original size:33 final size:33

Alignment explanation


    Indices: 2646--2742  Score: 115
    Period size: 33  Copynumber: 2.9  Consensus size: 33

       2636 AGCACTTGTG

                      *            *          
       2646 ACCGGCCACGTGACTTGGAGATGTCC-GCGCAAC
          1 ACCGGCCACGCGACTTGGAGATGCCCGGC-CAAC

                    *                      * 
       2679 ACCGGCCATGCGACTTGGAGATGCCCGGCCATC
          1 ACCGGCCACGCGACTTGGAGATGCCCGGCCAAC

                          *   **           
       2712 ACCGGCCACGCGACATGGCCATGCCCGGCCA
          1 ACCGGCCACGCGACTTGGAGATGCCCGGCCA

       2743 CATGATCCTT


Statistics
Matches: 55,  Mismatches: 8, Indels: 2
        0.85            0.12        0.03

Matches are distributed among these distances:
  33   53  0.96
  34    2  0.04

ACGTcount: A:0.20, C:0.38, G:0.30, T:0.12


Consensus pattern (33 bp):   
ACCGGCCACGCGACTTGGAGATGCCCGGCCAAC

Found at i:3783 original size:9 final size:9

Alignment explanation


    Indices: 3763--3796  Score: 59
    Period size: 9  Copynumber: 3.7  Consensus size: 9

       3753 AGTTATATCG

                      
       3763 AAAAATATAA
          1 AAAAATA-AA

                     
       3773 AAAAATAAA
          1 AAAAATAAA

                     
       3782 AAAAATAAA
          1 AAAAATAAA

                  
       3791 AAAAAT
          1 AAAAAT

       3797 TTCGACCAGA


Statistics
Matches: 24,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
   9   17  0.71
  10    7  0.29

ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15


Consensus pattern (9 bp):   
AAAAATAAA
Done.