Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005170.1 Corchorus capsularis cultivar CVL-1 contig05188, 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: 3018
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33


Found at i:126 original size:12 final size:12

Alignment explanation


    Indices: 109--138  Score: 51
    Period size: 12  Copynumber: 2.5  Consensus size: 12

         99 TTAATACAGG

                        
        109 TATCGACGGATA
          1 TATCGACGGATA

                       *
        121 TATCGACGGATG
          1 TATCGACGGATA

                  
        133 TATCGA
          1 TATCGA

        139 GGTATCGATG


Statistics
Matches: 17,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  12   17  1.00

ACGTcount: A:0.30, C:0.17, G:0.27, T:0.27


Consensus pattern (12 bp):   
TATCGACGGATA

Found at i:2886 original size:74 final size:74

Alignment explanation


    Indices: 2760--2909  Score: 273
    Period size: 74  Copynumber: 2.0  Consensus size: 74

       2750 CCTGGGATGG

                                                *          *      *          
       2760 GCGGGGTGGGATTATGGGAAAGGAGAGGGCTACCTCTTATTGTGTAGTCCATTTTAATATCATGT
          1 GCGGGGTGGGATTATGGGAAAGGAGAGGGCTACCTCCTATTGTGTAGCCCATTTCAATATCATGT

                     
       2825 TCATGAGTA
         66 TCATGAGTA

                                                                             
       2834 GCGGGGTGGGATTATGGGAAAGGAGAGGGCTACCTCCTATTGTGTAGCCCATTTCAATATCATGT
          1 GCGGGGTGGGATTATGGGAAAGGAGAGGGCTACCTCCTATTGTGTAGCCCATTTCAATATCATGT

                     
       2899 TCATGAGTA
         66 TCATGAGTA

              
       2908 GC
          1 GC

       2910 AAAAAAGGAG


Statistics
Matches: 73,  Mismatches: 3, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  74   73  1.00

ACGTcount: A:0.24, C:0.15, G:0.31, T:0.30


Consensus pattern (74 bp):   
GCGGGGTGGGATTATGGGAAAGGAGAGGGCTACCTCCTATTGTGTAGCCCATTTCAATATCATGT
TCATGAGTA
Done.