Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015863.1 Corchorus olitorius cultivar O-4 contig15896, 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: 7668
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32


Found at i:5420 original size:22 final size:21

Alignment explanation


    Indices: 5395--5442  Score: 60
    Period size: 22  Copynumber: 2.2  Consensus size: 21

       5385 CCACTACCAA

                           *      
       5395 GCCATAACCGGCCATTCACCGT
          1 GCCATAACCGGCCATAC-CCGT

                **               
       5417 GCCACCACCGGCCATACCCGT
          1 GCCATAACCGGCCATACCCGT

                 
       5438 GCCAT
          1 GCCAT

       5443 CACCTTTGAT


Statistics
Matches: 22,  Mismatches: 4, Indels: 1
        0.81            0.15        0.04

Matches are distributed among these distances:
  21    8  0.36
  22   14  0.64

ACGTcount: A:0.21, C:0.46, G:0.19, T:0.15


Consensus pattern (21 bp):   
GCCATAACCGGCCATACCCGT

Found at i:5431 original size:32 final size:33

Alignment explanation


    Indices: 5369--5446  Score: 81
    Period size: 32  Copynumber: 2.4  Consensus size: 33

       5359 CCTGGTCAAG

                       *         *           
       5369 ACCGGCCATT-GCCGCGCCACTACCAAGCCATA
          1 ACCGGCCATTCACCGCGCCACCACCAAGCCATA

                           *          *      
       5401 ACCGGCCATTCACCGTGCCACCACC-GGCCATA
          1 ACCGGCCATTCACCGCGCCACCACCAAGCCATA

            *              
       5433 CCCGTGCCA-TCACC
          1 ACCG-GCCATTCACC

       5447 TTTGATGATT


Statistics
Matches: 39,  Mismatches: 5, Indels: 4
        0.81            0.10        0.08

Matches are distributed among these distances:
  32   24  0.62
  33   15  0.38

ACGTcount: A:0.22, C:0.47, G:0.18, T:0.13


Consensus pattern (33 bp):   
ACCGGCCATTCACCGCGCCACCACCAAGCCATA

Found at i:5439 original size:21 final size:22

Alignment explanation


    Indices: 5401--5446  Score: 67
    Period size: 21  Copynumber: 2.1  Consensus size: 22

       5391 CCAAGCCATA

                     *            
       5401 ACCGGCCATTCACCGTGCCACC
          1 ACCGGCCATACACCGTGCCACC

                                * 
       5423 ACCGGCCATAC-CCGTGCCATC
          1 ACCGGCCATACACCGTGCCACC

               
       5444 ACC
          1 ACC

       5447 TTTGATGATT


Statistics
Matches: 22,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  21   12  0.55
  22   10  0.45

ACGTcount: A:0.20, C:0.50, G:0.17, T:0.13


Consensus pattern (22 bp):   
ACCGGCCATACACCGTGCCACC
Done.