Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005697.1 Corchorus capsularis cultivar CVL-1 contig05715, 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: 3002
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30

Warning! 2 characters in sequence are not A, C, G, or T


Found at i:2084 original size:23 final size:23

Alignment explanation


    Indices: 1961--2069  Score: 191
    Period size: 23  Copynumber: 4.7  Consensus size: 23

       1951 GCGCGGACAT

                                   
       1961 CGCGGACATGGCCGGGCTGGAGG
          1 CGCGGACATGGCCGGGCTGGAGG

                                   
       1984 CGCGGACATGGCCGGGCTGGAGG
          1 CGCGGACATGGCCGGGCTGGAGG

            *               *      
       2007 AGCGGACATGGCCGGGATGGAGG
          1 CGCGGACATGGCCGGGCTGGAGG

                                   
       2030 CGCGGACATGGCCGGGCTGGAGG
          1 CGCGGACATGGCCGGGCTGGAGG

            *                
       2053 AGCGGACATGGCCGGGC
          1 CGCGGACATGGCCGGGC

       2070 ATGACGCGGT


Statistics
Matches: 81,  Mismatches: 5, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  23   81  1.00

ACGTcount: A:0.16, C:0.25, G:0.51, T:0.08


Consensus pattern (23 bp):   
CGCGGACATGGCCGGGCTGGAGG

Found at i:2286 original size:42 final size:42

Alignment explanation


    Indices: 2240--2333  Score: 161
    Period size: 42  Copynumber: 2.2  Consensus size: 42

       2230 GGCTGAGCAT

                              *        *              
       2240 GGCCGGGCAGGCGGTGCATGTGGCGCGGCTGTGGCTTGGCAG
          1 GGCCGGGCAGGCGGTGCAAGTGGCGCGACTGTGGCTTGGCAG

                   *                                  
       2282 GGCCGGGTAGGCGGTGCAAGTGGCGCGACTGTGGCTTGGCAG
          1 GGCCGGGCAGGCGGTGCAAGTGGCGCGACTGTGGCTTGGCAG

                      
       2324 GGCCGGGCAG
          1 GGCCGGGCAG

       2334 TCTTGGCCGG


Statistics
Matches: 48,  Mismatches: 4, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  42   48  1.00

ACGTcount: A:0.10, C:0.23, G:0.52, T:0.15


Consensus pattern (42 bp):   
GGCCGGGCAGGCGGTGCAAGTGGCGCGACTGTGGCTTGGCAG
Done.