Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01000830.1 Corchorus capsularis cultivar CVL-1 contig00830, 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: 7071
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27


Found at i:883 original size:25 final size:25

Alignment explanation


    Indices: 844--959  Score: 169
    Period size: 25  Copynumber: 4.6  Consensus size: 25

        834 CAGCCTATGT

                  *   *              
        844 GTTTGCCAAATGCAAGCATAGGCTC
          1 GTTTGCTAAACGCAAGCATAGGCTC

                              *      
        869 GTTTGCTAAACGCAAGCACAGGCTC
          1 GTTTGCTAAACGCAAGCATAGGCTC

                            *        
        894 GTTTGCTAAACGCAAGTATAGGCTC
          1 GTTTGCTAAACGCAAGCATAGGCTC

                   *         *       
        919 GTTTGCTCAACGCAAGCGTAGGCTC
          1 GTTTGCTAAACGCAAGCATAGGCTC

                  *         
        944 GTTTGCCAAACGCAAG
          1 GTTTGCTAAACGCAAG

        960 AACATGAGCG


Statistics
Matches: 81,  Mismatches: 10, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  25   81  1.00

ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23


Consensus pattern (25 bp):   
GTTTGCTAAACGCAAGCATAGGCTC

Found at i:972 original size:50 final size:50

Alignment explanation


    Indices: 844--972  Score: 132
    Period size: 50  Copynumber: 2.6  Consensus size: 50

        834 CAGCCTATGT

                      *     * *   **                          
        844 GTTTGCCAAATGCAAGCATAGGCTCGTTTGCTAAACGCAAGCACAGGCTC
          1 GTTTGCCAAACGCAAGAACAGGAGCGTTTGCTAAACGCAAGCACAGGCTC

                  *         * *   **        *         **      
        894 GTTTGCTAAACGCAAGTATAGGCTCGTTTGCTCAACGCAAGCGTAGGCTC
          1 GTTTGCCAAACGCAAGAACAGGAGCGTTTGCTAAACGCAAGCACAGGCTC

                                *        
        944 GTTTGCCAAACGCAAGAACATGAGCGTTT
          1 GTTTGCCAAACGCAAGAACAGGAGCGTTT

        973 ACCCAGCGCA


Statistics
Matches: 67,  Mismatches: 12, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  50   67  1.00

ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24


Consensus pattern (50 bp):   
GTTTGCCAAACGCAAGAACAGGAGCGTTTGCTAAACGCAAGCACAGGCTC
Done.