Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01002007.1 Corchorus olitorius cultivar O-4 contig02007, 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, 685

Length: 1142
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33


Found at i:1025 original size:164 final size:166

Alignment explanation


    Indices: 655--1044  Score: 472
    Period size: 164  Copynumber: 2.4  Consensus size: 166

        645 ACCACCATAT

                        *                              *                     
        655 TAATATATGGAGGGAGAGATTTTTTTTTCTCTTTTTTTGGAGGAAAAAATTCCCTCCCCCCTAAA
          1 TAATATATGGAGAGAGAGATTTTTTTTTCTCTTTTTTTGGAGGGAAAAATTCCCT--CCCCTAAA

                                                     **    *  **        *    
        720 ACAAAGAAAGTTTCCAACTCTACACCTATAATATATAGCGGCGTTTTGACTTCAGACGCCGCTAA
         64 ACAAAGAAAGTTTCCAACTCTACACCTATAATATATAGCGGAATTTTCACACCAGACGCCACTAA

                        *  **     *          *   *
        785 TTAAGTAGTGACGTCTTGAAAATGAAACGCCGCTATTT
        129 TTAAGTAGTGACATCAAGAAAAGGAAACGCCGCAATTG

                                       * *                                   
        823 TAATATATGGAGAGAGAGA--TTTTTTCCCCTTTTTTTGGAGGGAAAAATTCCCTCCCCTAAAAC
          1 TAATATATGGAGAGAGAGATTTTTTTTTCTCTTTTTTTGGAGGGAAAAATTCCCTCCCCTAAAAC

                                  *                        *                 
        886 AAAGAAA-TGTTCCAACTCTACGCCTATAATATATAGCGGAATTTTCTCACCAGACGCCACTAAT
         66 AAAGAAAGT-TTCCAACTCTACACCTATAATATATAGCGGAATTTTCACACCAGACGCCACTAAT

                             *                   
        950 T-AGT-G-G-CATCAAGGAAAGGAAACGCCGCAATTG
        130 TAAGTAGTGACATCAAGAAAAGGAAACGCCGCAATTG

                        *  *             *                            *    
        983 TAATATATGGAGTGAAAGAATTTTTTTTTTTCTTTGTTTTGGAGGG-AAAATTCCCTCGCCTA
          1 TAATATATGGAGAGAGAG-ATTTTTTTTTCTCTTT-TTTTGGAGGGAAAAATTCCCTCCCCTA

       1045 TAATATATAT


Statistics
Matches: 192,  Mismatches: 25, Indels: 15
        0.83            0.11        0.06

Matches are distributed among these distances:
 160   36  0.19
 161    2  0.01
 162    1  0.01
 163   29  0.15
 164   75  0.39
 166   31  0.16
 168   18  0.09

ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32


Consensus pattern (166 bp):   
TAATATATGGAGAGAGAGATTTTTTTTTCTCTTTTTTTGGAGGGAAAAATTCCCTCCCCTAAAAC
AAAGAAAGTTTCCAACTCTACACCTATAATATATAGCGGAATTTTCACACCAGACGCCACTAATT
AAGTAGTGACATCAAGAAAAGGAAACGCCGCAATTG
Done.