Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020532.1 Corchorus olitorius cultivar O-4 contig20565, 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: 3307
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31


Found at i:1138 original size:28 final size:29

Alignment explanation


    Indices: 1032--1348  Score: 352
    Period size: 29  Copynumber: 10.9  Consensus size: 29

       1022 ACCCAGAGTA

                       *          *      *
       1032 TGCAAAAATGATCAAAATGCCCCTGGATTA
          1 TGCAAAAATGACCAAAATGCCCTTGGA-TG

                                     *    
       1062 TGCAAAAATGACCAAAATGCCCTTGAATTG
          1 TGCAAAAATGACCAAAATGCCCTTGGA-TG

                                          
       1092 TGCAAAAAATGACCAAAATGCCCTTGGATG
          1 TGC-AAAAATGACCAAAATGCCCTTGGATG

                         *        * *    
       1122 TGC-AAAATGACCGAAATGCCCCTAGATG
          1 TGCAAAAATGACCAAAATGCCCTTGGATG

            *        *                  *
       1150 AGCAAAAATTACCAAAATGCCCTTGGATA
          1 TGCAAAAATGACCAAAATGCCCTTGGATG

               *                **      *
       1179 TGCGAAAATGACCAAAATGCGTTTGGATA
          1 TGCAAAAATGACCAAAATGCCCTTGGATG

               *             *      *   *
       1208 TGCGAAAATGACCAAAAGGCCCTTAGATA
          1 TGCAAAAATGACCAAAATGCCCTTGGATG

                  *                       
       1237 TGCATAGAATGACCAAAATGCCCTTGGATG
          1 TGCA-AAAATGACCAAAATGCCCTTGGATG

            *                       *    
       1267 CGC-AAAATGACCAAAATGCCCTTAGATG
          1 TGCAAAAATGACCAAAATGCCCTTGGATG

            *                     * *    
       1295 CGC-AAAATGACCAAAATGCCCCTAGATG
          1 TGCAAAAATGACCAAAATGCCCTTGGATG

                                 *    
       1323 TGCAAAAATGACCAAAATGCCTTTGG
          1 TGCAAAAATGACCAAAATGCCCTTGG

       1349 GTTCGCAAAA


Statistics
Matches: 247,  Mismatches: 36, Indels: 9
        0.85            0.12        0.03

Matches are distributed among these distances:
  28   76  0.31
  29   91  0.37
  30   57  0.23
  31   23  0.09

ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21


Consensus pattern (29 bp):   
TGCAAAAATGACCAAAATGCCCTTGGATG

Done.