Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020957.1 Corchorus olitorius cultivar O-4 contig20990, 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: 7669
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32


Found at i:723 original size:178 final size:177

Alignment explanation


    Indices: 410--741  Score: 506
    Period size: 178  Copynumber: 1.9  Consensus size: 177

        400 AAGGTGATTT

                       *                                   *                 
        410 AAGTGTCTATTTAAAGATTGTTCCATGATCTACAACTTTCATGAAGGTCTTGAAACTAAATTTAA
          1 AAGTGTCTATTGAAAGATTGTTCCATGATCTACAACTTTCATGAAGGACTTGAAACTAAATTTAA

                                             *                 *             
        475 TGTTTCAAATATAAAAAATGCTTCCAAAAAATTTGTTGCTTCGATTAACGGGAATAGACGGTCAA
         66 TGTTTCAAATATAAAAAATGCTTCCAAAAAATTAGTTGCTTCGATTAACGGAAATAGACGGTCAA

                      *                                     
        540 CTTAATATTATATAACTTT-TGCTTCAGATGTCTGATTGAGATTATTC
        131 CTTAATATTACATAA-TTTGTGCTTCAGATGTCTGATTGAGATTATTC

                    *       *                                                
        587 AAGTGTCTCTTGAAAGGTTGTTCCATGATCTACAACTTTCATGAAGGACTTGAAAACTAAATTTA
          1 AAGTGTCTATTGAAAGATTGTTCCATGATCTACAACTTTCATGAAGGACTTG-AAACTAAATTTA

                      *                   *         *    *               *   
        652 ATG-TTCAAGGTATAAAAAATGCTTCCAAAGAATTAGTTGTTTCGGTTAACGGAAATAGACTGTC
         65 ATGTTTCAA-ATATAAAAAATGCTTCCAAAAAATTAGTTGCTTCGATTAACGGAAATAGACGGTC

            *                         
        716 TACTTAATATTACATAATTTGTGCTT
        129 AACTTAATATTACATAATTTGTGCTT

        742 ATGGTGAAAA


Statistics
Matches: 139,  Mismatches: 13, Indels: 5
        0.89            0.08        0.03

Matches are distributed among these distances:
 177   56  0.40
 178   83  0.60

ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36


Consensus pattern (177 bp):   
AAGTGTCTATTGAAAGATTGTTCCATGATCTACAACTTTCATGAAGGACTTGAAACTAAATTTAA
TGTTTCAAATATAAAAAATGCTTCCAAAAAATTAGTTGCTTCGATTAACGGAAATAGACGGTCAA
CTTAATATTACATAATTTGTGCTTCAGATGTCTGATTGAGATTATTC
Done.