Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000675.1 Corchorus olitorius cultivar O-4 contig00675, 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: 2609
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31


Found at i:914 original size:39 final size:38

Alignment explanation


    Indices: 779--1119  Score: 384
    Period size: 38  Copynumber: 8.9  Consensus size: 38

        769 TTGATTGAAC

                *     *   *                     * *
        779 GAAACTCTAAGCATGGACCTAAGCAGGTTTGA-TTAGAC
          1 GAAATTCTAAACATAGACCTAAGCAGGTTT-ACTTAAAT

                         **      **           **   
        817 GAAACTTCTAAACGGAGACCTTTGCAGGTTTACTCGAAT
          1 GAAA-TTCTAAACATAGACCTAAGCAGGTTTACTTAAAT

              *    *  *   **                    *  *
        856 GGTAATTTTACACAGGGACCTAAGCAGGTTTGA-TTGAAC
          1 -GAAATTCTAAACATAGACCTAAGCAGGTTT-ACTTAAAT

                                                    
        895 GAGAATTCTAAACA-AGGACCTAAGCAGGTTTACTTAAAT
          1 GA-AATTCTAAACATA-GACCTAAGCAGGTTTACTTAAAT

                                    *              
        934 GAAAATTCTAAACATAGACCTAAGTAGGTTTACTTAAAT
          1 G-AAATTCTAAACATAGACCTAAGCAGGTTTACTTAAAT

                              *                  * 
        973 GAAATTCTAAACATAGACTTGAA-CAGGTTTACTTAATT
          1 GAAATTCTAAACATAGACCT-AAGCAGGTTTACTTAAAT

                                                  
       1011 GAAATTCTAAACATAGACCTAAGCAGGTTTACTTAAAT
          1 GAAATTCTAAACATAGACCTAAGCAGGTTTACTTAAAT

                                                  
       1049 GAAATTCTAAACATAGACCTAAGCAGGTTTACTTAAAT
          1 GAAATTCTAAACATAGACCTAAGCAGGTTTACTTAAAT

                                *            
       1087 GAAATTCTAAACATAGACCTGAGCAGGTTTACT
          1 GAAATTCTAAACATAGACCTAAGCAGGTTTACT

       1120 ATGATAAAAA


Statistics
Matches: 259,  Mismatches: 33, Indels: 22
        0.82            0.11        0.07

Matches are distributed among these distances:
  37    2  0.01
  38  141  0.54
  39  110  0.42
  40    6  0.02

ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28


Consensus pattern (38 bp):   
GAAATTCTAAACATAGACCTAAGCAGGTTTACTTAAAT

Done.