Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000578.1 Corchorus olitorius cultivar O-4 contig00578, 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, 895

Length: 1492
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33


Found at i:816 original size:122 final size:124

Alignment explanation


    Indices: 514--837  Score: 492
    Period size: 122  Copynumber: 2.6  Consensus size: 124

        504 CCTTTTAAAT

                                                                   *         
        514 TAAAATGGTAAAAATAAAATAATTATAAAAATATTGAATTTAATTAAATGAAAATTGAGTTTTTA
          1 TAAAATGGTAAAAATAAAATAATTATAAAAATATTGAATTTAATTAAATGAAAATAGAGTTTTTA

            *  *                                                   *   
        579 ATAAAATAAAACTGTATATTAAAAAAATTTAATATATCCAAGTTTTGAATGAAAATTAG
         66 GTAGAATAAAACTGTATATTAAAAAAATTTAATATATCCAAGTTTTGAATGAAAAATAG

                  **                                                         
        638 TAAAATTTTAAAAATAAAATAATTATAAAAATATTGAATTTAATTAAATGAAAATAGAGTTTTTA
          1 TAAAATGGTAAAAATAAAATAATTATAAAAATATTGAATTTAATTAAATGAAAATAGAGTTTTTA

                *                     *           *                    
        703 GTAGGATAAAACTGTATATT-AAAAATTTTAATATATCTAAGTTTT-AATGAAAAATAG
         66 GTAGAATAAAACTGTATATTAAAAAAATTTAATATATCCAAGTTTTGAATGAAAAATAG

                              * *   *    *                    *              
        760 TAAAATGGTAAAAATAAAGTTATTGTAAAGATATT-AGATTTAATTAAATAAAAATAGAGTTTTT
          1 TAAAATGGTAAAAATAAAATAATTATAAAAATATTGA-ATTTAATTAAATGAAAATAGAGTTTTT

                          
        824 AGTAGAATAAAACT
         65 AGTAGAATAAAACT

        838 ATAATAGTTT


Statistics
Matches: 182,  Mismatches: 17, Indels: 4
        0.90            0.08        0.02

Matches are distributed among these distances:
 121    1  0.01
 122   79  0.43
 123   23  0.13
 124   79  0.43

ACGTcount: A:0.52, C:0.02, G:0.10, T:0.36


Consensus pattern (124 bp):   
TAAAATGGTAAAAATAAAATAATTATAAAAATATTGAATTTAATTAAATGAAAATAGAGTTTTTA
GTAGAATAAAACTGTATATTAAAAAAATTTAATATATCCAAGTTTTGAATGAAAAATAG
Done.