Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017632.1 Corchorus olitorius cultivar O-4 contig17665, 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: 7769
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33


Found at i:5834 original size:132 final size:134

Alignment explanation


    Indices: 5654--5910  Score: 405
    Period size: 132  Copynumber: 1.9  Consensus size: 134

       5644 TCATTCATCC

                          *                 *                                
       5654 AAATTCTAATATATCTAAGTTTTTTAATTAAAGTAGTAAAATGAT-AAAAATAAAATAGGTATAA
          1 AAATTCTAATATATATAAGTTTTTTAATTAAAATAGTAAAATGATAAAAAAT-AAATAGGTATAA

                                                                 *           
       5718 GGATA-TA-AGATTTAATTAAATAAAAAATAGAGATTTTAGTTGAGTAAAATTTTAAAAGTATAT
         65 GGATATTATAGATTTAATTAAAT-AAAAATAGAGATTTTAGTTGAGTAAAATTATAAAAGTATAT

                  
       5781 TTAAAA
        129 TTAAAA

                                                       *              *      
       5787 AAATTCTAATATATATAAG-TTTTTAATTAAAATAGTAAAATGGTAAAAAATAAATAGTTATAAG
          1 AAATTCTAATATATATAAGTTTTTTAATTAAAATAGTAAAATGATAAAAAATAAATAGGTATAAG

                                             *                          
       5851 GATATTATTAGATTTAATTAAATAAAAATAGAGTTTTTAGTTGAGTAAAATTATAAAAGT
         66 GATATTA-TAGATTTAATTAAATAAAAATAGAGATTTTAGTTGAGTAAAATTATAAAAGT

       5911 TTAAACAATG


Statistics
Matches: 114,  Mismatches: 6, Indels: 7
        0.90            0.05        0.06

Matches are distributed among these distances:
 132   39  0.34
 133   26  0.23
 134   35  0.31
 135   14  0.12

ACGTcount: A:0.51, C:0.01, G:0.11, T:0.37


Consensus pattern (134 bp):   
AAATTCTAATATATATAAGTTTTTTAATTAAAATAGTAAAATGATAAAAAATAAATAGGTATAAG
GATATTATAGATTTAATTAAATAAAAATAGAGATTTTAGTTGAGTAAAATTATAAAAGTATATTT
AAAA

Done.