Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017620.1 Corchorus olitorius cultivar O-4 contig17653, 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: 10350
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33


Found at i:9803 original size:26 final size:25

Alignment explanation


    Indices: 9757--9806  Score: 82
    Period size: 26  Copynumber: 2.0  Consensus size: 25

       9747 ATTCAATATT

                *                    
       9757 TTTATAATTTTTTTTACCATTTTAA
          1 TTTAAAATTTTTTTTACCATTTTAA

                                     
       9782 TTTAAAATTTATTTTTACCATTTTA
          1 TTTAAAATTT-TTTTTACCATTTTA

       9807 CTATTTTTCA


Statistics
Matches: 23,  Mismatches: 1, Indels: 1
        0.92            0.04        0.04

Matches are distributed among these distances:
  25    9  0.39
  26   14  0.61

ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62


Consensus pattern (25 bp):   
TTTAAAATTTTTTTTACCATTTTAA

Found at i:9811 original size:144 final size:149

Alignment explanation


    Indices: 9645--9938  Score: 499
    Period size: 145  Copynumber: 2.0  Consensus size: 149

       9635 TTAAAATTAC

                                                               *             
       9645 TTTATTTTTACCATTTTACTATTTTTCATTAAAAACTAGGATATATT-AAATTTTTTAATATACA
          1 TTTATTTTTACCATTTTACTATTTTTCATTAAAAACTAGGATATATTAAAAATTTTTAATATACA

                                                                             
       9709 ATTTTATTCGACTAAAAACTCTATTTTCATTTAATTAAATTCAATATTTTTAT-A-A-TTT-TTT
         66 ATTTTATTCGACTAAAAACTCTATTTTCATTTAATTAAATTCAATATTTTTATAATATTTTATTT

                               
       9770 TTACCATTTTAATTTAAAA
        131 TTACCATTTTAATTTAAAA

                                                 *                           
       9789 TTTATTTTTACCATTTTACTATTTTTCATTAAAAACTTGGATATATTAAAAATTTTTAATATACA
          1 TTTATTTTTACCATTTTACTATTTTTCATTAAAAACTAGGATATATTAAAAATTTTTAATATACA

                     *                 *               *                     
       9854 ATTTTATTCTACTAAAAACTCTATTTTTATTTAATTAAATTCATTATTTTTATAATTATTTTATT
         66 ATTTTATTCGACTAAAAACTCTATTTTCATTTAATTAAATTCAATATTTTTATAA-TATTTTATT

                                
       9919 TTTACCATTTTAATTTAAAA
        130 TTTACCATTTTAATTTAAAA

       9939 GCTTATTGTG


Statistics
Matches: 139,  Mismatches: 5, Indels: 6
        0.93            0.03        0.04

Matches are distributed among these distances:
 144   46  0.33
 145   66  0.47
 146    1  0.01
 148    1  0.01
 149    3  0.02
 150   22  0.16

ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53


Consensus pattern (149 bp):   
TTTATTTTTACCATTTTACTATTTTTCATTAAAAACTAGGATATATTAAAAATTTTTAATATACA
ATTTTATTCGACTAAAAACTCTATTTTCATTTAATTAAATTCAATATTTTTATAATATTTTATTT
TTACCATTTTAATTTAAAA

Done.