Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009778.1 Corchorus olitorius cultivar O-4 contig09810, 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: 3115
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36


Found at i:2648 original size:124 final size:127

Alignment explanation


    Indices: 2455--2702  Score: 362
    Period size: 124  Copynumber: 1.9  Consensus size: 127

       2445 AAACTTTTAT

                                                             *               
       2455 AGTTTTACTCAACTAAAAACTCTATTTTTATTTAATTAAATCTAATATCTTTATAATTTTTACCA
          1 AGTTTTACTCAACTAAAAACTCTATTTTTATTTAATTAAATCTAATATCCTTATAATTTTTA-CA

                  *                                                        
       2520 TTTTACTATTTTA-A-TT-A-AAAAAACTTATATATATTAGAATTTTTTAAATATACTGTTAC
         65 TTTTACCATTTTACATTTAATAAAAAACTTATATATATTAGAATTTTTTAAATATACTGTTAC

                   *                                                *        
       2579 AGTTTTATTCAACTAAAAACTCTATTTTTATTTAATTAAATCTAATATCCTTATACCTATTTTA-
          1 AGTTTTACTCAACTAAAAACTCTATTTTTATTTAATTAAATCTAATATCCTTATA-AT-TTTTAC

            *                                                           
       2643 TTTTTACCATTTTACTATTTTAATTAAAAAACTTATATATATTAGAATTTTTTAAATATA
         64 ATTTTACCATTTTAC-A-TTTAA-TAAAAAACTTATATATATTAGAATTTTTTAAATATA

       2703 TTTCTTAATT


Statistics
Matches: 110,  Mismatches: 5, Indels: 11
        0.87            0.04        0.09

Matches are distributed among these distances:
 124   65  0.59
 125    1  0.01
 126    6  0.05
 128    2  0.02
 129    1  0.01
 131   35  0.32

ACGTcount: A:0.38, C:0.10, G:0.02, T:0.49


Consensus pattern (127 bp):   
AGTTTTACTCAACTAAAAACTCTATTTTTATTTAATTAAATCTAATATCCTTATAATTTTTACAT
TTTACCATTTTACATTTAATAAAAAACTTATATATATTAGAATTTTTTAAATATACTGTTAC
Done.