Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020505.1 Corchorus olitorius cultivar O-4 contig20538, 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: 3010
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32


Found at i:545 original size:21 final size:21

Alignment explanation


    Indices: 517--587  Score: 108
    Period size: 21  Copynumber: 3.4  Consensus size: 21

        507 TGCTAGGAGA

                                  
        517 TCATTGGAGCAA-GTTCCAAGC
          1 TCATTGGAG-AAGGTTCCAAGC

             *                   
        538 TTATTGGAGAAGGTTCCAAGC
          1 TCATTGGAGAAGGTTCCAAGC

                           *     
        559 TCATTGGAGAAGGTTTCAAGC
          1 TCATTGGAGAAGGTTCCAAGC

                    
        580 TCATTGGA
          1 TCATTGGA

        588 ATTGCCTAAG


Statistics
Matches: 46,  Mismatches: 3, Indels: 2
        0.90            0.06        0.04

Matches are distributed among these distances:
  20    2  0.04
  21   44  0.96

ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28


Consensus pattern (21 bp):   
TCATTGGAGAAGGTTCCAAGC

Found at i:638 original size:21 final size:21

Alignment explanation


    Indices: 595--639  Score: 54
    Period size: 21  Copynumber: 2.1  Consensus size: 21

        585 GGAATTGCCT

                       *  *   *  
        595 AAGATGCCATTTGATCCATTG
          1 AAGATGCCATTAGACCCAATG

                         *       
        616 AAGATGCCATTAGGCCCAATG
          1 AAGATGCCATTAGACCCAATG

               
        637 AAG
          1 AAG

        640 CATTATTGGG


Statistics
Matches: 20,  Mismatches: 4, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  21   20  1.00

ACGTcount: A:0.33, C:0.20, G:0.22, T:0.24


Consensus pattern (21 bp):   
AAGATGCCATTAGACCCAATG
Done.