Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01009289.1 Corchorus capsularis cultivar CVL-1 contig09310, 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: 2229
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.31


Found at i:578 original size:28 final size:28

Alignment explanation


    Indices: 524--582  Score: 73
    Period size: 28  Copynumber: 2.1  Consensus size: 28

        514 AGGAATGTTT

                            * ** *      
        524 AAATAAGGAGGTATTTTTGGCCCAAAAA
          1 AAATAAGGAGGTATTTATAACACAAAAA

                                  *     
        552 AAATAAGGAGGTATTTATAACAGAAAAA
          1 AAATAAGGAGGTATTTATAACACAAAAA

               
        580 AAA
          1 AAA

        583 AGGAAAGGAA


Statistics
Matches: 26,  Mismatches: 5, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  28   26  1.00

ACGTcount: A:0.53, C:0.07, G:0.19, T:0.22


Consensus pattern (28 bp):   
AAATAAGGAGGTATTTATAACACAAAAA

Found at i:1910 original size:87 final size:87

Alignment explanation


    Indices: 1811--2039  Score: 404
    Period size: 87  Copynumber: 2.6  Consensus size: 87

       1801 TTTCTTTTCT

                  *                    *                    *                
       1811 ATATCTTCTAAATCTCCCACAATTTGGGAAGATTTAGAAAATATTCTCTTTATTAACTCAATCTT
          1 ATATCTCCTAAATCTCCCACAATTTGGCAAGATTTAGAAAATATTCTCATTATTAACTCAATCTT

               *                  
       1876 TATGATTTATTTATTTCTTAAA
         66 TATAATTTATTTATTTCTTAAA

                                                                   **        
       1898 ATATCTCCTAAATCTCCCACAATTTGGCAAGATTTAGAAAATATTCTCATTATTAGTTCAATCTT
          1 ATATCTCCTAAATCTCCCACAATTTGGCAAGATTTAGAAAATATTCTCATTATTAACTCAATCTT

                                  
       1963 TATAATTTATTTATTTCTTAAA
         66 TATAATTTATTTATTTCTTAAA

                                                                   
       1985 ATATCTCCTAAATCTCCCACAATTTGGCAAGATTTAGAAAATATTCTCATTATTA
          1 ATATCTCCTAAATCTCCCACAATTTGGCAAGATTTAGAAAATATTCTCATTATTA

       2040 TTTTAACAAT


Statistics
Matches: 136,  Mismatches: 6, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  87  136  1.00

ACGTcount: A:0.34, C:0.17, G:0.07, T:0.42


Consensus pattern (87 bp):   
ATATCTCCTAAATCTCCCACAATTTGGCAAGATTTAGAAAATATTCTCATTATTAACTCAATCTT
TATAATTTATTTATTTCTTAAA
Done.