Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023559.1 Corchorus olitorius cultivar O-4 contig23592, 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: 20611
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34


Found at i:2523 original size:105 final size:105

Alignment explanation


    Indices: 2336--2543  Score: 371
    Period size: 105  Copynumber: 2.0  Consensus size: 105

       2326 ATACTTGTTT

                       *                                            *        
       2336 TAGTAATAATGTGAAGGAAACCAGTTTGTGTCCAGAATTAGCCAATGTTGTTGAGGGTAAGGGAG
          1 TAGTAATAATGGGAAGGAAACCAGTTTGTGTCCAGAATTAGCCAATGTTGTTGAGGATAAGGGAG

                               *                    
       2401 GGAAATTGGGAAGTGAAAGGCAGTTTCAGTCCAAGGATTA
         66 GGAAATTGGGAAGTGAAAGACAGTTTCAGTCCAAGGATTA

                *                                                            
       2441 TAGTGATAATGGGAAGGAAACCAGTTTGTGTCCAGAATTAGCCAATGTTGTTGAGGATAAGGGAG
          1 TAGTAATAATGGGAAGGAAACCAGTTTGTGTCCAGAATTAGCCAATGTTGTTGAGGATAAGGGAG

              *                                   
       2506 GGCAATTGGGAAGTGAAAGACAGTTTCAGTCCAAGGAT
         66 GGAAATTGGGAAGTGAAAGACAGTTTCAGTCCAAGGAT

       2544 GAACTAGAAA


Statistics
Matches: 98,  Mismatches: 5, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
 105   98  1.00

ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25


Consensus pattern (105 bp):   
TAGTAATAATGGGAAGGAAACCAGTTTGTGTCCAGAATTAGCCAATGTTGTTGAGGATAAGGGAG
GGAAATTGGGAAGTGAAAGACAGTTTCAGTCCAAGGATTA

Found at i:10727 original size:15 final size:15

Alignment explanation


    Indices: 10709--10757  Score: 71
    Period size: 15  Copynumber: 3.3  Consensus size: 15

      10699 ATTGCTACTT

                    * *    
      10709 TCCCTAGAGTTACTC
          1 TCCCTAGAATCACTC

                 *         
      10724 TCCCTGGAATCACTC
          1 TCCCTAGAATCACTC

                           
      10739 TCCCTAGAATCACTC
          1 TCCCTAGAATCACTC

                
      10754 TCCC
          1 TCCC

      10758 AGGGAAAGTT


Statistics
Matches: 30,  Mismatches: 4, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  15   30  1.00

ACGTcount: A:0.20, C:0.41, G:0.10, T:0.29


Consensus pattern (15 bp):   
TCCCTAGAATCACTC
Done.