Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01016034.1 Corchorus capsularis cultivar CVL-1 contig16055, 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: 5830
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32


Found at i:3654 original size:32 final size:32

Alignment explanation


    Indices: 3613--3696  Score: 150
    Period size: 32  Copynumber: 2.6  Consensus size: 32

       3603 AGCCACGCGG

                *                           
       3613 AGCCTCCCCACTAGGACGGCTCTGCCACGGCT
          1 AGCCGCCCCACTAGGACGGCTCTGCCACGGCT

                                            
       3645 AGCCGCCCCACTAGGACGGCTCTGCCACGGCT
          1 AGCCGCCCCACTAGGACGGCTCTGCCACGGCT

                           *    
       3677 AGCCGCCCCACTAGGGCGGC
          1 AGCCGCCCCACTAGGACGGC

       3697 AAGGCTTTTT


Statistics
Matches: 50,  Mismatches: 2, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  32   50  1.00

ACGTcount: A:0.15, C:0.44, G:0.29, T:0.12


Consensus pattern (32 bp):   
AGCCGCCCCACTAGGACGGCTCTGCCACGGCT

Found at i:3822 original size:33 final size:32

Alignment explanation


    Indices: 3761--3872  Score: 102
    Period size: 33  Copynumber: 3.4  Consensus size: 32

       3751 TAGTACCGGT

                         *     *  **          
       3761 GCCGCCCCAGGGGGGGCGGTCTATCCATGGTAGG
          1 GCCGCCCCA-GGGAGGCGGCCTGGCCATGGTA-G

                                            
       3795 GCCGCCCCAGGGAGGCGGCCTGGCCATGGTAG
          1 GCCGCCCCAGGGAGGCGGCCTGGCCATGGTAG

                        *        *              
       3827 TGCCGCCCCA-GTAGGGCGGCTTGGCCATGGCTCA-
          1 -GCCGCCCCAGGGA-GGCGGCCTGGCCATGG-T-AG

                        
       3861 GCCGCCCCAGGG
          1 GCCGCCCCAGGG

       3873 GGACGGCACC


Statistics
Matches: 66,  Mismatches: 7, Indels: 10
        0.80            0.08        0.12

Matches are distributed among these distances:
  32    3  0.05
  33   51  0.77
  34   11  0.17
  35    1  0.02

ACGTcount: A:0.12, C:0.35, G:0.41, T:0.12


Consensus pattern (32 bp):   
GCCGCCCCAGGGAGGCGGCCTGGCCATGGTAG
Done.