Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01000590.1 Corchorus capsularis cultivar CVL-1 contig00590, 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: 5890
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32


Found at i:5486 original size:33 final size:33

Alignment explanation


    Indices: 5396--5488  Score: 123
    Period size: 33  Copynumber: 2.8  Consensus size: 33

       5386 GGCGCGAGTG

                          *           * *    
       5396 ACCGGCCACGCGACTTGGAGATGCCCACGCAAC
          1 ACCGGCCACGCGACATGGAGATGCCCGCCCAAC

                    *                      * 
       5429 ACCGGCCATGCGACATGGAGATGCCCGCCCATC
          1 ACCGGCCACGCGACATGGAGATGCCCGCCCAAC

                              **       
       5462 ACCGGCCACGCGACATGGCCATGCCCG
          1 ACCGGCCACGCGACATGGAGATGCCCG

       5489 GTCACACCCG


Statistics
Matches: 52,  Mismatches: 8, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  33   52  1.00

ACGTcount: A:0.22, C:0.41, G:0.28, T:0.10


Consensus pattern (33 bp):   
ACCGGCCACGCGACATGGAGATGCCCGCCCAAC

Found at i:5500 original size:33 final size:32

Alignment explanation


    Indices: 5396--5536  Score: 113
    Period size: 33  Copynumber: 4.3  Consensus size: 32

       5386 GGCGCGAGTG

                          *   **       *  *  
       5396 ACCGGCCACGCGACTTGGAGATGCCCACGCAAC
          1 ACCGGCCACGCGACATGGCCATGCCC-GGCCAC

                    *         **       *     
       5429 ACCGGCCATGCGACATGGAGATGCCCGCCCATC
          1 ACCGGCCACGCGACATGGCCATGCCCGGCCA-C

                                        *   
       5462 ACCGGCCACGCGACATGGCCATGCCCGGTCAC
          1 ACCGGCCACGCGACATGGCCATGCCCGGCCAC

                      **          *           
       5494 ACCCGGCCACTTGAC-TCGGCCTTGCCCGGCCAC
          1 A-CCGGCCACGCGACAT-GGCCATGCCCGGCCAC

                      
       5527 AACCGGCCAC
          1 -ACCGGCCAC

       5537 ACGATCCTTT


Statistics
Matches: 90,  Mismatches: 14, Indels: 8
        0.80            0.12        0.07

Matches are distributed among these distances:
  32    5  0.06
  33   84  0.93
  34    1  0.01

ACGTcount: A:0.20, C:0.43, G:0.26, T:0.11


Consensus pattern (32 bp):   
ACCGGCCACGCGACATGGCCATGCCCGGCCAC
Done.