Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015630.1 Corchorus olitorius cultivar O-4 contig15663, 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: 7190
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32


Found at i:130 original size:68 final size:68

Alignment explanation


    Indices: 4--210  Score: 265
    Period size: 68  Copynumber: 3.0  Consensus size: 68

          1 TTA

                                                                 * *         
          4 GGTAACTCCTGCCCAGGTCTTGTCCTGTAATTTGCGCTACCTCAAGC-ACA-AGTTCGGGACAGG
          1 GGTAACTCCTGCCCAGGTCTTGTCCTGTAATTTGCGCT-CCTCAA-CAACACAATCCGGGACAGG

                 
         67 ACTTG
         64 ACTTG

                     *                             *                         
         72 GGTAACTCCCGCCCAGGTCTTGTCCTGTAATTTGCGCTCTTCAACAACACAATCCGGGACAGGAC
          1 GGTAACTCCTGCCCAGGTCTTGTCCTGTAATTTGCGCTCCTCAACAACACAATCCGGGACAGGAC

               
        137 TTG
         66 TTG

                           *              *     **         * *       *       
        140 GGTAACTCCTGCCCATGTCTTGTCCTGTATTTTTGCATTCCTCAACAGCCCAAGTCCTGGACAGG
          1 GGTAACTCCTGCCCAGGTCTTGTCCTGTA-ATTTGCGCTCCTCAACAACACAA-TCCGGGACAGG

                 
        205 ACTTG
         64 ACTTG

             
        210 G
          1 G

        211 CCAAGATCTG


Statistics
Matches: 122,  Mismatches: 13, Indels: 6
        0.87            0.09        0.04

Matches are distributed among these distances:
  66    1  0.01
  67    8  0.07
  68   80  0.66
  69   17  0.14
  70   16  0.13

ACGTcount: A:0.20, C:0.29, G:0.23, T:0.28


Consensus pattern (68 bp):   
GGTAACTCCTGCCCAGGTCTTGTCCTGTAATTTGCGCTCCTCAACAACACAATCCGGGACAGGAC
TTG

Found at i:5854 original size:13 final size:13

Alignment explanation


    Indices: 5836--5863  Score: 56
    Period size: 13  Copynumber: 2.2  Consensus size: 13

       5826 ATTTTTTTTT

                         
       5836 TAAAGTATTCACC
          1 TAAAGTATTCACC

                         
       5849 TAAAGTATTCACC
          1 TAAAGTATTCACC

              
       5862 TA
          1 TA

       5864 TTTCCTCCCC


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   15  1.00

ACGTcount: A:0.39, C:0.21, G:0.07, T:0.32


Consensus pattern (13 bp):   
TAAAGTATTCACC
Done.