Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01002463.1 Corchorus capsularis cultivar CVL-1 contig02469, 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, 636

Length: 1061
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40


Found at i:18 original size:9 final size:9

Alignment explanation


    Indices: 1--30  Score: 51
    Period size: 9  Copynumber: 3.3  Consensus size: 9

                     
          1 GGTATCATC
          1 GGTATCATC

               *     
         10 GGTCTCATC
          1 GGTATCATC

                     
         19 GGTATCATC
          1 GGTATCATC

               
         28 GGT
          1 GGT

         31 TTTAGTATAA


Statistics
Matches: 19,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
   9   19  1.00

ACGTcount: A:0.17, C:0.23, G:0.27, T:0.33


Consensus pattern (9 bp):   
GGTATCATC

Found at i:54 original size:27 final size:27

Alignment explanation


    Indices: 16--124  Score: 146
    Period size: 27  Copynumber: 4.0  Consensus size: 27

          6 CATCGGTCTC

                           *           
         16 ATCGGTATCATCGGTTTTAGTATAAGT
          1 ATCGGTATCATCGGTATTAGTATAAGT

                           *           
         43 ATCGGTATCATCGGTTTTAGTATAAGT
          1 ATCGGTATCATCGGTATTAGTATAAGT

                   * * *           *   
         70 ATCGGTACCCTTGGTATTAGTATTAGT
          1 ATCGGTATCATCGGTATTAGTATAAGT

                         *   *         
         97 ATCGGTATCATCGCTATGAGTATAAGT
          1 ATCGGTATCATCGGTATTAGTATAAGT

             
        124 A
          1 A

        125 AAAATCACTA


Statistics
Matches: 71,  Mismatches: 11, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  27   71  1.00

ACGTcount: A:0.27, C:0.13, G:0.22, T:0.39


Consensus pattern (27 bp):   
ATCGGTATCATCGGTATTAGTATAAGT

Found at i:615 original size:18 final size:18

Alignment explanation


    Indices: 592--627  Score: 72
    Period size: 18  Copynumber: 2.0  Consensus size: 18

        582 GGATCATATA

                              
        592 GTTTAGGCAAGTATTCTT
          1 GTTTAGGCAAGTATTCTT

                              
        610 GTTTAGGCAAGTATTCTT
          1 GTTTAGGCAAGTATTCTT

        628 TTTGAGTTTT


Statistics
Matches: 18,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  18   18  1.00

ACGTcount: A:0.22, C:0.11, G:0.22, T:0.44


Consensus pattern (18 bp):   
GTTTAGGCAAGTATTCTT
Done.