Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01009332.1 Corchorus capsularis cultivar CVL-1 contig09353, 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: 4232
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31


Found at i:1700 original size:17 final size:17

Alignment explanation


    Indices: 1675--1709  Score: 52
    Period size: 17  Copynumber: 2.1  Consensus size: 17

       1665 TGCATAATGT

                             
       1675 TAATATGCCAACAAGAA
          1 TAATATGCCAACAAGAA

                *     *      
       1692 TAATGTGCCACCAAGAA
          1 TAATATGCCAACAAGAA

             
       1709 T
          1 T

       1710 GCACTTTTTC


Statistics
Matches: 16,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  17   16  1.00

ACGTcount: A:0.46, C:0.20, G:0.14, T:0.20


Consensus pattern (17 bp):   
TAATATGCCAACAAGAA

Found at i:2550 original size:27 final size:27

Alignment explanation


    Indices: 2520--2655  Score: 236
    Period size: 27  Copynumber: 5.0  Consensus size: 27

       2510 CATAGGCGAG

                                 *     
       2520 GTGGGAGGATCCACTGCTGGGATCGAA
          1 GTGGGAGGATCCACTGCTGGGGTCGAA

                                       
       2547 GTGGGAGGATCCACTGCTGGGGTCGAA
          1 GTGGGAGGATCCACTGCTGGGGTCGAA

              *                        
       2574 GTAGGAGGATCCACTGCTGGGGTCGAA
          1 GTGGGAGGATCCACTGCTGGGGTCGAA

                         *             
       2601 GTGGGAGGATCCAATGCTGGGGTCGAA
          1 GTGGGAGGATCCACTGCTGGGGTCGAA

                           *           
       2628 GTGGGAGGATCCACTTCTGGGGTCGAA
          1 GTGGGAGGATCCACTGCTGGGGTCGAA

             
       2655 G
          1 G

       2656 ACACATGAAC


Statistics
Matches: 103,  Mismatches: 6, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  27  103  1.00

ACGTcount: A:0.21, C:0.18, G:0.43, T:0.19


Consensus pattern (27 bp):   
GTGGGAGGATCCACTGCTGGGGTCGAA

Done.