Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01012591.1 Corchorus capsularis cultivar CVL-1 contig12612, 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: 28214
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33


Found at i:2070 original size:34 final size:34

Alignment explanation


    Indices: 2024--2144  Score: 197
    Period size: 34  Copynumber: 3.6  Consensus size: 34

       2014 AGTGGGTTAT

                 *                            
       2024 AATAATTGGAAGACCCTGCCCAGTGGGTTGTGAA
          1 AATAACTGGAAGACCCTGCCCAGTGGGTTGTGAA

                   *                          
       2058 AATAACTAGAAGACCCTGCCCAGTGGGTTGTGAA
          1 AATAACTGGAAGACCCTGCCCAGTGGGTTGTGAA

                                  **         *
       2092 AATAACTGGAAGACCCTGCCCAACGGGTTGTGAT
          1 AATAACTGGAAGACCCTGCCCAGTGGGTTGTGAA

                               
       2126 AATAACTGGAAGACCCTGC
          1 AATAACTGGAAGACCCTGC

       2145 TAACGGGTTA


Statistics
Matches: 81,  Mismatches: 6, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  34   81  1.00

ACGTcount: A:0.31, C:0.21, G:0.26, T:0.21


Consensus pattern (34 bp):   
AATAACTGGAAGACCCTGCCCAGTGGGTTGTGAA

Found at i:25719 original size:15 final size:15

Alignment explanation


    Indices: 25699--25728  Score: 51
    Period size: 15  Copynumber: 2.0  Consensus size: 15

      25689 ATCAGGCTGC

                      *    
      25699 CACGATACACGATAT
          1 CACGATACACAATAT

                           
      25714 CACGATACACAATAT
          1 CACGATACACAATAT

      25729 TTTAACCGAT


Statistics
Matches: 14,  Mismatches: 1, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  15   14  1.00

ACGTcount: A:0.43, C:0.27, G:0.10, T:0.20


Consensus pattern (15 bp):   
CACGATACACAATAT

Found at i:27614 original size:29 final size:28

Alignment explanation


    Indices: 27556--27616  Score: 70
    Period size: 29  Copynumber: 2.1  Consensus size: 28

      27546 CCAAGCCTCA

                                     *  
      27556 TAAACCTGGAGCTTCTCTGAGTTTCTCC
          1 TAAACCTGGAGCTTCTCTGAGTTTCACC

                 *           *            
      27584 TAAACTTGGAGCTTTCTTTGAGTCTT-ACC
          1 TAAACCTGGAGC-TTCTCTGAGT-TTCACC

                
      27613 TAAA
          1 TAAA

      27617 ACCCTAGACA


Statistics
Matches: 28,  Mismatches: 3, Indels: 3
        0.82            0.09        0.09

Matches are distributed among these distances:
  28   11  0.39
  29   15  0.54
  30    2  0.07

ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38


Consensus pattern (28 bp):   
TAAACCTGGAGCTTCTCTGAGTTTCACC
Done.