Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023500.1 Corchorus olitorius cultivar O-4 contig23533, 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: 12250
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31


Found at i:8281 original size:7 final size:7

Alignment explanation


    Indices: 8269--8293  Score: 50
    Period size: 7  Copynumber: 3.6  Consensus size: 7

       8259 CACTCTGATT

                   
       8269 CTTGCTG
          1 CTTGCTG

                   
       8276 CTTGCTG
          1 CTTGCTG

                   
       8283 CTTGCTG
          1 CTTGCTG

                
       8290 CTTG
          1 CTTG

       8294 AGATGCTTGT


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

Matches are distributed among these distances:
   7   18  1.00

ACGTcount: A:0.00, C:0.28, G:0.28, T:0.44


Consensus pattern (7 bp):   
CTTGCTG

Found at i:9793 original size:27 final size:28

Alignment explanation


    Indices: 9728--9801  Score: 87
    Period size: 28  Copynumber: 2.7  Consensus size: 28

       9718 AGTGAGCTTG

                *        *   *  *     * 
       9728 AAATTACCAAAATACCCTTGGATGTGCA
          1 AAATAACCAAAATGCCCCTGAATGTGAA

                *                       
       9756 AAATGACCAAAATGCCCCTGAATGT-AA
          1 AAATAACCAAAATGCCCCTGAATGTGAA

                               
       9783 AAATAACCAAAATGCCCCT
          1 AAATAACCAAAATGCCCCT

       9802 AGATGACCCT


Statistics
Matches: 40,  Mismatches: 6, Indels: 1
        0.85            0.13        0.02

Matches are distributed among these distances:
  27   19  0.47
  28   21  0.52

ACGTcount: A:0.43, C:0.24, G:0.12, T:0.20


Consensus pattern (28 bp):   
AAATAACCAAAATGCCCCTGAATGTGAA
Done.