Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013507.1 Corchorus olitorius cultivar O-4 contig13540, 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: 15058
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32


Found at i:8800 original size:26 final size:25

Alignment explanation


    Indices: 8756--8804  Score: 62
    Period size: 26  Copynumber: 1.9  Consensus size: 25

       8746 ATGATTTAGG

                      *   *           
       8756 GGTTACTAACTCCCTTTTTCTTTTGA
          1 GGTTACTAACACCCATTTT-TTTTGA

                        *          
       8782 GGTTACTAACACTCATTTTTTTT
          1 GGTTACTAACACCCATTTTTTTT

       8805 CAGAGGGACA


Statistics
Matches: 20,  Mismatches: 3, Indels: 1
        0.83            0.12        0.04

Matches are distributed among these distances:
  25    4  0.20
  26   16  0.80

ACGTcount: A:0.18, C:0.20, G:0.10, T:0.51


Consensus pattern (25 bp):   
GGTTACTAACACCCATTTTTTTTGA

Found at i:11951 original size:38 final size:38

Alignment explanation


    Indices: 11900--11986  Score: 165
    Period size: 38  Copynumber: 2.3  Consensus size: 38

      11890 CAAACATATG

                              *                   
      11900 CTCCATTTGCTATCTTCATCTGTGCTTCCTCCACTTGT
          1 CTCCATTTGCTATCTTCACCTGTGCTTCCTCCACTTGT

                                                  
      11938 CTCCATTTGCTATCTTCACCTGTGCTTCCTCCACTTGT
          1 CTCCATTTGCTATCTTCACCTGTGCTTCCTCCACTTGT

                       
      11976 CTCCATTTGCT
          1 CTCCATTTGCT

      11987 TGTAATGCTC


Statistics
Matches: 48,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  38   48  1.00

ACGTcount: A:0.10, C:0.36, G:0.10, T:0.44


Consensus pattern (38 bp):   
CTCCATTTGCTATCTTCACCTGTGCTTCCTCCACTTGT
Done.