Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000900.1 Corchorus olitorius cultivar O-4 contig00900, 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: 1916
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41


Found at i:1057 original size:31 final size:30

Alignment explanation


    Indices: 1019--1083  Score: 76
    Period size: 31  Copynumber: 2.1  Consensus size: 30

       1009 TTTGTAAAAC

                        *             *    
       1019 TTTTGAAACACCTATTATACCCTTATTTAAT
          1 TTTTGAAACACCAATTATACCCTTA-CTAAT

                    **         *          
       1050 TTTTGAAATGCCAATTATATCCTTACTAAT
          1 TTTTGAAACACCAATTATACCCTTACTAAT

                
       1080 TTTT
          1 TTTT

       1084 AATTTTATAT


Statistics
Matches: 29,  Mismatches: 5, Indels: 1
        0.83            0.14        0.03

Matches are distributed among these distances:
  30    8  0.28
  31   21  0.72

ACGTcount: A:0.31, C:0.17, G:0.05, T:0.48


Consensus pattern (30 bp):   
TTTTGAAACACCAATTATACCCTTACTAAT

Found at i:1794 original size:33 final size:33

Alignment explanation


    Indices: 1752--1822  Score: 115
    Period size: 33  Copynumber: 2.2  Consensus size: 33

       1742 TCAAAAAAGA

                                *            
       1752 TGATGGTGCTATTGAAAAGATGGATAATGCTAT
          1 TGATGGTGCTATTGAAAAGACGGATAATGCTAT

                                     **      
       1785 TGATGGTGCTATTGAAAAGACGGATGGTGCTAT
          1 TGATGGTGCTATTGAAAAGACGGATAATGCTAT

                 
       1818 TGATG
          1 TGATG

       1823 TGACGGAAGA


Statistics
Matches: 35,  Mismatches: 3, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  33   35  1.00

ACGTcount: A:0.30, C:0.07, G:0.31, T:0.32


Consensus pattern (33 bp):   
TGATGGTGCTATTGAAAAGACGGATAATGCTAT
Done.