Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011138.1 Corchorus olitorius cultivar O-4 contig11171, 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: 4609
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29


Found at i:881 original size:23 final size:22

Alignment explanation


    Indices: 851--896  Score: 74
    Period size: 23  Copynumber: 2.0  Consensus size: 22

        841 AAGGTTTCAG

                         *        
        851 TTTTATTCTTAAATTATCTTTT
          1 TTTTATTCTTAAACTATCTTTT

                                   
        873 TTTTCATTCTTAAACTATCTTTT
          1 TTTT-ATTCTTAAACTATCTTTT

             
        896 T
          1 T

        897 GAAGCAGATA


Statistics
Matches: 22,  Mismatches: 1, Indels: 1
        0.92            0.04        0.04

Matches are distributed among these distances:
  22    4  0.18
  23   18  0.82

ACGTcount: A:0.22, C:0.13, G:0.00, T:0.65


Consensus pattern (22 bp):   
TTTTATTCTTAAACTATCTTTT

Found at i:2776 original size:19 final size:19

Alignment explanation


    Indices: 2754--2810  Score: 96
    Period size: 19  Copynumber: 3.0  Consensus size: 19

       2744 TAAAATCCTT

                               
       2754 GCCTTGAACTTTTACTGAA
          1 GCCTTGAACTTTTACTGAA

                               
       2773 GCCTTGAACTTTTACTGAA
          1 GCCTTGAACTTTTACTGAA

                 *       *     
       2792 GCCTTTAACTTTTTCTGAA
          1 GCCTTGAACTTTTACTGAA

       2811 CCAGAACGGG


Statistics
Matches: 36,  Mismatches: 2, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  19   36  1.00

ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40


Consensus pattern (19 bp):   
GCCTTGAACTTTTACTGAA
Done.