Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024485.1 Corchorus olitorius cultivar O-4 contig24518, 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: 14893
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33


Found at i:2102 original size:103 final size:103

Alignment explanation


    Indices: 1918--2113  Score: 356
    Period size: 103  Copynumber: 1.9  Consensus size: 103

       1908 ACAGAAAATT

                                                                             
       1918 TTTGTTAAGTAAGCTGCTAAAACATAGGTGAAATACTAAAAACATTATAAAACAATAGTAAACAA
          1 TTTGTTAAGTAAGCTGCTAAAACATAGGTGAAATACTAAAAACATTATAAAACAATAGTAAACAA

                                   *              
       1983 TAAAAAGCTTTGAATATTAAGCATGAAACAGCAGAGGA
         66 TAAAAAGCTTTGAATATTAAGCAGGAAACAGCAGAGGA

                                               *                           * 
       2021 TTTGTTAAGTAAGCTGCTAAAACATAGGTGAAATAGTAAAAACATTATAAAACAATAGTAAACCA
          1 TTTGTTAAGTAAGCTGCTAAAACATAGGTGAAATACTAAAAACATTATAAAACAATAGTAAACAA

                       *                
       2086 TAAAAAGCTTTTAATATTAAGCAGGAAA
         66 TAAAAAGCTTTGAATATTAAGCAGGAAA

       2114 AAGTAAATTT


Statistics
Matches: 89,  Mismatches: 4, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
 103   89  1.00

ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26


Consensus pattern (103 bp):   
TTTGTTAAGTAAGCTGCTAAAACATAGGTGAAATACTAAAAACATTATAAAACAATAGTAAACAA
TAAAAAGCTTTGAATATTAAGCAGGAAACAGCAGAGGA

Found at i:3841 original size:14 final size:14

Alignment explanation


    Indices: 3822--3862  Score: 55
    Period size: 16  Copynumber: 2.8  Consensus size: 14

       3812 TTTCTCCTTG

                       *  
       3822 TTTTAACATGTTCA
          1 TTTTAACATGTCCA

                            
       3836 TTTTAACTTATGTCCA
          1 TTTTAAC--ATGTCCA

                       
       3852 TTTTAACATGT
          1 TTTTAACATGT

       3863 ATGCCTATAA


Statistics
Matches: 24,  Mismatches: 1, Indels: 4
        0.83            0.03        0.14

Matches are distributed among these distances:
  14   11  0.46
  16   13  0.54

ACGTcount: A:0.27, C:0.15, G:0.07, T:0.51


Consensus pattern (14 bp):   
TTTTAACATGTCCA
Done.