Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013085.1 Corchorus olitorius cultivar O-4 contig13118, 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: 25754
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30


Found at i:2086 original size:15 final size:16

Alignment explanation


    Indices: 2053--2092  Score: 55
    Period size: 15  Copynumber: 2.6  Consensus size: 16

       2043 TTTGTTTGTT

                            
       2053 TTGTTTTCTAGTATAA
          1 TTGTTTTCTAGTATAA

                        *   
       2069 TTGTTTTCT-GTTTAA
          1 TTGTTTTCTAGTATAA

               *     
       2084 TTGCTTTCT
          1 TTGTTTTCT

       2093 TTCAACCTCT


Statistics
Matches: 22,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  15   13  0.59
  16    9  0.41

ACGTcount: A:0.15, C:0.10, G:0.12, T:0.62


Consensus pattern (16 bp):   
TTGTTTTCTAGTATAA

Found at i:19626 original size:21 final size:21

Alignment explanation


    Indices: 19602--19642  Score: 57
    Period size: 21  Copynumber: 2.0  Consensus size: 21

      19592 ATTTGCAGAA

                                  
      19602 GCAGC-TGTAGCAGCAGCTGCT
          1 GCAGCTTG-AGCAGCAGCTGCT

                       *        
      19623 GCAGCTTGAGCTGCAGCTGC
          1 GCAGCTTGAGCAGCAGCTGC

      19643 AGCTGCCTCT


Statistics
Matches: 18,  Mismatches: 1, Indels: 2
        0.86            0.05        0.10

Matches are distributed among these distances:
  21   16  0.89
  22    2  0.11

ACGTcount: A:0.17, C:0.29, G:0.34, T:0.20


Consensus pattern (21 bp):   
GCAGCTTGAGCAGCAGCTGCT

Found at i:25106 original size:13 final size:13

Alignment explanation


    Indices: 25077--25110  Score: 52
    Period size: 13  Copynumber: 2.7  Consensus size: 13

      25067 ATTATAGAAT

                         
      25077 TTATTTA-TTTAC
          1 TTATTTATTTTAC

                       * 
      25089 TTATTTATTTTTC
          1 TTATTTATTTTAC

                     
      25102 TTATTTATT
          1 TTATTTATT

      25111 GAATTATAGT


Statistics
Matches: 20,  Mismatches: 1, Indels: 1
        0.91            0.05        0.05

Matches are distributed among these distances:
  12    7  0.35
  13   13  0.65

ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74


Consensus pattern (13 bp):   
TTATTTATTTTAC
Done.