Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017303.1 Corchorus olitorius cultivar O-4 contig17336, 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: 6609
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33


Found at i:407 original size:21 final size:21

Alignment explanation


    Indices: 383--474  Score: 134
    Period size: 21  Copynumber: 4.4  Consensus size: 21

        373 CTTAGGCAAT

                                 
        383 TCCAATGAGCTTGAAACCTTC
          1 TCCAATGAGCTTGAAACCTTC

                                 
        404 TCCAATGAGCTTGAAACCTTC
          1 TCCAATGAGCTTGAAACCTTC

              *          *       
        425 TCAAATGAGCTTGGAACCTTC
          1 TCCAATGAGCTTGAAACCTTC

                                   
        446 TCCAATGAGCTT-AGAA-CTTGC
          1 TCCAATGAGCTTGA-AACCTT-C

                    
        467 TCCAATGA
          1 TCCAATGA

        475 TCTCCTAGCA


Statistics
Matches: 65,  Mismatches: 4, Indels: 4
        0.89            0.05        0.05

Matches are distributed among these distances:
  20    3  0.05
  21   62  0.95

ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28


Consensus pattern (21 bp):   
TCCAATGAGCTTGAAACCTTC

Found at i:5060 original size:20 final size:20

Alignment explanation


    Indices: 5035--5072  Score: 58
    Period size: 20  Copynumber: 1.9  Consensus size: 20

       5025 ATAAATAATA

                   *            
       5035 AATTAATTTATATATTTATG
          1 AATTAATATATATATTTATG

                         *    
       5055 AATTAATATATATTTTTA
          1 AATTAATATATATATTTA

       5073 ATAATCAAAA


Statistics
Matches: 16,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  20   16  1.00

ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55


Consensus pattern (20 bp):   
AATTAATATATATATTTATG
Done.