Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021554.1 Corchorus olitorius cultivar O-4 contig21587, 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: 6924
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31


Found at i:3404 original size:21 final size:21

Alignment explanation


    Indices: 3378--3418  Score: 57
    Period size: 21  Copynumber: 2.0  Consensus size: 21

       3368 TTTAAACCCT

                                  
       3378 ATTGGAGAC-AAGTGGTACTAA
          1 ATTGGA-ACTAAGTGGTACTAA

                  *             
       3399 ATTGGATCTAAGTGGTACTA
          1 ATTGGAACTAAGTGGTACTA

       3419 GGGTTTATAA


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

Matches are distributed among these distances:
  20    1  0.06
  21   17  0.94

ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29


Consensus pattern (21 bp):   
ATTGGAACTAAGTGGTACTAA

Found at i:5760 original size:21 final size:21

Alignment explanation


    Indices: 5736--5799  Score: 112
    Period size: 21  Copynumber: 3.1  Consensus size: 21

       5726 CCTTAGGCAA

                                 
       5736 CTCCAATGAGCTTGAAACCTT
          1 CTCCAATGAGCTTGAAACCTT

                              *  
       5757 CTCCAATGAGCTTGAAACTTT
          1 CTCCAATGAGCTTGAAACCTT

                                 
       5778 CTCCAATGAGCTTGAAA-CTT
          1 CTCCAATGAGCTTGAAACCTT

              
       5798 CT
          1 CT

       5800 TTGTGAGTAT


Statistics
Matches: 41,  Mismatches: 2, Indels: 1
        0.93            0.05        0.02

Matches are distributed among these distances:
  20    4  0.10
  21   37  0.90

ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31


Consensus pattern (21 bp):   
CTCCAATGAGCTTGAAACCTT
Done.