Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01007325.1 Corchorus capsularis cultivar CVL-1 contig07346, 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: 19348
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31


Found at i:5771 original size:23 final size:23

Alignment explanation


    Indices: 5695--5771  Score: 59
    Period size: 23  Copynumber: 3.2  Consensus size: 23

       5685 AAAAAACAAT

                        *          
       5695 AAAAGATTAATCCAAAGAATGCC
          1 AAAAGATTAATCAAAAGAATGCC

                           *        * *
       5718 AAAAGCAATATATATGAAAA-AA-ACA
          1 AAAAG--AT-TA-ATCAAAAGAATGCC

                                    
       5743 ATAAAGATTAATCAAAAGAATGCC
          1 A-AAAGATTAATCAAAAGAATGCC

                 
       5767 AAAAG
          1 AAAAG

       5772 CAATACTTAT


Statistics
Matches: 40,  Mismatches: 7, Indels: 14
        0.66            0.11        0.23

Matches are distributed among these distances:
  22    6  0.15
  23   13  0.32
  24    4  0.10
  25    4  0.10
  26    8  0.20
  27    5  0.12

ACGTcount: A:0.60, C:0.12, G:0.12, T:0.17


Consensus pattern (23 bp):   
AAAAGATTAATCAAAAGAATGCC

Found at i:11175 original size:20 final size:21

Alignment explanation


    Indices: 11123--11176  Score: 101
    Period size: 21  Copynumber: 2.6  Consensus size: 21

      11113 CGAGGCAAAC

                                 
      11123 CACATGGGGCGCCAAGCATAG
          1 CACATGGGGCGCCAAGCATAG

                                 
      11144 CACATGGGGCGCCAAGCATAG
          1 CACATGGGGCGCCAAGCATAG

                         
      11165 CACAT-GGGCGCC
          1 CACATGGGGCGCC

      11177 CAGCGCTAAT


Statistics
Matches: 33,  Mismatches: 0, Indels: 1
        0.97            0.00        0.03

Matches are distributed among these distances:
  20    7  0.21
  21   26  0.79

ACGTcount: A:0.26, C:0.31, G:0.33, T:0.09


Consensus pattern (21 bp):   
CACATGGGGCGCCAAGCATAG
Done.