Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017103.1 Corchorus olitorius cultivar O-4 contig17136, 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: 17994
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.31


Found at i:3366 original size:24 final size:24

Alignment explanation


    Indices: 3334--3390  Score: 107
    Period size: 24  Copynumber: 2.4  Consensus size: 24

       3324 AACTACAAAC

                                    
       3334 CAAA-TAAACAAACAAACAAATTA
          1 CAAATTAAACAAACAAACAAATTA

                                    
       3357 CAAATTAAACAAACAAACAAATTA
          1 CAAATTAAACAAACAAACAAATTA

                      
       3381 CAAATTAAAC
          1 CAAATTAAAC

       3391 TCATATTTCG


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

Matches are distributed among these distances:
  23    4  0.12
  24   29  0.88

ACGTcount: A:0.67, C:0.18, G:0.00, T:0.16


Consensus pattern (24 bp):   
CAAATTAAACAAACAAACAAATTA

Found at i:10997 original size:54 final size:55

Alignment explanation


    Indices: 10925--11035  Score: 215
    Period size: 54  Copynumber: 2.0  Consensus size: 55

      10915 TGAAGAAATG

                                                                   
      10925 ATCAGAAAGGGAATGATTCCTAATTCTGTAGCATATGAAATGCAGAAGAGAATTT
          1 ATCAGAAAGGGAATGATTCCTAATTCTGTAGCATATGAAATGCAGAAGAGAATTT

                                                                   
      10980 ATCA-AAAGGGAATGATTCCTAATTCTGTAGCATATGAAATGCAGAAGAGAATTT
          1 ATCAGAAAGGGAATGATTCCTAATTCTGTAGCATATGAAATGCAGAAGAGAATTT

              
      11034 AT
          1 AT

      11036 TAACAAGTGG


Statistics
Matches: 56,  Mismatches: 0, Indels: 1
        0.98            0.00        0.02

Matches are distributed among these distances:
  54   52  0.93
  55    4  0.07

ACGTcount: A:0.41, C:0.11, G:0.21, T:0.28


Consensus pattern (55 bp):   
ATCAGAAAGGGAATGATTCCTAATTCTGTAGCATATGAAATGCAGAAGAGAATTT
Done.