Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01006390.1 Corchorus olitorius cultivar O-4 contig06415, 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, 662

Length: 1104
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32


Found at i:447 original size:2 final size:2

Alignment explanation


    Indices: 440--477  Score: 76
    Period size: 2  Copynumber: 19.0  Consensus size: 2

        430 TATTGAACTC

                                                                    
        440 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

        478 GTTGTAACCC


Statistics
Matches: 36,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   36  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
AT

Found at i:759 original size:25 final size:25

Alignment explanation


    Indices: 725--773  Score: 98
    Period size: 25  Copynumber: 2.0  Consensus size: 25

        715 CCAAACAATC

                                     
        725 TTGAGCACTCTCGCTCGGTCTCTAA
          1 TTGAGCACTCTCGCTCGGTCTCTAA

                                    
        750 TTGAGCACTCTCGCTCGGTCTCTA
          1 TTGAGCACTCTCGCTCGGTCTCTA

        774 CAAACTAACA


Statistics
Matches: 24,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  25   24  1.00

ACGTcount: A:0.14, C:0.33, G:0.20, T:0.33


Consensus pattern (25 bp):   
TTGAGCACTCTCGCTCGGTCTCTAA

Found at i:1069 original size:2 final size:2

Alignment explanation


    Indices: 1062--1097  Score: 72
    Period size: 2  Copynumber: 18.0  Consensus size: 2

       1052 AATCCTAACA

                                                                 
       1062 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

       1098 GCATGAT


Statistics
Matches: 34,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   34  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
AT

Done.