Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01006188.1 Corchorus olitorius cultivar O-4 contig06213, 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: 2562
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.34


Found at i:22 original size:2 final size:2

Alignment explanation


    Indices: 11--47  Score: 60
    Period size: 2  Copynumber: 19.5  Consensus size: 2

          1 AATTTAGACT

                                                                      
         11 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T

         48 CAACTATCAA


Statistics
Matches: 33,  Mismatches: 0, Indels: 4
        0.89            0.00        0.11

Matches are distributed among these distances:
   1    2  0.06
   2   31  0.94

ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49


Consensus pattern (2 bp):   
TA

Found at i:1873 original size:2 final size:2

Alignment explanation


    Indices: 1862--1908  Score: 62
    Period size: 2  Copynumber: 24.5  Consensus size: 2

       1852 AATAATTACG

                                                      *        *          
       1862 AT AT -T AT AT AT AT AT AT AT AT AT AT AT CT AT AT CT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

                      
       1903 -T AT AT A
          1 AT AT AT A

       1909 AGTCTAAACT


Statistics
Matches: 39,  Mismatches: 4, Indels: 4
        0.83            0.09        0.09

Matches are distributed among these distances:
   1    2  0.05
   2   37  0.95

ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51


Consensus pattern (2 bp):   
AT

Done.