Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_30006

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, 604

Length: 1008
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26


Found at i:93 original size:18 final size:18

Alignment explanation


    Indices: 46--104  Score: 73
    Period size: 18  Copynumber: 3.3  Consensus size: 18

         36 CAGTGGAGGC

                *             
         46 AATACTAATACTAATACT
          1 AATAATAATACTAATACT

                *             
         64 AATACTAATACTAATACT
          1 AATAATAATACTAATACT

                  **     *    
         82 AATAATGGTACTACTACT
          1 AATAATAATACTAATACT

                 
        100 AATAA
          1 AATAA

        105 GCTTAGGAAA


Statistics
Matches: 37,  Mismatches: 4, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  18   37  1.00

ACGTcount: A:0.49, C:0.15, G:0.03, T:0.32


Consensus pattern (18 bp):   
AATAATAATACTAATACT

Found at i:100 original size:6 final size:6

Alignment explanation


    Indices: 46--85  Score: 80
    Period size: 6  Copynumber: 6.7  Consensus size: 6

         36 CAGTGGAGGC

                                                          
         46 AATACT AATACT AATACT AATACT AATACT AATACT AATA
          1 AATACT AATACT AATACT AATACT AATACT AATACT AATA

         86 ATGGTACTAC


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

Matches are distributed among these distances:
   6   34  1.00

ACGTcount: A:0.53, C:0.15, G:0.00, T:0.33


Consensus pattern (6 bp):   
AATACT
Done.