Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_08620

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, 649

Length: 1083
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22


Found at i:685 original size:6 final size:6

Alignment explanation


    Indices: 674--702  Score: 58
    Period size: 6  Copynumber: 4.8  Consensus size: 6

        664 TACCCATGGG

                                             
        674 AAGAAC AAGAAC AAGAAC AAGAAC AAGAA
          1 AAGAAC AAGAAC AAGAAC AAGAAC AAGAA

        703 AACAAACAAC


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   23  1.00

ACGTcount: A:0.69, C:0.14, G:0.17, T:0.00


Consensus pattern (6 bp):   
AAGAAC

Found at i:710 original size:18 final size:18

Alignment explanation


    Indices: 674--711  Score: 51
    Period size: 18  Copynumber: 2.1  Consensus size: 18

        664 TACCCATGGG

                          *   
        674 AAGAACAAGAACAAGAAC
          1 AAGAACAAGAACAAAAAC

                               
        692 AAGAACAAGAA-AACAAAC
          1 AAGAACAAGAACAA-AAAC

              
        710 AA
          1 AA

        712 CAGCGAAATG


Statistics
Matches: 18,  Mismatches: 1, Indels: 2
        0.86            0.05        0.10

Matches are distributed among these distances:
  17    2  0.11
  18   16  0.89

ACGTcount: A:0.71, C:0.16, G:0.13, T:0.00


Consensus pattern (18 bp):   
AAGAACAAGAACAAAAAC
Done.