Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_09743

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, 493

Length: 822
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29


Found at i:39 original size:21 final size:21

Alignment explanation


    Indices: 13--84  Score: 85
    Period size: 21  Copynumber: 3.4  Consensus size: 21

          3 GGAAGGGATT

                                 *
         13 GAGCAGTGGAAGGA-TCAATTA
          1 GAGCAGTGGAA-GATTCAATTG

                   *             
         34 GAGCAGTTGAAGATTCAATTG
          1 GAGCAGTGGAAGATTCAATTG

                               *  
         55 GAGCCA-TGGAAGATTCAACTG
          1 GAG-CAGTGGAAGATTCAATTG

                     
         76 GAGCAGTGG
          1 GAGCAGTGG

         85 TTGCATCAAG


Statistics
Matches: 44,  Mismatches: 4, Indels: 6
        0.81            0.07        0.11

Matches are distributed among these distances:
  20    4  0.09
  21   38  0.86
  22    2  0.05

ACGTcount: A:0.33, C:0.12, G:0.33, T:0.21


Consensus pattern (21 bp):   
GAGCAGTGGAAGATTCAATTG
Done.