Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_11703

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: 1821
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25


Found at i:1762 original size:36 final size:36

Alignment explanation


    Indices: 1714--1803  Score: 135
    Period size: 36  Copynumber: 2.5  Consensus size: 36

       1704 CGACCCCTCG

                   *                  **        
       1714 GACTGGAGCAAACTGTCCGAAGCTATTGGCACCGCT
          1 GACTGGAACAAACTGTCCGAAGCTATCAGCACCGCT

                                    *       *   
       1750 GACTGGAACAAACTGTCCGAAGCTCTCAGCACTGCT
          1 GACTGGAACAAACTGTCCGAAGCTATCAGCACCGCT

                              
       1786 GACTGGAACAAACTGTCC
          1 GACTGGAACAAACTGTCC

       1804 AAAGTTTTCA


Statistics
Matches: 49,  Mismatches: 5, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  36   49  1.00

ACGTcount: A:0.28, C:0.29, G:0.24, T:0.19


Consensus pattern (36 bp):   
GACTGGAACAAACTGTCCGAAGCTATCAGCACCGCT

Found at i:1815 original size:36 final size:36

Alignment explanation


    Indices: 1714--1815  Score: 125
    Period size: 36  Copynumber: 2.8  Consensus size: 36

       1704 CGACCCCTCG

                   *                *   *        
       1714 GACTGGAGCAAACTGTCCGAAGCTATT-GGCACCGCT
          1 GACTGGAACAAACTGTCCGAAG-TTTTCAGCACCGCT

                                  * *       *   
       1750 GACTGGAACAAACTGTCCGAAGCTCTCAGCACTGCT
          1 GACTGGAACAAACTGTCCGAAGTTTTCAGCACCGCT

                              *           
       1786 GACTGGAACAAACTGTCCAAAGTTTTCAGC
          1 GACTGGAACAAACTGTCCGAAGTTTTCAGC

       1816 TCTTAG


Statistics
Matches: 56,  Mismatches: 9, Indels: 2
        0.84            0.13        0.03

Matches are distributed among these distances:
  35    1  0.02
  36   55  0.98

ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21


Consensus pattern (36 bp):   
GACTGGAACAAACTGTCCGAAGTTTTCAGCACCGCT
Done.