Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_14757

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, 446

Length: 744
ACGTcount: A:0.33, C:0.22, G:0.28, T:0.17


Found at i:30 original size:6 final size:6

Alignment explanation


    Indices: 19--47  Score: 58
    Period size: 6  Copynumber: 4.8  Consensus size: 6

          9 AAGCTTATCC

                                             
         19 CGGTCT CGGTCT CGGTCT CGGTCT CGGTC
          1 CGGTCT CGGTCT CGGTCT CGGTCT CGGTC

         48 CCCGTCATAC


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:0.00, C:0.34, G:0.34, T:0.31


Consensus pattern (6 bp):   
CGGTCT

Found at i:158 original size:30 final size:30

Alignment explanation


    Indices: 95--160  Score: 82
    Period size: 30  Copynumber: 2.2  Consensus size: 30

         85 AGAGAGCACA

                *                       * 
         95 GCCGGAGAAGCCGTTCATCCTCTCCACGTC
          1 GCCGCAGAAGCCGTTCATCCTCTCCACGAC

                                            
        125 GCCGCAGAAGCCGTTC-TCCATCT-CATCGAC
          1 GCCGCAGAAGCCGTTCATCC-TCTCCA-CGAC

                  
        155 GCCGCA
          1 GCCGCA

        161 AAAGTCGATC


Statistics
Matches: 32,  Mismatches: 2, Indels: 4
        0.84            0.05        0.11

Matches are distributed among these distances:
  29    5  0.16
  30   27  0.84

ACGTcount: A:0.18, C:0.41, G:0.23, T:0.18


Consensus pattern (30 bp):   
GCCGCAGAAGCCGTTCATCCTCTCCACGAC
Done.