Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga05g02036.F1

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: 2543
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31


Found at i:2105 original size:66 final size:66

Alignment explanation


    Indices: 1984--2118  Score: 182
    Period size: 66  Copynumber: 2.0  Consensus size: 66

       1974 GATCCAAGCT

                   *              *  *                        *     *        
       1984 CCAGACCTGCTTCCATCGATCCTAATTATAGAGCGGATCCAAGCTCCAGATCTGCTTCCATTGAT
          1 CCAGACCCGCTTCCATCGATCCCAACTATAGAGCGGATCCAAGCTCCAGAGCTGCTCCCATTGAT

             
       2049 C
         66 C

                            *                        *     *                 
       2050 CCAGACCCGCTTCCATTGATCCCAACTATAGAGCGGATCC-GGCCTCTAGAGCTGCTCCCATTGA
          1 CCAGACCCGCTTCCATCGATCCCAACTATAGAGCGGATCCAAG-CTCCAGAGCTGCTCCCATTGA

              
       2114 TC
         65 TC

               
       2116 CCA
          1 CCA

       2119 ATTATAGAGT


Statistics
Matches: 60,  Mismatches: 8, Indels: 2
        0.86            0.11        0.03

Matches are distributed among these distances:
  65    1  0.02
  66   59  0.98

ACGTcount: A:0.23, C:0.35, G:0.18, T:0.24


Consensus pattern (66 bp):   
CCAGACCCGCTTCCATCGATCCCAACTATAGAGCGGATCCAAGCTCCAGAGCTGCTCCCATTGAT
C

Found at i:2113 original size:45 final size:45

Alignment explanation


    Indices: 2062--2263  Score: 282
    Period size: 45  Copynumber: 4.5  Consensus size: 45

       2052 AGACCCGCTT

                         *                          *     
       2062 CCATTGATCCCAACTATAGAGCGGATCCG-GCCTCTAGAGCTGCTC
          1 CCATTGATCCCAATTATAGAGCGGATCCGAG-CTCTAGAGGTGCTC

                                 *                 *    *
       2107 CCATTGATCCCAATTATAGAGTGGATCCGAGCTCTAGAGTTGCTT
          1 CCATTGATCCCAATTATAGAGCGGATCCGAGCTCTAGAGGTGCTC

                                        *   *           *
       2152 CCATTGATCCCAATTATAGAGCGGATCCAAGCGCTAGAGGTGCTT
          1 CCATTGATCCCAATTATAGAGCGGATCCGAGCTCTAGAGGTGCTC

                   *                                      
       2197 CCATTGAGCCCAATTATAGAGCGGATCCGAG-TGCTAGAGGTGCTC
          1 CCATTGATCCCAATTATAGAGCGGATCCGAGCT-CTAGAGGTGCTC

             *                    
       2242 CGATTGATCCCAATTATAGAGC
          1 CCATTGATCCCAATTATAGAGC

       2264 TGCTCCAGAG


Statistics
Matches: 141,  Mismatches: 14, Indels: 4
        0.89            0.09        0.03

Matches are distributed among these distances:
  45  140  0.99
  46    1  0.01

ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25


Consensus pattern (45 bp):   
CCATTGATCCCAATTATAGAGCGGATCCGAGCTCTAGAGGTGCTC

Done.