Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g03097.F3

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: 5555
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28


Found at i:3121 original size:24 final size:24

Alignment explanation


    Indices: 3094--3363  Score: 342
    Period size: 24  Copynumber: 11.0  Consensus size: 24

       3084 CCAGCAGCGT

                      *    *        
       3094 CAGTTGGAGCTTCAGAGGCAGCAG
          1 CAGTTGGAGCATCAGCGGCAGCAG

                                    
       3118 CAGTTGGAGCATCAGCGGCAGCAG
          1 CAGTTGGAGCATCAGCGGCAGCAG

                                    
       3142 CAGTTGGAGCATCAGCGGCAGCAG
          1 CAGTTGGAGCATCAGCGGCAGCAG

                                    
       3166 CAGTTGGAGCATCAGCGGCAGCAG
          1 CAGTTGGAGCATCAGCGGCAGCAG

              *                     
       3190 CAATTGGAGCATCAGCGGCAGCAG
          1 CAGTTGGAGCATCAGCGGCAGCAG

              *                     
       3214 CAATTGGAGCATCAGCGGCAGCAG
          1 CAGTTGGAGCATCAGCGGCAGCAG

              *                     
       3238 CAATTGGAGCATCAGCGGCAGCAG
          1 CAGTTGGAGCATCAGCGGCAGCAG

                      *     *   *     
       3262 CAGTTGGAGCTTCAGCAGCATCAACG
          1 CAGTTGGAGCATCAGCGGCAGC-A-G

              *        *             
       3288 TCTGTTGGAGCTTCAGCGGCAGCAG
          1 -CAGTTGGAGCATCAGCGGCAGCAG

                    * *     *   *     
       3313 CAGTTGGAACTTCAGCAGCATCAAAG
          1 CAGTTGGAGCATCAGCGGCAGC--AG

                     * *             
       3339 ACAGTTGGAACTTCAGCGGCAGCAG
          1 -CAGTTGGAGCATCAGCGGCAGCAG

       3364 GAGCTTCGTC


Statistics
Matches: 224,  Mismatches: 16, Indels: 11
        0.89            0.06        0.04

Matches are distributed among these distances:
  24  177  0.79
  25    4  0.02
  26    4  0.02
  27   39  0.17

ACGTcount: A:0.27, C:0.24, G:0.33, T:0.16


Consensus pattern (24 bp):   
CAGTTGGAGCATCAGCGGCAGCAG

Done.