Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga12g02771.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, 738

Length: 1230
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34


Found at i:595 original size:53 final size:53

Alignment explanation


    Indices: 459--647  Score: 197
    Period size: 52  Copynumber: 3.6  Consensus size: 53

        449 ATGTGATACA

                           *                        **         * 
        459 TGATTCCGTATAAGAACATAGCCGGGCTATGGCATTGGTACCATGTGATT-CG
          1 TGATTCCGTATAAGACCATAGCCGGGCTATGGCATTGGTATGATGTGATTATG

                                   *            *   *             
        511 T-ATTCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGATGTGATTATG
          1 TGATT-CCGTATAAGACCATAGCCGGGCTATGGCATTGGTATGATGTGATTATG

                                *     *                 * *      
        564 TGATTCCGTATAAGACCATATCCGGGATATGGCATTGGTATGATATCA-TATG
          1 TGATTCCGTATAAGACCATAGCCGGGCTATGGCATTGGTATGATGTGATTATG

               *     *         * **          
        616 TG-GTCCGTGTAAGACCATGGTAGGGCTATGGC
          1 TGATTCCGTATAAGACCATAGCCGGGCTATGGC

        648 TTCGGTGTGT


Statistics
Matches: 113,  Mismatches: 21, Indels: 7
        0.80            0.15        0.05

Matches are distributed among these distances:
  51   26  0.23
  52   46  0.41
  53   38  0.34
  54    3  0.03

ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30


Consensus pattern (53 bp):   
TGATTCCGTATAAGACCATAGCCGGGCTATGGCATTGGTATGATGTGATTATG

Found at i:646 original size:51 final size:52

Alignment explanation


    Indices: 516--653  Score: 129
    Period size: 53  Copynumber: 2.6  Consensus size: 52

        506 ATTCGTATTC

                            *                 *    * *         * 
        516 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGATGTGATTATGTGATT
          1 CCGTATAAGACCAT-GATGGGCTATGGCATCGGTATGATATCATTATGTGAGT

                                  *        *                      
        569 CCGTATAAGACCAT-ATCCGGGATATGGCATTGGTATGATATCA-TATGTG-GT
          1 CCGTATAAGACCATGAT--GGGCTATGGCATCGGTATGATATCATTATGTGAGT

                *          *            *     
        620 CCGTGTAAGACCATGGTAGGGCTATGGCTTCGGT
          1 CCGTATAAGACCATGAT-GGGCTATGGCATCGGT

        654 GTGTGATGTG


Statistics
Matches: 69,  Mismatches: 13, Indels: 8
        0.77            0.14        0.09

Matches are distributed among these distances:
  51   28  0.41
  52    7  0.10
  53   34  0.49

ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30


Consensus pattern (52 bp):   
CCGTATAAGACCATGATGGGCTATGGCATCGGTATGATATCATTATGTGAGT
Done.