Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga09g02423.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: 5217
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28


Found at i:368 original size:39 final size:39

Alignment explanation


    Indices: 312--459  Score: 206
    Period size: 39  Copynumber: 3.8  Consensus size: 39

        302 CGCCCTCCTC

                                       *           
        312 CTCCTTCATCCACTCCTCCAATCAGGCGCTCGAGTTATA
          1 CTCCTTCATCCACTCCTCCAATCAGGCCCTCGAGTTATA

                      * *                  *       
        351 CTCCTTCATCTAGTCCTCCAATCAGGCCCTCCAGTTATA
          1 CTCCTTCATCCACTCCTCCAATCAGGCCCTCGAGTTATA

                                     *           * 
        390 CTCCTTCATCCACTCCTCCAATCAGACCCTCGAGTTACA
          1 CTCCTTCATCCACTCCTCCAATCAGGCCCTCGAGTTATA

                 *    *   *          *     
        429 CTCCTCCATCTACTACTCCAATCAGACCCTC
          1 CTCCTTCATCCACTCCTCCAATCAGGCCCTC

        460 AAGGGTAAAT


Statistics
Matches: 97,  Mismatches: 12, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  39   97  1.00

ACGTcount: A:0.22, C:0.42, G:0.09, T:0.28


Consensus pattern (39 bp):   
CTCCTTCATCCACTCCTCCAATCAGGCCCTCGAGTTATA

Found at i:402 original size:78 final size:78

Alignment explanation


    Indices: 312--459  Score: 233
    Period size: 78  Copynumber: 1.9  Consensus size: 78

        302 CGCCCTCCTC

                                     * *         *      *      * *          *
        312 CTCCTTCATCCACTCCTCCAATCAGGCGCTCGAGTTATACTCCTTCATCTAGTCCTCCAATCAGG
          1 CTCCTTCATCCACTCCTCCAATCAGACCCTCGAGTTACACTCCTCCATCTACTACTCCAATCAGA

                         
        377 CCCTCCAGTTATA
         66 CCCTCCAGTTATA

                                                                             
        390 CTCCTTCATCCACTCCTCCAATCAGACCCTCGAGTTACACTCCTCCATCTACTACTCCAATCAGA
          1 CTCCTTCATCCACTCCTCCAATCAGACCCTCGAGTTACACTCCTCCATCTACTACTCCAATCAGA

                 
        455 CCCTC
         66 CCCTC

        460 AAGGGTAAAT


Statistics
Matches: 63,  Mismatches: 7, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  78   63  1.00

ACGTcount: A:0.22, C:0.42, G:0.09, T:0.28


Consensus pattern (78 bp):   
CTCCTTCATCCACTCCTCCAATCAGACCCTCGAGTTACACTCCTCCATCTACTACTCCAATCAGA
CCCTCCAGTTATA
Done.