Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga13g02574.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, 444

Length: 741
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26


Found at i:273 original size:30 final size:30

Alignment explanation


    Indices: 237--446  Score: 197
    Period size: 30  Copynumber: 7.3  Consensus size: 30

        227 TGATAAGAAG

                              *   *       
        237 ACCTCCACCTCCATCACCTAGGGGACCACC
          1 ACCTCCACCTCCATCACCAAGGAGACCACC

                                *          
        267 ACCTCCACCTCCATCACC-ACGAGGACCACC
          1 ACCTCCACCTCCATCACCAAGGA-GACCACC

                                     *    
        297 ACCTCCACCTCCAT---C------ATCACC
          1 ACCTCCACCTCCATCACCAAGGAGACCACC

                        *             *   
        318 ACCTCCACCTCCGTCACCAAGGAGACGACC
          1 ACCTCCACCTCCATCACCAAGGAGACCACC

                        **            *   
        348 ACCTCCACCTCCGCCACCAAGGAGACGACC
          1 ACCTCCACCTCCATCACCAAGGAGACCACC

                        **            *   
        378 ACCTCCACCTCCCCCACCAAGGAGACAACC
          1 ACCTCCACCTCCATCACCAAGGAGACCACC

                        **         *  *   
        408 ACCTCCACCTCCGCCACCAAGGAAACGACC
          1 ACCTCCACCTCCATCACCAAGGAGACCACC

                     
        438 ACCTCCACC
          1 ACCTCCACC

        447 ACCAAGAAGG


Statistics
Matches: 158,  Mismatches: 12, Indels: 20
        0.83            0.06        0.11

Matches are distributed among these distances:
  21   18  0.11
  24    1  0.01
  27    1  0.01
  29    2  0.01
  30  136  0.86

ACGTcount: A:0.27, C:0.52, G:0.11, T:0.10


Consensus pattern (30 bp):   
ACCTCCACCTCCATCACCAAGGAGACCACC

Found at i:318 original size:51 final size:51

Alignment explanation


    Indices: 263--359  Score: 151
    Period size: 51  Copynumber: 1.9  Consensus size: 51

        253 CCTAGGGGAC

                                    *                           
        263 CACCACCTCCACCTCCATCACC-ACGAGGACCACCACCTCCACCTCCATCAT
          1 CACCACCTCCACCTCCATCACCAAGGA-GACCACCACCTCCACCTCCATCAT

                            *             *               
        314 CACCACCTCCACCTCCGTCACCAAGGAGACGACCACCTCCACCTCC
          1 CACCACCTCCACCTCCATCACCAAGGAGACCACCACCTCCACCTCC

        360 GCCACCAAGG


Statistics
Matches: 42,  Mismatches: 3, Indels: 2
        0.89            0.06        0.04

Matches are distributed among these distances:
  51   39  0.93
  52    3  0.07

ACGTcount: A:0.25, C:0.55, G:0.08, T:0.12


Consensus pattern (51 bp):   
CACCACCTCCACCTCCATCACCAAGGAGACCACCACCTCCACCTCCATCAT

Found at i:379 original size:81 final size:81

Alignment explanation


    Indices: 237--389  Score: 218
    Period size: 81  Copynumber: 1.9  Consensus size: 81

        227 TGATAAGAAG

                              *   *                    *                     
        237 ACCTCCACCTCCATCACCTAGGGGACCACCACCTCCACCTCCATCACCACGAGGACCACCACCTC
          1 ACCTCCACCTCCATCACCAAGGAGACCACCACCTCCACCTCCACCACCACGAGGACCACCACCTC

                            
        302 CACCTCCATCATCACC
         66 CACCTCCATCATCACC

                        *             *               *      *       *       
        318 ACCTCCACCTCCGTCACCAAGGAGACGACCACCTCCACCTCCGCCACCAAG-GAGACGACCACCT
          1 ACCTCCACCTCCATCACCAAGGAGACCACCACCTCCACCTCCACCACCACGAG-GACCACCACCT

                    
        382 CCACCTCC
         65 CCACCTCC

        390 CCCACCAAGG


Statistics
Matches: 63,  Mismatches: 8, Indels: 2
        0.86            0.11        0.03

Matches are distributed among these distances:
  80    1  0.02
  81   62  0.98

ACGTcount: A:0.25, C:0.52, G:0.11, T:0.12


Consensus pattern (81 bp):   
ACCTCCACCTCCATCACCAAGGAGACCACCACCTCCACCTCCACCACCACGAGGACCACCACCTC
CACCTCCATCATCACC
Done.