Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga09g00062.N1

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, 208

Length: 348
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.26


Found at i:285 original size:3 final size:3

Alignment explanation


    Indices: 277--319  Score: 50
    Period size: 3  Copynumber: 14.3  Consensus size: 3

        267 AGAATCAAAC

                              *   *   *               *              
        277 CAT CAT CAT CAT CAC CAC CAC CAT CAT CAT CAC CAT CAT CAT C
          1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C

        320 CTCTCACTTT


Statistics
Matches: 36,  Mismatches: 4, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
   3   36  1.00

ACGTcount: A:0.33, C:0.44, G:0.00, T:0.23


Consensus pattern (3 bp):   
CAT

Found at i:301 original size:15 final size:15

Alignment explanation


    Indices: 283--319  Score: 56
    Period size: 15  Copynumber: 2.5  Consensus size: 15

        273 AAACCATCAT

                           
        283 CATCATCACCACCAC
          1 CATCATCACCACCAC

                    *     *
        298 CATCATCATCACCAT
          1 CATCATCACCACCAC

                   
        313 CATCATC
          1 CATCATC

        320 CTCTCACTTT


Statistics
Matches: 20,  Mismatches: 2, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  15   20  1.00

ACGTcount: A:0.32, C:0.46, G:0.00, T:0.22


Consensus pattern (15 bp):   
CATCATCACCACCAC

Found at i:301 original size:18 final size:18

Alignment explanation


    Indices: 275--311  Score: 65
    Period size: 18  Copynumber: 2.1  Consensus size: 18

        265 AAAGAATCAA

                *             
        275 ACCATCATCATCATCACC
          1 ACCACCATCATCATCACC

                              
        293 ACCACCATCATCATCACC
          1 ACCACCATCATCATCACC

             
        311 A
          1 A

        312 TCATCATCCT


Statistics
Matches: 18,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  18   18  1.00

ACGTcount: A:0.35, C:0.46, G:0.00, T:0.19


Consensus pattern (18 bp):   
ACCACCATCATCATCACC

Found at i:310 original size:12 final size:12

Alignment explanation


    Indices: 277--319  Score: 59
    Period size: 12  Copynumber: 3.6  Consensus size: 12

        267 AGAATCAAAC

                    *   
        277 CATCATCATCAT
          1 CATCATCACCAT

              *  *      
        289 CACCACCACCAT
          1 CATCATCACCAT

                        
        301 CATCATCACCAT
          1 CATCATCACCAT

                   
        313 CATCATC
          1 CATCATC

        320 CTCTCACTTT


Statistics
Matches: 26,  Mismatches: 5, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  12   26  1.00

ACGTcount: A:0.33, C:0.44, G:0.00, T:0.23


Consensus pattern (12 bp):   
CATCATCACCAT
Done.