Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga03g00730.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, 493

Length: 822
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31


Found at i:139 original size:30 final size:30

Alignment explanation


    Indices: 105--187  Score: 123
    Period size: 29  Copynumber: 2.8  Consensus size: 30

         95 CTCTCCACCA

                 *        *   *           
        105 CCACCTCCACCACCACACAATCCAGTTTCT
          1 CCACCACCACCACCCCACCATCCAGTTTCT

                 *                        
        135 CCACCGCCACC-CCCCACCATCCAGTTTCT
          1 CCACCACCACCACCCCACCATCCAGTTTCT

                                    
        164 CCACCACCACCACCCCACCATCCA
          1 CCACCACCACCACCCCACCATCCA

        188 ATCACTCCAC


Statistics
Matches: 48,  Mismatches: 4, Indels: 2
        0.89            0.07        0.04

Matches are distributed among these distances:
  29   26  0.54
  30   22  0.46

ACGTcount: A:0.24, C:0.58, G:0.04, T:0.14


Consensus pattern (30 bp):   
CCACCACCACCACCCCACCATCCAGTTTCT

Found at i:196 original size:30 final size:30

Alignment explanation


    Indices: 105--204  Score: 130
    Period size: 30  Copynumber: 3.4  Consensus size: 30

         95 CTCTCCACCA

                 *        *   *           
        105 CCACCTCCACCACCACACAATCCAGTTTCT
          1 CCACCGCCACCACCCCACCATCCAGTTTCT

                                          
        135 CCACCGCCACC-CCCCACCATCCAGTTTCT
          1 CCACCGCCACCACCCCACCATCCAGTTTCT

                 *                  * **  
        164 CCACCACCACCACCCCACCATCCAATCACT
          1 CCACCGCCACCACCCCACCATCCAGTTTCT

                       
        194 CCACCGCCACC
          1 CCACCGCCACC

        205 TCATGTACAT


Statistics
Matches: 61,  Mismatches: 8, Indels: 2
        0.86            0.11        0.03

Matches are distributed among these distances:
  29   26  0.43
  30   35  0.57

ACGTcount: A:0.24, C:0.58, G:0.04, T:0.14


Consensus pattern (30 bp):   
CCACCGCCACCACCCCACCATCCAGTTTCT

Found at i:233 original size:24 final size:24

Alignment explanation


    Indices: 192--250  Score: 64
    Period size: 24  Copynumber: 2.5  Consensus size: 24

        182 CATCCAATCA

                   *     *          
        192 CTCCACCGCCACCTCATGTACATC
          1 CTCCACCACCACCCCATGTACATC

                      *        * *  
        216 CTCCACCACCTCCCCATGTGCGTC
          1 CTCCACCACCACCCCATGTACATC

             *         
        240 CACCACCACCA
          1 CTCCACCACCA

        251 GCACCACTTC


Statistics
Matches: 28,  Mismatches: 7, Indels: 0
        0.80            0.20        0.00

Matches are distributed among these distances:
  24   28  1.00

ACGTcount: A:0.20, C:0.54, G:0.08, T:0.17


Consensus pattern (24 bp):   
CTCCACCACCACCCCATGTACATC
Done.