Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga07g00082.N9

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: 2082
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.31


Found at i:559 original size:42 final size:42

Alignment explanation


    Indices: 513--673  Score: 108
    Period size: 42  Copynumber: 3.8  Consensus size: 42

        503 CTCCCCCTCC

                      *       *        *              
        513 CTCTCCCCCTTCACCACCTCCACCTCCGCCGCCACCTGTGTA
          1 CTCTCCCCCTCCACCACCACCACCTCCACCGCCACCTGTGTA

                  *        *      *       *        *  
        555 CTCTCCTCCTCCACCGCCACCATCTCCACCTCCACCTGTTTA
          1 CTCTCCCCCTCCACCACCACCACCTCCACCGCCACCTGTGTA

            *  *  *  *  *           *     *   * *  *  
        597 TTCACCTCCACCTCCACCACCACCACCACCACCAGCAGTTTA
          1 CTCTCCCCCTCCACCACCACCACCTCCACCGCCACCTGTGTA

                  *  *        *            *    
        639 CTCTCCACCACCACCACCTCCATCC-CCACCTCCAC
          1 CTCTCCCCCTCCACCACCACCA-CCTCCACCGCCAC

        674 TATCACCCCC


Statistics
Matches: 93,  Mismatches: 25, Indels: 2
        0.77            0.21        0.02

Matches are distributed among these distances:
  42   91  0.98
  43    2  0.02

ACGTcount: A:0.18, C:0.57, G:0.05, T:0.20


Consensus pattern (42 bp):   
CTCTCCCCCTCCACCACCACCACCTCCACCGCCACCTGTGTA

Found at i:587 original size:27 final size:26

Alignment explanation


    Indices: 526--591  Score: 69
    Period size: 27  Copynumber: 2.5  Consensus size: 26

        516 TCCCCCTTCA

                          *         * 
        526 CCACCTCCACCTCCGCCGCCACCTGT
          1 CCACCTCCACCTCCACCGCCACCTCT

            **       *                  
        552 GTACTCTCCTCCTCCACCGCCACCATCT
          1 CCAC-CTCCACCTCCACCGCCACC-TCT

                        
        580 CCACCTCCACCT
          1 CCACCTCCACCT

        592 GTTTATTCAC


Statistics
Matches: 30,  Mismatches: 8, Indels: 3
        0.73            0.20        0.07

Matches are distributed among these distances:
  26    2  0.07
  27   24  0.80
  28    4  0.13

ACGTcount: A:0.14, C:0.59, G:0.08, T:0.20


Consensus pattern (26 bp):   
CCACCTCCACCTCCACCGCCACCTCT

Found at i:1121 original size:45 final size:44

Alignment explanation


    Indices: 1035--1141  Score: 121
    Period size: 45  Copynumber: 2.5  Consensus size: 44

       1025 ACCGCCGCCA

                                        *               
       1035 CCATCACCATCACCCCCA--CCCCCAATTCATTACAAACCACCT
          1 CCATCACCATCACCCCCACCCCCCCAATCCATTACAAACCACCT

                    *                              **     
       1077 CCATCACCTTCACCCCCACCCCCACCAATCCATTATC-ATTCACCT
          1 CCATCACCATCACCCCCACCCCC-CCAATCCATTA-CAAACCACCT

               *          *     
       1122 CCACCACCATCACCTCCACC
          1 CCATCACCATCACCCCCACC

       1142 GGCTCCCGTA


Statistics
Matches: 54,  Mismatches: 7, Indels: 5
        0.82            0.11        0.08

Matches are distributed among these distances:
  42   17  0.31
  44    3  0.06
  45   33  0.61
  46    1  0.02

ACGTcount: A:0.27, C:0.55, G:0.00, T:0.18


Consensus pattern (44 bp):   
CCATCACCATCACCCCCACCCCCCCAATCCATTACAAACCACCT
Done.