Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga07g00082.N2

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: 3167
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.32


Found at i:1614 original size:27 final size:26

Alignment explanation


    Indices: 1553--1618  Score: 69
    Period size: 27  Copynumber: 2.5  Consensus size: 26

       1543 TCCCCCTTCA

                          *         * 
       1553 CCACCTCCACCTCCGCCGCCACCTGT
          1 CCACCTCCACCTCCACCGCCACCTCT

            **       *                  
       1579 GTACTCTCCTCCTCCACCGCCACCATCT
          1 CCAC-CTCCACCTCCACCGCCACC-TCT

                        
       1607 CCACCTCCACCT
          1 CCACCTCCACCT

       1619 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:2098 original size:45 final size:44

Alignment explanation


    Indices: 2012--2118  Score: 121
    Period size: 45  Copynumber: 2.5  Consensus size: 44

       2002 ACCGCCGCCA

                                        *               
       2012 CCATCACCATCACCCCCA--CCCCCAATTCATTACAAACCACCT
          1 CCATCACCATCACCCCCACCCCCCCAATCCATTACAAACCACCT

                    *                              **     
       2054 CCATCACCTTCACCCCCACCCCCACCAATCCATTATC-ATTCACCT
          1 CCATCACCATCACCCCCACCCCC-CCAATCCATTA-CAAACCACCT

               *          *     
       2099 CCACCACCATCACCTCCACC
          1 CCATCACCATCACCCCCACC

       2119 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

Found at i:2173 original size:108 final size:108

Alignment explanation


    Indices: 2061--2295  Score: 452
    Period size: 108  Copynumber: 2.2  Consensus size: 108

       2051 CCTCCATCAC

                                                                             
       2061 CTTCACCCCCACCCCCACCAATCCATTATCATTCACCTCCACCACCATCACCTCCACCGGCTCCC
          1 CTTCACCCCCACCCCCACCAATCCATTATCATTCACCTCCACCACCATCACCTCCACCGGCTCCC

                                                       
       2126 GTATACGAAGGGCCACTTCCACCAGTAATCGGAGTATCATACG
         66 GTATACGAAGGGCCACTTCCACCAGTAATCGGAGTATCATACG

                                                                             
       2169 CTTCACCCCCACCCCCACCAATCCATTATCATTCACCTCCACCACCATCACCTCCACCGGCTCCC
          1 CTTCACCCCCACCCCCACCAATCCATTATCATTCACCTCCACCACCATCACCTCCACCGGCTCCC

                                                       
       2234 GTATACGAAGGGCCACTTCCACCAGTAATCGGAGTATCATACG
         66 GTATACGAAGGGCCACTTCCACCAGTAATCGGAGTATCATACG

                   *     *     
       2277 CTTCACCTCCACCGCCACC
          1 CTTCACCCCCACCCCCACC

       2296 TTTCTATTGA


Statistics
Matches: 125,  Mismatches: 2, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
 108  125  1.00

ACGTcount: A:0.24, C:0.46, G:0.11, T:0.19


Consensus pattern (108 bp):   
CTTCACCCCCACCCCCACCAATCCATTATCATTCACCTCCACCACCATCACCTCCACCGGCTCCC
GTATACGAAGGGCCACTTCCACCAGTAATCGGAGTATCATACG
Done.