Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga07g00082.N6

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: 3165
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.32


Found at i:1612 original size:27 final size:26

Alignment explanation


    Indices: 1551--1616  Score: 69
    Period size: 27  Copynumber: 2.5  Consensus size: 26

       1541 TCCCCCTTCA

                          *         * 
       1551 CCACCTCCACCTCCGCCGCCACCTGT
          1 CCACCTCCACCTCCACCGCCACCTCT

            **       *                  
       1577 GTACTCTCCTCCTCCACCGCCACCATCT
          1 CCAC-CTCCACCTCCACCGCCACC-TCT

                        
       1605 CCACCTCCACCT
          1 CCACCTCCACCT

       1617 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:2096 original size:45 final size:44

Alignment explanation


    Indices: 2010--2116  Score: 121
    Period size: 45  Copynumber: 2.5  Consensus size: 44

       2000 ACCGCCGCCA

                                        *               
       2010 CCATCACCATCACCCCCA--CCCCCAATTCATTACAAACCACCT
          1 CCATCACCATCACCCCCACCCCCCCAATCCATTACAAACCACCT

                    *                              **     
       2052 CCATCACCTTCACCCCCACCCCCACCAATCCATTATC-ATTCACCT
          1 CCATCACCATCACCCCCACCCCC-CCAATCCATTA-CAAACCACCT

               *          *     
       2097 CCACCACCATCACCTCCACC
          1 CCATCACCATCACCCCCACC

       2117 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:2171 original size:108 final size:108

Alignment explanation


    Indices: 2059--2293  Score: 452
    Period size: 108  Copynumber: 2.2  Consensus size: 108

       2049 CCTCCATCAC

                                                                             
       2059 CTTCACCCCCACCCCCACCAATCCATTATCATTCACCTCCACCACCATCACCTCCACCGGCTCCC
          1 CTTCACCCCCACCCCCACCAATCCATTATCATTCACCTCCACCACCATCACCTCCACCGGCTCCC

                                                       
       2124 GTATACGAAGGGCCACTTCCACCAGTAATCGGAGTATCATACG
         66 GTATACGAAGGGCCACTTCCACCAGTAATCGGAGTATCATACG

                                                                             
       2167 CTTCACCCCCACCCCCACCAATCCATTATCATTCACCTCCACCACCATCACCTCCACCGGCTCCC
          1 CTTCACCCCCACCCCCACCAATCCATTATCATTCACCTCCACCACCATCACCTCCACCGGCTCCC

                                                       
       2232 GTATACGAAGGGCCACTTCCACCAGTAATCGGAGTATCATACG
         66 GTATACGAAGGGCCACTTCCACCAGTAATCGGAGTATCATACG

                   *     *     
       2275 CTTCACCTCCACCGCCACC
          1 CTTCACCCCCACCCCCACC

       2294 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.