Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga12g02067.F2

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: 4307
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33


Found at i:3342 original size:48 final size:48

Alignment explanation


    Indices: 3270--3417  Score: 264
    Period size: 48  Copynumber: 3.1  Consensus size: 48

       3260 AGATAAATAT

                                                            
       3270 ATATGTATA--TGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
          1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG

                                 *                          
       3316 ATATGTATATGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
          1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG

                                                        *   
       3364 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
          1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG

                  
       3412 ATATGT
          1 ATATGT

       3418 GTATATTGTG


Statistics
Matches: 97,  Mismatches: 3, Indels: 2
        0.95            0.03        0.02

Matches are distributed among these distances:
  46    9  0.09
  48   88  0.91

ACGTcount: A:0.34, C:0.06, G:0.28, T:0.31


Consensus pattern (48 bp):   
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG

Found at i:3604 original size:37 final size:37

Alignment explanation


    Indices: 3554--3656  Score: 170
    Period size: 37  Copynumber: 2.8  Consensus size: 37

       3544 GGAAATATAT

                                                 
       3554 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
          1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG

                                      *       *  
       3591 TCCGGGTAAGACCCGATGACTACGTGCGGAGATTTTG
          1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG

              *              *           
       3628 TCTGGGTAAGACCCGATAACTACGTGTGG
          1 TCCGGGTAAGACCCGATGACTACGTGTGG

       3657 GGACTATTCG


Statistics
Matches: 61,  Mismatches: 5, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  37   61  1.00

ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24


Consensus pattern (37 bp):   
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Done.