Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga14g00130.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, 1000

Length: 4539
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30


Found at i:3915 original size:14 final size:14

Alignment explanation


    Indices: 3886--3932  Score: 51
    Period size: 14  Copynumber: 3.3  Consensus size: 14

       3876 GAGTTTTGAT

                       *   
       3886 AAAAATATAATATAA
          1 AAAAATA-AATTTAA

                          
       3901 AAAAATAAATTTAA
          1 AAAAATAAATTTAA

                    *      
       3915 AATAAAT-TATTTAA
          1 AA-AAATAAATTTAA

                
       3929 AAAA
          1 AAAA

       3933 TGAGTCAGAC


Statistics
Matches: 29,  Mismatches: 2, Indels: 4
        0.83            0.06        0.11

Matches are distributed among these distances:
  13    2  0.07
  14   16  0.55
  15   11  0.38

ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30


Consensus pattern (14 bp):   
AAAAATAAATTTAA

Found at i:4469 original size:22 final size:21

Alignment explanation


    Indices: 4438--4482  Score: 54
    Period size: 21  Copynumber: 2.1  Consensus size: 21

       4428 TGAATAAAAT

                                  
       4438 AACACAAAATCAGTAGAGAAGA
          1 AACACAAAAT-AGTAGAGAAGA

                 *     * *       
       4460 AACACTAAATATTTGAGAAGA
          1 AACACAAAATAGTAGAGAAGA

              
       4481 AA
          1 AA

       4483 AAGAAATGCT


Statistics
Matches: 20,  Mismatches: 3, Indels: 1
        0.83            0.12        0.04

Matches are distributed among these distances:
  21   11  0.55
  22    9  0.45

ACGTcount: A:0.58, C:0.11, G:0.16, T:0.16


Consensus pattern (21 bp):   
AACACAAAATAGTAGAGAAGA
Done.