Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga01g00963.P1

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: 4724
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.35


Found at i:3524 original size:21 final size:20

Alignment explanation


    Indices: 3482--3524  Score: 50
    Period size: 20  Copynumber: 2.1  Consensus size: 20

       3472 GCCTATGGGA

                       *     *  
       3482 AAATTAAAGAAGGATCATGG
          1 AAATTAAAGAAAGATCACGG

                 *               
       3502 AAATTGAAGAAAGATGCACGG
          1 AAATTAAAGAAAGAT-CACGG

              
       3523 AA
          1 AA

       3525 GATCCCTTGA


Statistics
Matches: 19,  Mismatches: 3, Indels: 1
        0.83            0.13        0.04

Matches are distributed among these distances:
  20   13  0.68
  21    6  0.32

ACGTcount: A:0.51, C:0.07, G:0.26, T:0.16


Consensus pattern (20 bp):   
AAATTAAAGAAAGATCACGG

Found at i:4441 original size:44 final size:44

Alignment explanation


    Indices: 4378--4465  Score: 158
    Period size: 44  Copynumber: 2.0  Consensus size: 44

       4368 ACTTGCCAAA

                      *          *                      
       4378 ATGGCTCACTTGGGAAGCTAAGATTTGTGAATGTTTGTAAGACT
          1 ATGGCTCACTCGGGAAGCTAAAATTTGTGAATGTTTGTAAGACT

                                                        
       4422 ATGGCTCACTCGGGAAGCTAAAATTTGTGAATGTTTGTAAGACT
          1 ATGGCTCACTCGGGAAGCTAAAATTTGTGAATGTTTGTAAGACT

       4466 CTCGTTTGGG


Statistics
Matches: 42,  Mismatches: 2, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  44   42  1.00

ACGTcount: A:0.28, C:0.12, G:0.26, T:0.33


Consensus pattern (44 bp):   
ATGGCTCACTCGGGAAGCTAAAATTTGTGAATGTTTGTAAGACT
Done.