Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga05g04039.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: 4830
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.36


Found at i:4047 original size:13 final size:13

Alignment explanation


    Indices: 4029--4056  Score: 56
    Period size: 13  Copynumber: 2.2  Consensus size: 13

       4019 GAAACACCTC

                         
       4029 TTCAACTCCACAA
          1 TTCAACTCCACAA

                         
       4042 TTCAACTCCACAA
          1 TTCAACTCCACAA

              
       4055 TT
          1 TT

       4057 GTTGAGTTTT


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   15  1.00

ACGTcount: A:0.36, C:0.36, G:0.00, T:0.29


Consensus pattern (13 bp):   
TTCAACTCCACAA

Found at i:4298 original size:8 final size:8

Alignment explanation


    Indices: 4287--4315  Score: 51
    Period size: 8  Copynumber: 3.8  Consensus size: 8

       4277 ATTTTCTGAT

                    
       4287 TTTTTTTA
          1 TTTTTTTA

                    
       4295 -TTTTTTA
          1 TTTTTTTA

                    
       4302 TTTTTTTA
          1 TTTTTTTA

                  
       4310 TTTTTT
          1 TTTTTT

       4316 ACTTTTTGAG


Statistics
Matches: 20,  Mismatches: 0, Indels: 2
        0.91            0.00        0.09

Matches are distributed among these distances:
   7    7  0.35
   8   13  0.65

ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90


Consensus pattern (8 bp):   
TTTTTTTA

Found at i:4307 original size:15 final size:16

Alignment explanation


    Indices: 4287--4322  Score: 65
    Period size: 15  Copynumber: 2.3  Consensus size: 16

       4277 ATTTTCTGAT

                            
       4287 TTTTTTTATTTTTTA-
          1 TTTTTTTATTTTTTAC

                            
       4302 TTTTTTTATTTTTTAC
          1 TTTTTTTATTTTTTAC

                 
       4318 TTTTT
          1 TTTTT

       4323 GAGATTTAGA


Statistics
Matches: 20,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  15   15  0.75
  16    5  0.25

ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86


Consensus pattern (16 bp):   
TTTTTTTATTTTTTAC

Found at i:4321 original size:8 final size:7

Alignment explanation


    Indices: 4288--4322  Score: 52
    Period size: 7  Copynumber: 4.7  Consensus size: 7

       4278 TTTTCTGATT

                   
       4288 TTTTTTA
          1 TTTTTTA

                   
       4295 TTTTTTA
          1 TTTTTTA

                    
       4302 TTTTTTTA
          1 -TTTTTTA

                   
       4310 TTTTTTA
          1 TTTTTTA

                  
       4317 CTTTTT
          1 -TTTTT

       4323 GAGATTTAGA


Statistics
Matches: 26,  Mismatches: 0, Indels: 3
        0.90            0.00        0.10

Matches are distributed among these distances:
   7   14  0.54
   8   12  0.46

ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86


Consensus pattern (7 bp):   
TTTTTTA
Done.