Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga05g01184.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: 2349
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33


Found at i:572 original size:14 final size:13

Alignment explanation


    Indices: 550--578  Score: 51
    Period size: 13  Copynumber: 2.3  Consensus size: 13

        540 ATGCTTTGCC

                         
        550 TTTTCT-TTTTCT
          1 TTTTCTCTTTTCT

                         
        562 TTTTCTCTTTTCT
          1 TTTTCTCTTTTCT

                
        575 TTTT
          1 TTTT

        579 ACTTTCTTTA


Statistics
Matches: 16,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  12    6  0.38
  13   10  0.62

ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83


Consensus pattern (13 bp):   
TTTTCTCTTTTCT

Found at i:574 original size:13 final size:12

Alignment explanation


    Indices: 550--583  Score: 50
    Period size: 13  Copynumber: 2.7  Consensus size: 12

        540 ATGCTTTGCC

                        
        550 TTTTCTTTTTCT
          1 TTTTCTTTTTCT

                         
        562 TTTTCTCTTTTCT
          1 TTTTCT-TTTTCT

                     
        575 TTTTACTTT
          1 TTTT-CTTT

        584 CTTTACTTCC


Statistics
Matches: 20,  Mismatches: 0, Indels: 3
        0.87            0.00        0.13

Matches are distributed among these distances:
  12    6  0.30
  13   12  0.60
  14    2  0.10

ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79


Consensus pattern (12 bp):   
TTTTCTTTTTCT

Found at i:583 original size:7 final size:6

Alignment explanation


    Indices: 550--583  Score: 50
    Period size: 6  Copynumber: 5.3  Consensus size: 6

        540 ATGCTTTGCC

                                                   
        550 TTTTCT TTTTCT TTTTCT CTTTTCT TTTTACT TT
          1 TTTTCT TTTTCT TTTTCT -TTTTCT TTTT-CT TT

        584 CTTTACTTCC


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

Matches are distributed among these distances:
   6   16  0.62
   7   10  0.38

ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79


Consensus pattern (6 bp):   
TTTTCT
Done.