Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga09g01013.F6

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: 3789
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30


Found at i:3599 original size:24 final size:24

Alignment explanation


    Indices: 3571--3648  Score: 74
    Period size: 24  Copynumber: 3.3  Consensus size: 24

       3561 GCTTAAGGTT

                                    
       3571 TATGGGTTTTCATATGTATAGAGG
          1 TATGGGTTTTCATATGTATAGAGG

                     ** *            
       3595 TATGGG--TGAAAATGCT-TA-AGG
          1 TATGGGTTTTCATATG-TATAGAGG

                                      
       3616 TTTATGGGTTTTCATATGTATAGAGG
          1 --TATGGGTTTTCATATGTATAGAGG

                   
       3642 TATGGGT
          1 TATGGGT

       3649 GTTAAATCAA


Statistics
Matches: 41,  Mismatches: 6, Indels: 14
        0.67            0.10        0.23

Matches are distributed among these distances:
  21    3  0.07
  22    7  0.17
  23    7  0.17
  24   14  0.34
  25    7  0.17
  26    3  0.07

ACGTcount: A:0.26, C:0.04, G:0.31, T:0.40


Consensus pattern (24 bp):   
TATGGGTTTTCATATGTATAGAGG

Found at i:3608 original size:47 final size:47

Alignment explanation


    Indices: 3556--3649  Score: 188
    Period size: 47  Copynumber: 2.0  Consensus size: 47

       3546 GGTGGGTGGC

                                                           
       3556 AAAATGCTTAAGGTTTATGGGTTTTCATATGTATAGAGGTATGGGTG
          1 AAAATGCTTAAGGTTTATGGGTTTTCATATGTATAGAGGTATGGGTG

                                                           
       3603 AAAATGCTTAAGGTTTATGGGTTTTCATATGTATAGAGGTATGGGTG
          1 AAAATGCTTAAGGTTTATGGGTTTTCATATGTATAGAGGTATGGGTG

       3650 TTAAATCAAG


Statistics
Matches: 47,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  47   47  1.00

ACGTcount: A:0.28, C:0.04, G:0.30, T:0.38


Consensus pattern (47 bp):   
AAAATGCTTAAGGTTTATGGGTTTTCATATGTATAGAGGTATGGGTG

Done.