Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga04g01215.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: 5802
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33


Found at i:2499 original size:15 final size:15

Alignment explanation


    Indices: 2479--2512  Score: 68
    Period size: 15  Copynumber: 2.3  Consensus size: 15

       2469 TGATAGACAT

                           
       2479 CTTAAACAAGCACTC
          1 CTTAAACAAGCACTC

                           
       2494 CTTAAACAAGCACTC
          1 CTTAAACAAGCACTC

                
       2509 CTTA
          1 CTTA

       2513 CCTTCACTCT


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   19  1.00

ACGTcount: A:0.38, C:0.32, G:0.06, T:0.24


Consensus pattern (15 bp):   
CTTAAACAAGCACTC

Found at i:5076 original size:44 final size:44

Alignment explanation


    Indices: 5008--5101  Score: 136
    Period size: 44  Copynumber: 2.2  Consensus size: 44

       4998 AACTTTGTTT

                   *           *                        
       5008 TTAGTTTTCCACTTAAACTTTGATTACTGTAGGCTATTTTAATA
          1 TTAGTTTCCCACTTAAACTCTGATTACTGTAGGCTATTTTAATA

                       *              *      *          
       5052 TTAGTTTCCCATTTAAACTCTGATTATTGTAGGTTATTTTAATA
          1 TTAGTTTCCCACTTAAACTCTGATTACTGTAGGCTATTTTAATA

                   
       5096 TT-GTTT
          1 TTAGTTT

       5102 GACATATGAA


Statistics
Matches: 45,  Mismatches: 5, Indels: 1
        0.88            0.10        0.02

Matches are distributed among these distances:
  43    4  0.09
  44   41  0.91

ACGTcount: A:0.26, C:0.12, G:0.12, T:0.51


Consensus pattern (44 bp):   
TTAGTTTCCCACTTAAACTCTGATTACTGTAGGCTATTTTAATA
Done.