Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga03g00236.F2

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: 5873
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32


Found at i:2599 original size:18 final size:18

Alignment explanation


    Indices: 2562--2654  Score: 123
    Period size: 18  Copynumber: 5.2  Consensus size: 18

       2552 CCCAACTACT

                       *      
       2562 GTATACGTGAACAGTACC
          1 GTATACGTGAATAGTACC

                *   *      *  
       2580 GTATTCGTAAATAGTGCC
          1 GTATACGTGAATAGTACC

                             *
       2598 GTATACGTGAATAGTACT
          1 GTATACGTGAATAGTACC

                           * *
       2616 GTATACGTGAATAGTGCT
          1 GTATACGTGAATAGTACC

                              
       2634 GTATACGTGAATAGTACC
          1 GTATACGTGAATAGTACC

               
       2652 GTA
          1 GTA

       2655 AACGGTCGTA


Statistics
Matches: 64,  Mismatches: 11, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  18   64  1.00

ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30


Consensus pattern (18 bp):   
GTATACGTGAATAGTACC

Found at i:2614 original size:36 final size:36

Alignment explanation


    Indices: 2562--2654  Score: 141
    Period size: 36  Copynumber: 2.6  Consensus size: 36

       2552 CCCAACTACT

                       *          *             
       2562 GTATACGTGAACAGTACCGTATTCGTAAATAGTGCC
          1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC

                             *        *        *
       2598 GTATACGTGAATAGTACTGTATACGTGAATAGTGCT
          1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC

                                 
       2634 GTATACGTGAATAGTACCGTA
          1 GTATACGTGAATAGTACCGTA

       2655 AACGGTCGTA


Statistics
Matches: 51,  Mismatches: 6, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  36   51  1.00

ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30


Consensus pattern (36 bp):   
GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
Done.