Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga05g04048.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: 4888
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32


Found at i:88 original size:52 final size:52

Alignment explanation


    Indices: 10--156  Score: 240
    Period size: 52  Copynumber: 2.8  Consensus size: 52

          1 TCCAAAGTG

                     *   *                   *                  
         10 TTTTTGCTTCCAAGTTCTCAAACCTGTGTTTCTCATCATTTCCACTCTTTGC
          1 TTTTTGCTTTCAAATTCTCAAACCTGTGTTTCTGATCATTTCCACTCTTTGC

                                                          *    *
         62 TTTTTGCTTTCAAATTCTCAAACCTGTGTTTCTGATCATTTCCACTGTTTGT
          1 TTTTTGCTTTCAAATTCTCAAACCTGTGTTTCTGATCATTTCCACTCTTTGC

                                  *                    
        114 TTTTTGCTTTCAAATTCTCAAATCTGTGTTTCTGATCATTTCC
          1 TTTTTGCTTTCAAATTCTCAAACCTGTGTTTCTGATCATTTCC

        157 TTTTTTGCTT


Statistics
Matches: 89,  Mismatches: 6, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  52   89  1.00

ACGTcount: A:0.17, C:0.24, G:0.10, T:0.49


Consensus pattern (52 bp):   
TTTTTGCTTTCAAATTCTCAAACCTGTGTTTCTGATCATTTCCACTCTTTGC

Found at i:161 original size:44 final size:44

Alignment explanation


    Indices: 113--228  Score: 178
    Period size: 44  Copynumber: 2.6  Consensus size: 44

        103 CCACTGTTTG

                      *  *                *             
        113 TTTTTTGCTTTCAAATTCTCAAATCTGTGTTTCTGATCATTTCC
          1 TTTTTTGCTTCCATATTCTCAAATCTGTGTGTCTGATCATTTCC

                                            *  *        
        157 TTTTTTGCTTCCATATTCTCAAATCTGTGTGTGTGGTCATTTCC
          1 TTTTTTGCTTCCATATTCTCAAATCTGTGTGTCTGATCATTTCC

                               *        
        201 TTTTTTGCTTCCATATTCTGAAATCTGT
          1 TTTTTTGCTTCCATATTCTCAAATCTGT

        229 CTGTGATCAT


Statistics
Matches: 66,  Mismatches: 6, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  44   66  1.00

ACGTcount: A:0.16, C:0.20, G:0.12, T:0.52


Consensus pattern (44 bp):   
TTTTTTGCTTCCATATTCTCAAATCTGTGTGTCTGATCATTTCC

Found at i:4793 original size:36 final size:36

Alignment explanation


    Indices: 4751--4819  Score: 129
    Period size: 36  Copynumber: 1.9  Consensus size: 36

       4741 ACCAAAACTG

                               *                
       4751 GATAGATTTTATTTTGTGAGGTTTCCAAATGTGTTT
          1 GATAGATTTTATTTTGTGAAGTTTCCAAATGTGTTT

                                             
       4787 GATAGATTTTATTTTGTGAAGTTTCCAAATGTG
          1 GATAGATTTTATTTTGTGAAGTTTCCAAATGTG

       4820 ATTTTGTTGA


Statistics
Matches: 32,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  36   32  1.00

ACGTcount: A:0.25, C:0.06, G:0.22, T:0.48


Consensus pattern (36 bp):   
GATAGATTTTATTTTGTGAAGTTTCCAAATGTGTTT
Done.