Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga10g01383.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: 4161
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.33


Found at i:2039 original size:145 final size:145

Alignment explanation


    Indices: 1776--2076  Score: 584
    Period size: 145  Copynumber: 2.1  Consensus size: 145

       1766 ACTTTCATTG

                                                                             
       1776 TATTGTTTAGACTATACAATAATAAATAAAAAACTATGTGATTAGTCTTTATATACCTAACTAAA
          1 TATTGTTTAGACTATACAATAATAAATAAAAAACTATGTGATTAGTCTTTATATACCTAACTAAA

                         *                                                   
       1841 TCATGGGTTAATGGTTTTCTGAATTTGCAGGTGCTTCCTTAACTGATGTTTTGGAGCCTTGAATG
         66 TCATGGGTTAATGATTTTCTGAATTTGCAGGTGCTTCCTTAACTGATGTTTTGGAGCCTTGAATG

                           
       1906 ATGAAAATTAGGGGT
        131 ATGAAAATTAGGGGT

                                                                             
       1921 TATTGTTTAGACTATACAATAATAAATAAAAAACTATGTGATTAGTCTTTATATACCTAACTAAA
          1 TATTGTTTAGACTATACAATAATAAATAAAAAACTATGTGATTAGTCTTTATATACCTAACTAAA

                                                                             
       1986 TCATGGGTTAATGATTTTCTGAATTTGCAGGTGCTTCCTTAACTGATGTTTTGGAGCCTTGAATG
         66 TCATGGGTTAATGATTTTCTGAATTTGCAGGTGCTTCCTTAACTGATGTTTTGGAGCCTTGAATG

                           
       2051 ATGAAAATTAGGGGT
        131 ATGAAAATTAGGGGT

               *       
       2066 TATGGTTTAGA
          1 TATTGTTTAGA

       2077 TTCATTAATT


Statistics
Matches: 154,  Mismatches: 2, Indels: 0
        0.99            0.01        0.00

Matches are distributed among these distances:
 145  154  1.00

ACGTcount: A:0.33, C:0.11, G:0.19, T:0.38


Consensus pattern (145 bp):   
TATTGTTTAGACTATACAATAATAAATAAAAAACTATGTGATTAGTCTTTATATACCTAACTAAA
TCATGGGTTAATGATTTTCTGAATTTGCAGGTGCTTCCTTAACTGATGTTTTGGAGCCTTGAATG
ATGAAAATTAGGGGT

Found at i:3788 original size:18 final size:18

Alignment explanation


    Indices: 3765--3806  Score: 57
    Period size: 18  Copynumber: 2.3  Consensus size: 18

       3755 GCTTTGGTGC

                    *         
       3765 AAGAGGAAGAGGCAGAGG
          1 AAGAGGAACAGGCAGAGG

                        *     
       3783 AAGAGGAACAGGTAGAGG
          1 AAGAGGAACAGGCAGAGG

            *     
       3801 TAGAGG
          1 AAGAGG

       3807 TGGATATAGG


Statistics
Matches: 21,  Mismatches: 3, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  18   21  1.00

ACGTcount: A:0.43, C:0.05, G:0.48, T:0.05


Consensus pattern (18 bp):   
AAGAGGAACAGGCAGAGG
Done.