Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga09g01193.N2

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: 5363
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34


Found at i:5264 original size:43 final size:43

Alignment explanation


    Indices: 5209--5356  Score: 190
    Period size: 43  Copynumber: 3.4  Consensus size: 43

       5199 GTTTTTTAGA

                                                     * 
       5209 AAAAAACGCCGCTAAAAATCAGGACCTTTAGCGGCGCTTTTTT
          1 AAAAAACGCCGCTAAAAATCAGGACCTTTAGCGGCGCTTTTCT

                            * *                       *
       5252 AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCC
          1 AAAAAACGCCGCTAAAAATCAGGACCTTTAGCGGCGCTTTTCT

            * *             **   *   *                  
       5295 CACAAACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTCCT
          1 AAAAAACGCCGCTAAAAATCAGGACCTTTAGCGGCGCTTTT-CT

                               
       5339 -AAAAACGCCGCTAAAAAT
          1 AAAAAACGCCGCTAAAAAT

       5357 ATGACCT


Statistics
Matches: 90,  Mismatches: 14, Indels: 2
        0.85            0.13        0.02

Matches are distributed among these distances:
  43   89  0.99
  44    1  0.01

ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22


Consensus pattern (43 bp):   
AAAAAACGCCGCTAAAAATCAGGACCTTTAGCGGCGCTTTTCT
Done.