Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga13g00425.P1

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: 7595
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35


Found at i:3994 original size:223 final size:223

Alignment explanation


    Indices: 3606--4051  Score: 856
    Period size: 223  Copynumber: 2.0  Consensus size: 223

       3596 TTGAAAATGG

                                                                             
       3606 CAACAATCTATTTATTTTTGCTCACTGCAAAAGAATCTTTTCAGAAAACAAATAGATCTGATGTG
          1 CAACAATCTATTTATTTTTGCTCACTGCAAAAGAATCTTTTCAGAAAACAAATAGATCTGATGTG

                                                                           * 
       3671 TGACTTTTAGAGTTGACATTCCAGTTGGTACACTGATCATATATTTGAAATTAGGGAAAAAAAGG
         66 TGACTTTTAGAGTTGACATTCCAGTTGGTACACTGATCATATATTTGAAATTAGGGAAAAAAAAG

                                                                             
       3736 AAAAATGGCTGGGGCATTCCGAGAATTGAACTCGGGACCTCTCGCACCCTAAGCGAGAATCATAC
        131 AAAAATGGCTGGGGCATTCCGAGAATTGAACTCGGGACCTCTCGCACCCTAAGCGAGAATCATAC

                                        
       3801 CACTAGACCAAATGCCCAATTTTGATGT
        196 CACTAGACCAAATGCCCAATTTTGATGT

                                                                        *    
       3829 CAACAATCTATTTATTTTTGCTCACTGCAAAAGAATCTTTTCAGAAAACAAATAGATCTGTTGTG
          1 CAACAATCTATTTATTTTTGCTCACTGCAAAAGAATCTTTTCAGAAAACAAATAGATCTGATGTG

                             *             *                                 
       3894 TGACTTTTAGAGTTGACTTTCCAGTTGGTACTCTGATCATATATTTGAAATTAGGGAAAAAAAAG
         66 TGACTTTTAGAGTTGACATTCCAGTTGGTACACTGATCATATATTTGAAATTAGGGAAAAAAAAG

                                                                             
       3959 AAAAATGGCTGGGGCATTCCGAGAATTGAACTCGGGACCTCTCGCACCCTAAGCGAGAATCATAC
        131 AAAAATGGCTGGGGCATTCCGAGAATTGAACTCGGGACCTCTCGCACCCTAAGCGAGAATCATAC

                                        
       4024 CACTAGACCAAATGCCCAATTTTGATGT
        196 CACTAGACCAAATGCCCAATTTTGATGT

       4052 TTATATTCTC


Statistics
Matches: 219,  Mismatches: 4, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
 223  219  1.00

ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29


Consensus pattern (223 bp):   
CAACAATCTATTTATTTTTGCTCACTGCAAAAGAATCTTTTCAGAAAACAAATAGATCTGATGTG
TGACTTTTAGAGTTGACATTCCAGTTGGTACACTGATCATATATTTGAAATTAGGGAAAAAAAAG
AAAAATGGCTGGGGCATTCCGAGAATTGAACTCGGGACCTCTCGCACCCTAAGCGAGAATCATAC
CACTAGACCAAATGCCCAATTTTGATGT

Found at i:6783 original size:24 final size:24

Alignment explanation


    Indices: 6756--6806  Score: 102
    Period size: 24  Copynumber: 2.1  Consensus size: 24

       6746 GGAAAAAAAT

                                    
       6756 GAAAAATGGGCTGGGGCATTCCGA
          1 GAAAAATGGGCTGGGGCATTCCGA

                                    
       6780 GAAAAATGGGCTGGGGCATTCCGA
          1 GAAAAATGGGCTGGGGCATTCCGA

               
       6804 GAA
          1 GAA

       6807 TTGAACTCGG


Statistics
Matches: 27,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  24   27  1.00

ACGTcount: A:0.31, C:0.16, G:0.37, T:0.16


Consensus pattern (24 bp):   
GAAAAATGGGCTGGGGCATTCCGA
Done.