Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga09g00826.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: 7559
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33


Found at i:5089 original size:3 final size:3

Alignment explanation


    Indices: 5081--5127  Score: 85
    Period size: 3  Copynumber: 15.7  Consensus size: 3

       5071 GCCATGAGAA

                                                                    *     
       5081 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT TTT AT
          1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT

       5128 ATAAGAAATG


Statistics
Matches: 42,  Mismatches: 2, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
   3   42  1.00

ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68


Consensus pattern (3 bp):   
ATT

Found at i:6545 original size:34 final size:37

Alignment explanation


    Indices: 6460--6547  Score: 94
    Period size: 39  Copynumber: 2.4  Consensus size: 37

       6450 AAGATATTTT

                   *        *                     
       6460 TTATATAAAATATTATTATATATTATATTAACTTAATA
          1 TTATATATAATA-TATAATATATTATATTAACTTAATA

                                                    
       6498 TT-TAAGTATTAATATATAATATATTATATT-A-TT-ATA
          1 TTAT-A-TA-TAATATATAATATATTATATTAACTTAATA

                          
       6534 TTATATATAATATA
          1 TTATATATAATATA

       6548 ATATATAAAA


Statistics
Matches: 44,  Mismatches: 2, Indels: 12
        0.76            0.03        0.21

Matches are distributed among these distances:
  34    7  0.16
  35    2  0.05
  36    6  0.14
  37    4  0.09
  38    4  0.09
  39   17  0.39
  40    4  0.09

ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51


Consensus pattern (37 bp):   
TTATATATAATATATAATATATTATATTAACTTAATA

Found at i:6555 original size:7 final size:7

Alignment explanation


    Indices: 6493--6555  Score: 53
    Period size: 7  Copynumber: 9.4  Consensus size: 7

       6483 TATATTAACT

                  *
       6493 TAATATT
          1 TAATATA

                    
       6500 TAAGTAT-
          1 TAA-TATA

                   
       6507 TAATATA
          1 TAATATA

                   
       6514 TAATATA
          1 TAATATA

             *     
       6521 TTATAT-
          1 TAATATA

              *    
       6527 TATTATA
          1 TAATATA

             *     
       6534 TTATATA
          1 TAATATA

                   
       6541 T-A-ATA
          1 TAATATA

                   
       6546 TAATATA
          1 TAATATA

               
       6553 TAA
          1 TAA

       6556 AACATAAAGT


Statistics
Matches: 46,  Mismatches: 5, Indels: 10
        0.75            0.08        0.16

Matches are distributed among these distances:
   5    4  0.09
   6    9  0.20
   7   30  0.65
   8    3  0.07

ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49


Consensus pattern (7 bp):   
TAATATA
Done.