Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga09g02121.M1

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: 5335
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32


Found at i:1284 original size:95 final size:95

Alignment explanation


    Indices: 1079--1338  Score: 454
    Period size: 95  Copynumber: 2.8  Consensus size: 95

       1069 ATTGTTGAAG

                    *        *                                               
       1079 TAGCTTGGAATAAGAAAACAGTAGG-TTCCCTAAGTTTCTGAGCTAGAATTATTGATCAAAAGAG
          1 TAGCTTGGCATAAGAAAGCAGTAGGTTTCCC-AAGTTTCTGAGCTAGAATTATTGATCAAAAGAG

                  *                        
       1143 -A-TTCGTTATCTTCCTATTCGGGGAATTGT
         65 CATTTCTTTATCTTCCTATTCGGGGAATTGT

                                                                             
       1172 TAGCTTGGCATAAGAAAGCAGTAGGTTTCCCAAGTTTCTGAGCTAGAATTATTGATCAAAAGAGC
          1 TAGCTTGGCATAAGAAAGCAGTAGGTTTCCCAAGTTTCTGAGCTAGAATTATTGATCAAAAGAGC

                                          
       1237 ATTTCTTTATCTTCCTATTCGGGGAATTGT
         66 ATTTCTTTATCTTCCTATTCGGGGAATTGT

                                                              *              
       1267 TAGCTTGGCATAAGAAAGCAGTAGGTTTCCCAAGTTTCTGAGCTAGAATTGTTGATCAAAAGAGC
          1 TAGCTTGGCATAAGAAAGCAGTAGGTTTCCCAAGTTTCTGAGCTAGAATTATTGATCAAAAGAGC

                   
       1332 ATTTCTT
         66 ATTTCTT

       1339 GAAATTATCT


Statistics
Matches: 160,  Mismatches: 4, Indels: 4
        0.95            0.02        0.02

Matches are distributed among these distances:
  93   56  0.35
  94    6  0.04
  95   98  0.61

ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33


Consensus pattern (95 bp):   
TAGCTTGGCATAAGAAAGCAGTAGGTTTCCCAAGTTTCTGAGCTAGAATTATTGATCAAAAGAGC
ATTTCTTTATCTTCCTATTCGGGGAATTGT

Found at i:3373 original size:9 final size:9

Alignment explanation


    Indices: 3338--3386  Score: 59
    Period size: 9  Copynumber: 5.8  Consensus size: 9

       3328 TGTTTTCAGG

                     
       3338 AGAAGGA-A
          1 AGAAGGAGA

                     
       3346 A-AA-GAGA
          1 AGAAGGAGA

                 * * 
       3353 AGAAGCATA
          1 AGAAGGAGA

                     
       3362 AGAAGGAGA
          1 AGAAGGAGA

                     
       3371 AGAAGGAGA
          1 AGAAGGAGA

                   
       3380 AGAAGGA
          1 AGAAGGA

       3387 CAAAGACAAG


Statistics
Matches: 34,  Mismatches: 4, Indels: 5
        0.79            0.09        0.12

Matches are distributed among these distances:
   6    2  0.06
   7    4  0.12
   8    3  0.09
   9   25  0.74

ACGTcount: A:0.59, C:0.02, G:0.37, T:0.02


Consensus pattern (9 bp):   
AGAAGGAGA
Done.