Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga08g00356.F1

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: 5669
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29


Found at i:502 original size:15 final size:15

Alignment explanation


    Indices: 484--532  Score: 80
    Period size: 15  Copynumber: 3.3  Consensus size: 15

        474 ATTCCATTGC

                           
        484 ATCAACTGGTAGAGA
          1 ATCAACTGGTAGAGA

                    *      
        499 ATCAACTGTTAGAGA
          1 ATCAACTGGTAGAGA

                 *         
        514 ATCAATTGGTAGAGA
          1 ATCAACTGGTAGAGA

                
        529 ATCA
          1 ATCA

        533 TCAGAAGGTT


Statistics
Matches: 31,  Mismatches: 3, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  15   31  1.00

ACGTcount: A:0.41, C:0.12, G:0.22, T:0.24


Consensus pattern (15 bp):   
ATCAACTGGTAGAGA

Found at i:5168 original size:34 final size:34

Alignment explanation


    Indices: 5125--5195  Score: 142
    Period size: 34  Copynumber: 2.1  Consensus size: 34

       5115 CATTGAGTAA

                                              
       5125 GAAAATGGCAGAGAAGAAACCCAAGGTTGGTAGG
          1 GAAAATGGCAGAGAAGAAACCCAAGGTTGGTAGG

                                              
       5159 GAAAATGGCAGAGAAGAAACCCAAGGTTGGTAGG
          1 GAAAATGGCAGAGAAGAAACCCAAGGTTGGTAGG

               
       5193 GAA
          1 GAA

       5196 GGTGAAGCAG


Statistics
Matches: 37,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  34   37  1.00

ACGTcount: A:0.42, C:0.11, G:0.35, T:0.11


Consensus pattern (34 bp):   
GAAAATGGCAGAGAAGAAACCCAAGGTTGGTAGG
Done.