Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga06g00619.N1

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: 5730
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37


Found at i:2670 original size:16 final size:16

Alignment explanation


    Indices: 2657--2689  Score: 50
    Period size: 16  Copynumber: 2.1  Consensus size: 16

       2647 CGGTTATTAC

                  *         
       2657 ATATATTTTATATTTA
          1 ATATATGTTATATTTA

                            
       2673 ATATATGTTAT-TTTA
          1 ATATATGTTATATTTA

              
       2688 AT
          1 AT

       2690 GGCAAAATGG


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  15    6  0.38
  16   10  0.62

ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61


Consensus pattern (16 bp):   
ATATATGTTATATTTA

Found at i:3627 original size:45 final size:45

Alignment explanation


    Indices: 3550--3671  Score: 142
    Period size: 45  Copynumber: 2.7  Consensus size: 45

       3540 GAAACAAGTG

                             *                     *      
       3550 AGACCATAGCTG-AAGACATTAT-GACATCACGATTCTATCGAGTA
          1 AGACCATAGCTGAAAGATATTATGGA-ATCACGATTCTAACGAGTA

                   *          *                          
       3594 AGACCATGGCTGAAAGATGTTATGGAATCACGATTCTAACGAGTA
          1 AGACCATAGCTGAAAGATATTATGGAATCACGATTCTAACGAGTA

              * *    *                        
       3639 AGGCTATAGTTGAAAGATATTATGGCAA-CACGA
          1 AGACCATAGCTGAAAGATATTATGG-AATCACGA

       3672 CGAAAAATGA


Statistics
Matches: 66,  Mismatches: 9, Indels: 5
        0.82            0.11        0.06

Matches are distributed among these distances:
  44   11  0.17
  45   51  0.77
  46    4  0.06

ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25


Consensus pattern (45 bp):   
AGACCATAGCTGAAAGATATTATGGAATCACGATTCTAACGAGTA
Done.