Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga09g01269.P3

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: 14424
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35


Found at i:9593 original size:25 final size:25

Alignment explanation


    Indices: 9559--9608  Score: 91
    Period size: 25  Copynumber: 2.0  Consensus size: 25

       9549 ATATGTGATG

                                     
       9559 GAGGAAGTGTCTTCTAGTAGTTTTA
          1 GAGGAAGTGTCTTCTAGTAGTTTTA

                      *              
       9584 GAGGAAGTGTGTTCTAGTAGTTTTA
          1 GAGGAAGTGTCTTCTAGTAGTTTTA

       9609 CTGCAATTTT


Statistics
Matches: 24,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  25   24  1.00

ACGTcount: A:0.24, C:0.06, G:0.30, T:0.40


Consensus pattern (25 bp):   
GAGGAAGTGTCTTCTAGTAGTTTTA

Found at i:9800 original size:24 final size:24

Alignment explanation


    Indices: 9767--9818  Score: 77
    Period size: 24  Copynumber: 2.2  Consensus size: 24

       9757 TGGAGGTAGG

                                *   
       9767 ATCTGCGTCTGCACTTGTATCTGA
          1 ATCTGCGTCTGCACTTGTATATGA

                 *       *          
       9791 ATCTGTGTCTGCATTTGTATATGA
          1 ATCTGCGTCTGCACTTGTATATGA

                
       9815 ATCT
          1 ATCT

       9819 AAACATTTAT


Statistics
Matches: 25,  Mismatches: 3, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  24   25  1.00

ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42


Consensus pattern (24 bp):   
ATCTGCGTCTGCACTTGTATATGA

Found at i:11350 original size:30 final size:31

Alignment explanation


    Indices: 11291--11356  Score: 89
    Period size: 31  Copynumber: 2.2  Consensus size: 31

      11281 ATTATTAAAG

                  *    *       *           
      11291 ATAAAATTTTATTTTAATCTTTCTAAAAATA
          1 ATAAAAATTTAATTTAATCATTCTAAAAATA

                                          *
      11322 ATAAAAATTTAATTTAATCATT-TAAAAATT
          1 ATAAAAATTTAATTTAATCATTCTAAAAATA

                 
      11352 ATAAA
          1 ATAAA

      11357 GATATAAACT


Statistics
Matches: 31,  Mismatches: 4, Indels: 1
        0.86            0.11        0.03

Matches are distributed among these distances:
  30   12  0.39
  31   19  0.61

ACGTcount: A:0.52, C:0.05, G:0.00, T:0.44


Consensus pattern (31 bp):   
ATAAAAATTTAATTTAATCATTCTAAAAATA

Found at i:12126 original size:2 final size:2

Alignment explanation


    Indices: 12121--12150  Score: 60
    Period size: 2  Copynumber: 15.0  Consensus size: 2

      12111 TTTCTTGGGT

                                                        
      12121 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
          1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC

      12151 CTAATTTCAT


Statistics
Matches: 28,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   28  1.00

ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00


Consensus pattern (2 bp):   
AC

Done.