Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga06g01877.F4

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: 3505
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35


Found at i:65 original size:12 final size:12

Alignment explanation


    Indices: 48--87  Score: 71
    Period size: 12  Copynumber: 3.3  Consensus size: 12

         38 ATGAGCACCG

                        
         48 CCGCTACCGCCA
          1 CCGCTACCGCCA

                        
         60 CCGCTACCGCCA
          1 CCGCTACCGCCA

                       *
         72 CCGCTACCGCCT
          1 CCGCTACCGCCA

                
         84 CCGC
          1 CCGC

         88 ACTCACCAAC


Statistics
Matches: 27,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  12   27  1.00

ACGTcount: A:0.12, C:0.60, G:0.17, T:0.10


Consensus pattern (12 bp):   
CCGCTACCGCCA

Found at i:3377 original size:46 final size:46

Alignment explanation


    Indices: 3308--3400  Score: 168
    Period size: 46  Copynumber: 2.0  Consensus size: 46

       3298 CGAGTCTCTG

                              *                           
       3308 TGAGGGTTCTCTTTCAAATTTATTTTGGTTTAGTTAGTAATTCAGT
          1 TGAGGGTTCTCTTTCAAACTTATTTTGGTTTAGTTAGTAATTCAGT

                                                      *   
       3354 TGAGGGTTCTCTTTCAAACTTATTTTGGTTTAGTTAGTAATTTAGT
          1 TGAGGGTTCTCTTTCAAACTTATTTTGGTTTAGTTAGTAATTCAGT

             
       3400 T
          1 T

       3401 TAGTGCTTGT


Statistics
Matches: 45,  Mismatches: 2, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  46   45  1.00

ACGTcount: A:0.22, C:0.09, G:0.19, T:0.51


Consensus pattern (46 bp):   
TGAGGGTTCTCTTTCAAACTTATTTTGGTTTAGTTAGTAATTCAGT
Done.