Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga13g01345.F3

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: 5120
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30


Found at i:191 original size:6 final size:6

Alignment explanation


    Indices: 176--212  Score: 56
    Period size: 6  Copynumber: 6.2  Consensus size: 6

        166 ATCGATGACG

                        *             *                
        176 ACGGCC ACGGCG ACGGCC ACGGCG ACGGCC ACGGCC A
          1 ACGGCC ACGGCC ACGGCC ACGGCC ACGGCC ACGGCC A

        213 AGACGAGTTT


Statistics
Matches: 27,  Mismatches: 4, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
   6   27  1.00

ACGTcount: A:0.19, C:0.43, G:0.38, T:0.00


Consensus pattern (6 bp):   
ACGGCC

Found at i:191 original size:12 final size:12

Alignment explanation


    Indices: 174--210  Score: 74
    Period size: 12  Copynumber: 3.1  Consensus size: 12

        164 TCATCGATGA

                        
        174 CGACGGCCACGG
          1 CGACGGCCACGG

                        
        186 CGACGGCCACGG
          1 CGACGGCCACGG

                        
        198 CGACGGCCACGG
          1 CGACGGCCACGG

             
        210 C
          1 C

        211 CAAGACGAGT


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  12   25  1.00

ACGTcount: A:0.16, C:0.43, G:0.41, T:0.00


Consensus pattern (12 bp):   
CGACGGCCACGG

Found at i:423 original size:6 final size:6

Alignment explanation


    Indices: 414--458  Score: 90
    Period size: 6  Copynumber: 7.5  Consensus size: 6

        404 TGGTTGATGT

                                                                
        414 TGAGGC TGAGGC TGAGGC TGAGGC TGAGGC TGAGGC TGAGGC TGA
          1 TGAGGC TGAGGC TGAGGC TGAGGC TGAGGC TGAGGC TGAGGC TGA

        459 TGAGGTGTCA


Statistics
Matches: 39,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   39  1.00

ACGTcount: A:0.18, C:0.16, G:0.49, T:0.18


Consensus pattern (6 bp):   
TGAGGC

Done.