Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g00174.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, 208

Length: 347
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37


Found at i:88 original size:8 final size:8

Alignment explanation


    Indices: 72--120  Score: 55
    Period size: 8  Copynumber: 6.1  Consensus size: 8

         62 AAAAAAAGTG

                    
         72 ATAAAAAA
          1 ATAAAAAA

                     
         80 AGTAAAAAA
          1 A-TAAAAAA

                  * 
         89 ATAAAATA
          1 ATAAAAAA

            **      
         97 CGAAAAAA
          1 ATAAAAAA

                    
        105 A-AAAAAA
          1 ATAAAAAA

                    
        112 ATAAAAAA
          1 ATAAAAAA

             
        120 A
          1 A

        121 AATTCTGTGG


Statistics
Matches: 34,  Mismatches: 5, Indels: 4
        0.79            0.12        0.09

Matches are distributed among these distances:
   7    7  0.21
   8   19  0.56
   9    8  0.24

ACGTcount: A:0.84, C:0.02, G:0.04, T:0.10


Consensus pattern (8 bp):   
ATAAAAAA

Found at i:121 original size:16 final size:17

Alignment explanation


    Indices: 83--122  Score: 55
    Period size: 18  Copynumber: 2.4  Consensus size: 17

         73 TAAAAAAAGT

                   *          
         83 AAAAAAATAAAATACGAA
          1 AAAAAAAAAAAATAC-AA

                             
        101 AAAAAAAAAAAATA-AA
          1 AAAAAAAAAAAATACAA

                  
        117 AAAAAA
          1 AAAAAA

        123 TTCTGTGGGT


Statistics
Matches: 21,  Mismatches: 1, Indels: 2
        0.88            0.04        0.08

Matches are distributed among these distances:
  16    8  0.38
  18   13  0.62

ACGTcount: A:0.88, C:0.03, G:0.03, T:0.07


Consensus pattern (17 bp):   
AAAAAAAAAAAATACAA
Done.