Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga10g00627.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: 2313
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28


Found at i:585 original size:12 final size:12

Alignment explanation


    Indices: 533--585  Score: 54
    Period size: 12  Copynumber: 4.4  Consensus size: 12

        523 GACAATTCCT

                        
        533 AAACCAGAGACC
          1 AAACCAGAGACC

                *    *  
        545 AAACAAGAGGCC
          1 AAACCAGAGACC

                *     *  
        557 AAA-GAGGAGGCC
          1 AAACCA-GAGACC

                        
        569 AAACCAGAGACC
          1 AAACCAGAGACC

                 
        581 AAACC
          1 AAACC

        586 GGAAACTGAA


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

Matches are distributed among these distances:
  11    1  0.03
  12   32  0.94
  13    1  0.03

ACGTcount: A:0.49, C:0.28, G:0.23, T:0.00


Consensus pattern (12 bp):   
AAACCAGAGACC

Found at i:2195 original size:32 final size:27

Alignment explanation


    Indices: 2140--2194  Score: 110
    Period size: 27  Copynumber: 2.0  Consensus size: 27

       2130 ATGCACATAC

                                       
       2140 GCACCGACGCAGGGGAGTGAAGGAAAG
          1 GCACCGACGCAGGGGAGTGAAGGAAAG

                                       
       2167 GCACCGACGCAGGGGAGTGAAGGAAAG
          1 GCACCGACGCAGGGGAGTGAAGGAAAG

             
       2194 G
          1 G

       2195 AGGGTGCGAA


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

Matches are distributed among these distances:
  27   28  1.00

ACGTcount: A:0.33, C:0.18, G:0.45, T:0.04


Consensus pattern (27 bp):   
GCACCGACGCAGGGGAGTGAAGGAAAG
Done.