Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold4057

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, 357

Length: 596
ACGTcount: A:0.25, C:0.31, G:0.06, T:0.37


Found at i:106 original size:13 final size:13

Alignment explanation


    Indices: 88--112  Score: 50
    Period size: 13  Copynumber: 1.9  Consensus size: 13

         78 GGCCTGAGCA

                         
         88 AAATTTTAGGCCC
          1 AAATTTTAGGCCC

                        
        101 AAATTTTAGGCC
          1 AAATTTTAGGCC

        113 AGGCCAAAAT


Statistics
Matches: 12,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   12  1.00

ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32


Consensus pattern (13 bp):   
AAATTTTAGGCCC

Found at i:420 original size:30 final size:31

Alignment explanation


    Indices: 386--445  Score: 86
    Period size: 30  Copynumber: 2.0  Consensus size: 31

        376 AAACCTTTTA

                         *                 
        386 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
          1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC

                    *          *          
        416 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
          1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA

        446 TCTCACCTCT


Statistics
Matches: 26,  Mismatches: 3, Indels: 1
        0.87            0.10        0.03

Matches are distributed among these distances:
  30   21  0.81
  31    5  0.19

ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40


Consensus pattern (31 bp):   
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Done.