Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga10g02407.F1

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, 714

Length: 1191
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27


Found at i:672 original size:3 final size:3

Alignment explanation


    Indices: 657--690  Score: 50
    Period size: 3  Copynumber: 11.3  Consensus size: 3

        647 AGGAACTATT

                    *                *                   
        657 CTG CTG TTG CTG CTG CTG CGG CTG CTG CTG CTG C
          1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG C

        691 GGAAAGTGAT


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

Matches are distributed among these distances:
   3   27  1.00

ACGTcount: A:0.00, C:0.32, G:0.35, T:0.32


Consensus pattern (3 bp):   
CTG

Found at i:691 original size:15 final size:15

Alignment explanation


    Indices: 664--692  Score: 58
    Period size: 15  Copynumber: 1.9  Consensus size: 15

        654 ATTCTGCTGT

                           
        664 TGCTGCTGCTGCGGC
          1 TGCTGCTGCTGCGGC

                          
        679 TGCTGCTGCTGCGG
          1 TGCTGCTGCTGCGG

        693 AAAGTGATGA


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   14  1.00

ACGTcount: A:0.00, C:0.31, G:0.41, T:0.28


Consensus pattern (15 bp):   
TGCTGCTGCTGCGGC

Found at i:725 original size:15 final size:15

Alignment explanation


    Indices: 707--746  Score: 53
    Period size: 15  Copynumber: 2.7  Consensus size: 15

        697 TGATGAGGAG

                 *         
        707 GAGGGTGAGGAAAGC
          1 GAGGGAGAGGAAAGC

                          *
        722 GAGGGAGAGGAAAGT
          1 GAGGGAGAGGAAAGC

              *       
        737 GAAGGAGAGG
          1 GAGGGAGAGG

        747 GAGAGGAGAG


Statistics
Matches: 22,  Mismatches: 3, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  15   22  1.00

ACGTcount: A:0.38, C:0.03, G:0.55, T:0.05


Consensus pattern (15 bp):   
GAGGGAGAGGAAAGC

Found at i:746 original size:21 final size:21

Alignment explanation


    Indices: 722--762  Score: 64
    Period size: 21  Copynumber: 2.0  Consensus size: 21

        712 TGAGGAAAGC

                          *      
        722 GAGGGAGAGGAAAGTGAAGGA
          1 GAGGGAGAGGAAAGGGAAGGA

                       *        
        743 GAGGGAGAGGAGAGGGAAGG
          1 GAGGGAGAGGAAAGGGAAGG

        763 GATGAAGAGA


Statistics
Matches: 18,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  21   18  1.00

ACGTcount: A:0.39, C:0.00, G:0.59, T:0.02


Consensus pattern (21 bp):   
GAGGGAGAGGAAAGGGAAGGA
Done.