Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold3715

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, 407

Length: 679
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.42


Found at i:30 original size:7 final size:7

Alignment explanation


    Indices: 15--89  Score: 69
    Period size: 7  Copynumber: 10.4  Consensus size: 7

          5 ATTGTAAAAG

                *  
         15 AGGGGTT
          1 AGGGTTT

                   
         22 AGGGTTT
          1 AGGGTTT

                    
         29 AGGGGTTT
          1 A-GGGTTT

                   
         37 AGGGTTT
          1 AGGGTTT

                   
         44 AGGGTTT
          1 AGGGTTT

             * *   
         51 ATGTTTT
          1 AGGGTTT

             * *   
         58 ATGATTT
          1 AGGGTTT

                   
         65 AGGGTTT
          1 AGGGTTT

               * * 
         72 AGGATAT
          1 AGGGTTT

                    
         79 AGGGGTTT
          1 A-GGGTTT

               
         87 AGG
          1 AGG

         90 AGATAGTTTA


Statistics
Matches: 56,  Mismatches: 10, Indels: 4
        0.80            0.14        0.06

Matches are distributed among these distances:
   7   44  0.79
   8   12  0.21

ACGTcount: A:0.19, C:0.00, G:0.40, T:0.41


Consensus pattern (7 bp):   
AGGGTTT

Found at i:84 original size:15 final size:15

Alignment explanation


    Indices: 66--95  Score: 51
    Period size: 15  Copynumber: 2.0  Consensus size: 15

         56 TTATGATTTA

                      *    
         66 GGGTTTAGGATATAG
          1 GGGTTTAGGAGATAG

                           
         81 GGGTTTAGGAGATAG
          1 GGGTTTAGGAGATAG

         96 TTTAAATTAT


Statistics
Matches: 14,  Mismatches: 1, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  15   14  1.00

ACGTcount: A:0.27, C:0.00, G:0.43, T:0.30


Consensus pattern (15 bp):   
GGGTTTAGGAGATAG
Done.