Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold1149

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: 4433
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33


Found at i:2302 original size:17 final size:18

Alignment explanation


    Indices: 2277--2318  Score: 50
    Period size: 18  Copynumber: 2.4  Consensus size: 18

       2267 CTTTTATTGT

                *          *  
       2277 ATTTATTTTA-TGTATTA
          1 ATTTTTTTTAGTGTAGTA

                        *     
       2294 ATTTTTTTTAGTTTAGTA
          1 ATTTTTTTTAGTGTAGTA

                   
       2312 ATTTTTT
          1 ATTTTTT

       2319 AATTTTATGA


Statistics
Matches: 21,  Mismatches: 3, Indels: 1
        0.84            0.12        0.04

Matches are distributed among these distances:
  17    9  0.43
  18   12  0.57

ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69


Consensus pattern (18 bp):   
ATTTTTTTTAGTGTAGTA

Found at i:2737 original size:33 final size:33

Alignment explanation


    Indices: 2690--2754  Score: 121
    Period size: 33  Copynumber: 2.0  Consensus size: 33

       2680 CAGAGCTTTT

                                             
       2690 GGTTTTTTCATGTTGTCAAAGAGTTGAACAATA
          1 GGTTTTTTCATGTTGTCAAAGAGTTGAACAATA

                     *                      
       2723 GGTTTTTTCGTGTTGTCAAAGAGTTGAACAAT
          1 GGTTTTTTCATGTTGTCAAAGAGTTGAACAAT

       2755 GAAAATAGAT


Statistics
Matches: 31,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  33   31  1.00

ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40


Consensus pattern (33 bp):   
GGTTTTTTCATGTTGTCAAAGAGTTGAACAATA
Done.