Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold2541

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: 4703
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29


Found at i:2128 original size:5 final size:5

Alignment explanation


    Indices: 2118--2144  Score: 54
    Period size: 5  Copynumber: 5.4  Consensus size: 5

       2108 GTAATGCAAG

                                            
       2118 AAACA AAACA AAACA AAACA AAACA AA
          1 AAACA AAACA AAACA AAACA AAACA AA

       2145 TAAAGACGAG


Statistics
Matches: 22,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   5   22  1.00

ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00


Consensus pattern (5 bp):   
AAACA

Found at i:2907 original size:54 final size:54

Alignment explanation


    Indices: 2844--2981  Score: 226
    Period size: 54  Copynumber: 2.6  Consensus size: 54

       2834 AAATTGCATA

                                                  *               
       2844 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
          1 GTATCGATACACACAAATATGTATCGATACAGGACATTAGCAGTAGCCAAATTT

                                              *      *             
       2898 GTATCGATACAC-CACAATATGTATCGATACAGGTCATTAGTAGTAGCCAAATTT
          1 GTATCGATACACACA-AATATGTATCGATACAGGACATTAGCAGTAGCCAAATTT

                                           
       2952 GTATCGATACACA-AAATATGTATCGATACA
          1 GTATCGATACACACAAATATGTATCGATACA

       2982 TTGGTAGTAG


Statistics
Matches: 79,  Mismatches: 3, Indels: 5
        0.91            0.03        0.06

Matches are distributed among these distances:
  53   18  0.23
  54   61  0.77

ACGTcount: A:0.38, C:0.18, G:0.17, T:0.28


Consensus pattern (54 bp):   
GTATCGATACACACAAATATGTATCGATACAGGACATTAGCAGTAGCCAAATTT
Done.