Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold2240

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, 613

Length: 1022
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35


Found at i:673 original size:19 final size:21

Alignment explanation


    Indices: 571--667  Score: 153
    Period size: 21  Copynumber: 4.7  Consensus size: 21

        561 ATTTTCGAGG

                *                
        571 ATATACAATCTTAGATATG--
          1 ATATGCAATCTTAGATATGAT

                                 
        590 ATATGCAATCTTAGATATGAT
          1 ATATGCAATCTTAGATATGAT

                             *   
        611 ATATGCAATCTTAGATACGAT
          1 ATATGCAATCTTAGATATGAT

                                 
        632 ATATGCAATCTTAGATATGAT
          1 ATATGCAATCTTAGATATGAT

                *          
        653 ATATACAATCTTAGA
          1 ATATGCAATCTTAGA

        668 AGATATGATT


Statistics
Matches: 72,  Mismatches: 4, Indels: 2
        0.92            0.05        0.03

Matches are distributed among these distances:
  19   18  0.25
  21   54  0.75

ACGTcount: A:0.40, C:0.11, G:0.12, T:0.36


Consensus pattern (21 bp):   
ATATGCAATCTTAGATATGAT

Found at i:894 original size:19 final size:21

Alignment explanation


    Indices: 870--908  Score: 55
    Period size: 19  Copynumber: 2.0  Consensus size: 21

        860 TACTGTTTTC

                  *              
        870 TTTTTTTCTT-TTT-CGATTA
          1 TTTTTTACTTATTTACGATTA

                                
        889 TTTTTTACTTATTTACGATT
          1 TTTTTTACTTATTTACGATT

        909 TTAAAAAAGG


Statistics
Matches: 17,  Mismatches: 1, Indels: 2
        0.85            0.05        0.10

Matches are distributed among these distances:
  19    9  0.53
  20    3  0.18
  21    5  0.29

ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69


Consensus pattern (21 bp):   
TTTTTTACTTATTTACGATTA

Done.