Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold455

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: 39167
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31


Found at i:21987 original size:24 final size:24

Alignment explanation


    Indices: 21932--21987  Score: 69
    Period size: 24  Copynumber: 2.4  Consensus size: 24

      21922 GAATTATAAA

                                    
      21932 ATATAT-AAAATATGTACATATAT
          1 ATATATAAAAATATGTACATATAT

                *            **     
      21955 ATATGTAAAAATATGTATTTATAT
          1 ATATATAAAAATATGTACATATAT

              *      
      21979 ATTTATAAA
          1 ATATATAAA

      21988 GGTTAGAAAT


Statistics
Matches: 27,  Mismatches: 5, Indels: 1
        0.82            0.15        0.03

Matches are distributed among these distances:
  23    5  0.19
  24   22  0.81

ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43


Consensus pattern (24 bp):   
ATATATAAAAATATGTACATATAT

Found at i:31595 original size:24 final size:24

Alignment explanation


    Indices: 31551--31596  Score: 58
    Period size: 24  Copynumber: 1.9  Consensus size: 24

      31541 TTTTGCTCAT

                    *       *       
      31551 TTATTTATTTATATTATTATATTA
          1 TTATTTATATATATTAATATATTA

                                   
      31575 TTATTTATATACTA-TAATATAT
          1 TTATTTATATA-TATTAATATAT

      31597 ACGTCTAAAA


Statistics
Matches: 19,  Mismatches: 2, Indels: 2
        0.83            0.09        0.09

Matches are distributed among these distances:
  24   17  0.89
  25    2  0.11

ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61


Consensus pattern (24 bp):   
TTATTTATATATATTAATATATTA
Done.