Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold3400

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, 452

Length: 754
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.35


Found at i:701 original size:84 final size:84

Alignment explanation


    Indices: 546--713  Score: 216
    Period size: 84  Copynumber: 2.0  Consensus size: 84

        536 TTTTTAGAAC

                    *                              *                     *   
        546 CAAATTTTGTTTTGTAAAACCAATACAAAAATACCTTACGAATTAACAAAATTTCTTAGATGAAA
          1 CAAATTTTATTTTGTAAAACCAATACAAAAATACCTTACAAATTAACAAAATTTCTTAGATAAAA

             *                  
        611 GCGTAAGAATATGTTATAAT
         66 GAGTAAG-ATATGTTATAAT

                                         *     *   *                         
        631 CAAA-TTTATTTTGTAAAACCAATA-ACATAATACTTTATAAATTAACAAAATTTCTTAGA-AAA
          1 CAAATTTTATTTTGTAAAACCAATACA-AAAATACCTTACAAATTAACAAAATTTCTTAGATAAA

                         *       
        693 AGAAGTAAGATATTTTATAAT
         65 AG-AGTAAGATATGTTATAAT

        714 TGTTGACACA


Statistics
Matches: 73,  Mismatches: 8, Indels: 6
        0.84            0.09        0.07

Matches are distributed among these distances:
  83   16  0.22
  84   53  0.73
  85    4  0.05

ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35


Consensus pattern (84 bp):   
CAAATTTTATTTTGTAAAACCAATACAAAAATACCTTACAAATTAACAAAATTTCTTAGATAAAA
GAGTAAGATATGTTATAAT
Done.