Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold4147

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, 345

Length: 576
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.27


Found at i:118 original size:13 final size:12

Alignment explanation


    Indices: 100--160  Score: 59
    Period size: 12  Copynumber: 4.8  Consensus size: 12

         90 ATAGGTACGT

                    *   
        100 AAAAAAAAGTTC
          1 AAAAAAAAATTC

                       *
        112 AAAAAAAAATTG
          1 AAAAAAAAATTC

                         
        124 AAAAAAAAATTTC
          1 AAAAAAAAA-TTC

                         *
        137 GAAAAAAAAAATTG
          1 --AAAAAAAAATTC

                      
        151 AAAGAAAAAA
          1 AAA-AAAAAA

        161 ATTGTATACG


Statistics
Matches: 41,  Mismatches: 4, Indels: 7
        0.79            0.08        0.13

Matches are distributed among these distances:
  12   22  0.54
  13    8  0.20
  14    2  0.05
  15    9  0.22

ACGTcount: A:0.74, C:0.03, G:0.08, T:0.15


Consensus pattern (12 bp):   
AAAAAAAAATTC

Found at i:162 original size:14 final size:13

Alignment explanation


    Indices: 112--164  Score: 79
    Period size: 14  Copynumber: 3.9  Consensus size: 13

        102 AAAAAAGTTC

                         
        112 AAAAAAAAATTGA
          1 AAAAAAAAATTGA

                    *     
        125 AAAAAAAATTTCGA
          1 AAAAAAAAATT-GA

                         
        139 AAAAAAAAATTGA
          1 AAAAAAAAATTGA

                         
        152 AAGAAAAAAATTG
          1 AA-AAAAAAATTG

        165 TATACGGTTT


Statistics
Matches: 36,  Mismatches: 2, Indels: 3
        0.88            0.05        0.07

Matches are distributed among these distances:
  13   14  0.39
  14   22  0.61

ACGTcount: A:0.72, C:0.02, G:0.09, T:0.17


Consensus pattern (13 bp):   
AAAAAAAAATTGA
Done.