Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold1202

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: 10031
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34


Found at i:6132 original size:11 final size:11

Alignment explanation


    Indices: 6118--6154  Score: 58
    Period size: 11  Copynumber: 3.5  Consensus size: 11

       6108 AGGATAATAT

                       
       6118 AATAAGTATAA
          1 AATAAGTATAA

                       
       6129 AATAAGTAT-A
          1 AATAAGTATAA

                       
       6139 AATAAGTATAA
          1 AATAAGTATAA

            *    
       6150 TATAA
          1 AATAA

       6155 TAAGGAATGG


Statistics
Matches: 24,  Mismatches: 1, Indels: 2
        0.89            0.04        0.07

Matches are distributed among these distances:
  10   10  0.42
  11   14  0.58

ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30


Consensus pattern (11 bp):   
AATAAGTATAA

Found at i:6142 original size:21 final size:19

Alignment explanation


    Indices: 6090--6156  Score: 71
    Period size: 21  Copynumber: 3.3  Consensus size: 19

       6080 AGATTTACTT

                  *             *
       6090 ATAATAGAATAAGTAATAAGG
          1 ATAATATAATAAGT-ATAA-A

                               
       6111 ATAATATAATAAGTATAAA
          1 ATAATATAATAAGTATAAA

                                *
       6130 ATAAGTATAAATAAGTATAAT
          1 ATAA-TAT-AATAAGTATAAA

                  
       6151 ATAATA
          1 ATAATA

       6157 AGGAATGGAC


Statistics
Matches: 41,  Mismatches: 3, Indels: 5
        0.84            0.06        0.10

Matches are distributed among these distances:
  19    4  0.10
  20    9  0.22
  21   28  0.68

ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30


Consensus pattern (19 bp):   
ATAATATAATAAGTATAAA
Done.