Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold2255

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, 609

Length: 1015
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.39


Found at i:89 original size:17 final size:19

Alignment explanation


    Indices: 67--107  Score: 54
    Period size: 17  Copynumber: 2.4  Consensus size: 19

         57 TGTTGTAAAT

                               
         67 TATATAAT-ATATAAA-AA
          1 TATATAATAATATAAAGAA

                               
         84 TATAT-ATAATATAAAGAA
          1 TATATAATAATATAAAGAA

                   
        102 T-TATAA
          1 TATATAA

        108 ACTTAAAAAA


Statistics
Matches: 21,  Mismatches: 0, Indels: 5
        0.81            0.00        0.19

Matches are distributed among these distances:
  16    2  0.10
  17   15  0.71
  18    4  0.19

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


Consensus pattern (19 bp):   
TATATAATAATATAAAGAA

Found at i:106 original size:19 final size:18

Alignment explanation


    Indices: 63--106  Score: 63
    Period size: 19  Copynumber: 2.4  Consensus size: 18

         53 AATGTGTTGT

                              
         63 AAATTATATAATATATAA
          1 AAATTATATAATATATAA

                               
         81 AAATATATATAATATA-AA
          1 AAAT-TATATAATATATAA

            *       
         99 GAATTATA
          1 AAATTATA

        107 AACTTAAAAA


Statistics
Matches: 24,  Mismatches: 1, Indels: 3
        0.86            0.04        0.11

Matches are distributed among these distances:
  17    4  0.17
  18    9  0.38
  19   11  0.46

ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36


Consensus pattern (18 bp):   
AAATTATATAATATATAA
Done.