Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga10g01425.N1

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, 200

Length: 207
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.43


Found at i:84 original size:37 final size:37

Alignment explanation


    Indices: 43--148  Score: 185
    Period size: 37  Copynumber: 2.9  Consensus size: 37

         33 TGTTAATTTC

                          *           *          
         43 AAGACTTATGTAATGTTTTTAATTATTTAGTGATTCA
          1 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA

                                           *     
         80 AAGACTTATGTAATATTTTTAATTATGTAGTAATTCA
          1 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA

                                            
        117 AAGACTTATGTAATATTTTTAATTATGTAGTG
          1 AAGACTTATGTAATATTTTTAATTATGTAGTG

        149 TAGTGATTCA


Statistics
Matches: 65,  Mismatches: 4, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  37   65  1.00

ACGTcount: A:0.35, C:0.05, G:0.13, T:0.47


Consensus pattern (37 bp):   
AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA

Found at i:107 original size:17 final size:17

Alignment explanation


    Indices: 85--145  Score: 59
    Period size: 17  Copynumber: 3.4  Consensus size: 17

         75 ATTCAAAGAC

                             
         85 TTATGTAATATTTTTAA
          1 TTATGTAATATTTTTAA

                   *     ***   
        102 TTATGTAGTAATTCAAAGA
          1 TTATGTAAT-ATTTTTA-A

                              
        121 CTTATGTAATATTTTTAA
          1 -TTATGTAATATTTTTAA

                   
        139 TTATGTA
          1 TTATGTA

        146 GTGTAGTGAT


Statistics
Matches: 33,  Mismatches: 8, Indels: 6
        0.70            0.17        0.13

Matches are distributed among these distances:
  17   15  0.45
  18    5  0.15
  19    5  0.15
  20    8  0.24

ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51


Consensus pattern (17 bp):   
TTATGTAATATTTTTAA

Found at i:170 original size:9 final size:9

Alignment explanation


    Indices: 156--207  Score: 77
    Period size: 9  Copynumber: 5.8  Consensus size: 9

        146 GTGTAGTGAT

                     
        156 TCAATTCGG
          1 TCAATTCGG

                     
        165 TCAATTCGG
          1 TCAATTCGG

             *       
        174 TTAATTCGG
          1 TCAATTCGG

             *       
        183 TTAATTCGG
          1 TCAATTCGG

                     
        192 TCAATTCGG
          1 TCAATTCGG

             *     
        201 TTAATTC
          1 TCAATTC


Statistics
Matches: 40,  Mismatches: 3, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
   9   40  1.00

ACGTcount: A:0.23, C:0.17, G:0.19, T:0.40


Consensus pattern (9 bp):   
TCAATTCGG

Found at i:181 original size:18 final size:18

Alignment explanation


    Indices: 156--207  Score: 86
    Period size: 18  Copynumber: 2.9  Consensus size: 18

        146 GTGTAGTGAT

                      *       
        156 TCAATTCGGTCAATTCGG
          1 TCAATTCGGTTAATTCGG

             *                
        174 TTAATTCGGTTAATTCGG
          1 TCAATTCGGTTAATTCGG

                            
        192 TCAATTCGGTTAATTC
          1 TCAATTCGGTTAATTC


Statistics
Matches: 31,  Mismatches: 3, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  18   31  1.00

ACGTcount: A:0.23, C:0.17, G:0.19, T:0.40


Consensus pattern (18 bp):   
TCAATTCGGTTAATTCGG
Done.