Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga13g02273.F2

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: 4922
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31


Found at i:1137 original size:16 final size:16

Alignment explanation


    Indices: 1118--1151  Score: 68
    Period size: 16  Copynumber: 2.1  Consensus size: 16

       1108 TTTCGGAGAA

                            
       1118 AACAAAATGCTAATTT
          1 AACAAAATGCTAATTT

                            
       1134 AACAAAATGCTAATTT
          1 AACAAAATGCTAATTT

              
       1150 AA
          1 AA

       1152 TTAAACTTAA


Statistics
Matches: 18,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  16   18  1.00

ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29


Consensus pattern (16 bp):   
AACAAAATGCTAATTT

Found at i:1196 original size:27 final size:27

Alignment explanation


    Indices: 1158--1211  Score: 99
    Period size: 27  Copynumber: 2.0  Consensus size: 27

       1148 TTAATTAAAC

                                       
       1158 TTAACATGTTTCGGAGAAAACAAAATG
          1 TTAACATGTTTCGGAGAAAACAAAATG

                 *                     
       1185 TTAACGTGTTTCGGAGAAAACAAAATG
          1 TTAACATGTTTCGGAGAAAACAAAATG

       1212 CTAATTTAAT


Statistics
Matches: 26,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  27   26  1.00

ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26


Consensus pattern (27 bp):   
TTAACATGTTTCGGAGAAAACAAAATG

Found at i:1244 original size:42 final size:42

Alignment explanation


    Indices: 1185--1293  Score: 182
    Period size: 42  Copynumber: 2.6  Consensus size: 42

       1175 AAACAAAATG

                                                      
       1185 TTAACGTGTTTCGGAGAAAACAAAATGCTAATTTAATTCAAC
          1 TTAACGTGTTTCGGAGAAAACAAAATGCTAATTTAATTCAAC

                                              *       
       1227 TTAACGTGTTTCGGAGAAAACAAAATGCTAATTTCATTCAAC
          1 TTAACGTGTTTCGGAGAAAACAAAATGCTAATTTAATTCAAC

             *   **                  
       1269 TCAACACGTTTCGGAGAAAACAAAA
          1 TTAACGTGTTTCGGAGAAAACAAAA

       1294 AGCACTTTGG


Statistics
Matches: 63,  Mismatches: 4, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  42   63  1.00

ACGTcount: A:0.41, C:0.17, G:0.15, T:0.28


Consensus pattern (42 bp):   
TTAACGTGTTTCGGAGAAAACAAAATGCTAATTTAATTCAAC
Done.