Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga12g00956.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: 3168
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30


Found at i:1300 original size:72 final size:72

Alignment explanation


    Indices: 1183--1326  Score: 288
    Period size: 72  Copynumber: 2.0  Consensus size: 72

       1173 TACTGTAATT

                                                                             
       1183 TTCATCGACTGAAGTTAATCCATTTACAATAATAGAGCAAAGTGGAGATTTTCAAGTCATTGAGG
          1 TTCATCGACTGAAGTTAATCCATTTACAATAATAGAGCAAAGTGGAGATTTTCAAGTCATTGAGG

                   
       1248 GTAAACA
         66 GTAAACA

                                                                             
       1255 TTCATCGACTGAAGTTAATCCATTTACAATAATAGAGCAAAGTGGAGATTTTCAAGTCATTGAGG
          1 TTCATCGACTGAAGTTAATCCATTTACAATAATAGAGCAAAGTGGAGATTTTCAAGTCATTGAGG

                   
       1320 GTAAACA
         66 GTAAACA

       1327 AACAATGAAA


Statistics
Matches: 72,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  72   72  1.00

ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29


Consensus pattern (72 bp):   
TTCATCGACTGAAGTTAATCCATTTACAATAATAGAGCAAAGTGGAGATTTTCAAGTCATTGAGG
GTAAACA

Found at i:1815 original size:3 final size:3

Alignment explanation


    Indices: 1807--1857  Score: 50
    Period size: 3  Copynumber: 17.0  Consensus size: 3

       1797 GAGATGACAG

                                     *    *          *             *    
       1807 TGA TGA TGA TGA TGA TGA TAA TGG TG- TGGA CGA TGA TGA TGT TGA
          1 TGA TGA TGA TGA TGA TGA TGA TGA TGA T-GA TGA TGA TGA TGA TGA

                   
       1852 TGA TGA
          1 TGA TGA

       1858 AACAGGCTTG


Statistics
Matches: 39,  Mismatches: 7, Indels: 4
        0.78            0.14        0.08

Matches are distributed among these distances:
   2    1  0.03
   3   38  0.97

ACGTcount: A:0.29, C:0.02, G:0.35, T:0.33


Consensus pattern (3 bp):   
TGA

Done.