Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga05g03347.M1

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: 1884
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33


Found at i:315 original size:42 final size:42

Alignment explanation


    Indices: 238--317  Score: 115
    Period size: 42  Copynumber: 1.9  Consensus size: 42

        228 CTGAGTTAGG

                                        * *           
        238 TAAAGATGAGAAATTTGAGGCAGATGATGGTCAGGAACCGGA
          1 TAAAGATGAGAAATTTGAGGCAGATGATAGCCAGGAACCGGA

                 *      *             *           
        280 TAAAGTTGAGAATTTTGAGGCAGATGGTAGCCAGGAAC
          1 TAAAGATGAGAAATTTGAGGCAGATGATAGCCAGGAAC

        318 TGCCTACTAA


Statistics
Matches: 33,  Mismatches: 5, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  42   33  1.00

ACGTcount: A:0.36, C:0.10, G:0.33, T:0.21


Consensus pattern (42 bp):   
TAAAGATGAGAAATTTGAGGCAGATGATAGCCAGGAACCGGA

Found at i:1066 original size:39 final size:39

Alignment explanation


    Indices: 1012--1090  Score: 149
    Period size: 39  Copynumber: 2.0  Consensus size: 39

       1002 CATTTGTTCG

                                  *                
       1012 TGACAGACATGTTTGGGGTTAAGTTATATATTGATGGAT
          1 TGACAGACATGTTTGGGGTTAAATTATATATTGATGGAT

                                                   
       1051 TGACAGACATGTTTGGGGTTAAATTATATATTGATGGAT
          1 TGACAGACATGTTTGGGGTTAAATTATATATTGATGGAT

             
       1090 T
          1 T

       1091 TACTTTGCAT


Statistics
Matches: 39,  Mismatches: 1, Indels: 0
        0.98            0.03        0.00

Matches are distributed among these distances:
  39   39  1.00

ACGTcount: A:0.29, C:0.05, G:0.27, T:0.39


Consensus pattern (39 bp):   
TGACAGACATGTTTGGGGTTAAATTATATATTGATGGAT
Done.