Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga01g01244.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: 4222
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39


Found at i:2594 original size:19 final size:19

Alignment explanation


    Indices: 2572--2630  Score: 55
    Period size: 19  Copynumber: 3.1  Consensus size: 19

       2562 TATTTAATCC

                        **     
       2572 AATTTTTATTATTTATTTT
          1 AATTTTTATTATAAATTTT

                  *   *        
       2591 AATTTTGATTCTAAATTTT
          1 AATTTTTATTATAAATTTT

            *         *    *   
       2610 TATTTTTATTTTAAAATTT
          1 AATTTTTATTATAAATTTT

              
       2629 AA
          1 AA

       2631 GATAACTTCA


Statistics
Matches: 31,  Mismatches: 9, Indels: 0
        0.77            0.22        0.00

Matches are distributed among these distances:
  19   31  1.00

ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64


Consensus pattern (19 bp):   
AATTTTTATTATAAATTTT

Found at i:3164 original size:13 final size:13

Alignment explanation


    Indices: 3146--3172  Score: 54
    Period size: 13  Copynumber: 2.1  Consensus size: 13

       3136 TAATTAAAGG

                         
       3146 GTTAAAATTTAAA
          1 GTTAAAATTTAAA

                         
       3159 GTTAAAATTTAAA
          1 GTTAAAATTTAAA

             
       3172 G
          1 G

       3173 ATGATAATCA


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   14  1.00

ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37


Consensus pattern (13 bp):   
GTTAAAATTTAAA

Found at i:3218 original size:35 final size:35

Alignment explanation


    Indices: 3173--3239  Score: 116
    Period size: 35  Copynumber: 1.9  Consensus size: 35

       3163 AAATTTAAAG

                                      *        
       3173 ATGATAATCATAATTTACATAAACATTTAAAGTTT
          1 ATGATAATCATAATTTACATAAACATCTAAAGTTT

                 *                          
       3208 ATGATTATCATAATTTACATAAACATCTAAAG
          1 ATGATAATCATAATTTACATAAACATCTAAAG

       3240 AATAAAAAAA


Statistics
Matches: 30,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  35   30  1.00

ACGTcount: A:0.46, C:0.10, G:0.06, T:0.37


Consensus pattern (35 bp):   
ATGATAATCATAATTTACATAAACATCTAAAGTTT
Done.