Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga03g01149.F1

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: 3543
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.32


Found at i:3362 original size:146 final size:140

Alignment explanation


    Indices: 3096--3370  Score: 338
    Period size: 146  Copynumber: 1.9  Consensus size: 140

       3086 ACATTGAGAC

                                                          **                 
       3096 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTAAGCCAGTGTAAAACAT
          1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATCAAAGCCAGTGTAAAACAT

                             *          * *  *                               
       3161 GTTTGGGACATGCATCGGCTATGAGATGTGTCAGTGTAAGACCATGTCTAGGACATGGAATCGGC
         66 GTTTGGGACATGCATCGCCTATGAGATGAGCCAATGTAAGACCATGTCTAGGACATGGAATCGGC

                      
       3226 ACAGATATGT
        131 ACAGATATGT

                                              * **       **       *        * 
       3236 GAGAGCTAGTGTAAGACAATGTCTGGGACATGGCGTTGGCCTCGATTTCAATAGTCAGTGTAAGA
          1 GAGAGCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCAGCCTCGAGATCAA-AGCCAGTGTAAAA

                                                                             
       3301 CGATGTTTGGGACATGGCATCGACCTGATG-GATGAGCCAATGTAAGACCATGTCT-GAGACATG
         63 C-ATGTTTGGGACAT-GCATCG-CCT-ATGAGATGAGCCAATGTAAGACCATGTCTAG-GACATG

             *     
       3364 GCATCGG
        123 GAATCGG

       3371 TGTTATACCC


Statistics
Matches: 113,  Mismatches: 14, Indels: 10
        0.82            0.10        0.07

Matches are distributed among these distances:
 140   17  0.15
 141   13  0.12
 142   12  0.11
 143   12  0.11
 144   13  0.12
 145    7  0.06
 146   36  0.32
 147    3  0.03

ACGTcount: A:0.28, C:0.17, G:0.30, T:0.24


Consensus pattern (140 bp):   
GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATCAAAGCCAGTGTAAAACAT
GTTTGGGACATGCATCGCCTATGAGATGAGCCAATGTAAGACCATGTCTAGGACATGGAATCGGC
ACAGATATGT
Done.