Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga06g01063.P3

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: 13847
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33


Found at i:1190 original size:29 final size:29

Alignment explanation


    Indices: 1128--1230  Score: 118
    Period size: 29  Copynumber: 3.6  Consensus size: 29

       1118 GTGACGAGAT

                   *              *   *  
       1128 TGGCACTGAGTGTGCGAGCTTGTAATGTA
          1 TGGCACTAAGTGTGCGAGCTTGGAATATA

            *                 *     *    
       1157 CGGCACTAAGTGTGCGAGTTTGGACTATA
          1 TGGCACTAAGTGTGCGAGCTTGGAATATA

                    *       *             
       1186 TGGCACTATGTGTGCGGGCTT-GAATCATA
          1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA

                            
       1215 TGGCACTAAGTGTGCG
          1 TGGCACTAAGTGTGCG

       1231 TGATTGAGTA


Statistics
Matches: 61,  Mismatches: 12, Indels: 2
        0.81            0.16        0.03

Matches are distributed among these distances:
  28    3  0.05
  29   58  0.95

ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29


Consensus pattern (29 bp):   
TGGCACTAAGTGTGCGAGCTTGGAATATA

Found at i:9292 original size:28 final size:28

Alignment explanation


    Indices: 9253--9320  Score: 82
    Period size: 28  Copynumber: 2.4  Consensus size: 28

       9243 GAATTACCAA

                   *            *  *    
       9253 TTTTAAATATATATATTGTATTATGATT
          1 TTTTAAAAATATATATTGTAATACGATT

                          *  *          
       9281 TTTTAAAAATATATTTTTTAATACGATT
          1 TTTTAAAAATATATATTGTAATACGATT

                        
       9309 TTTTATAAAATA
          1 TTTTA-AAAATA

       9321 ATGACAGAAA


Statistics
Matches: 34,  Mismatches: 5, Indels: 1
        0.85            0.12        0.03

Matches are distributed among these distances:
  28   28  0.82
  29    6  0.18

ACGTcount: A:0.40, C:0.01, G:0.04, T:0.54


Consensus pattern (28 bp):   
TTTTAAAAATATATATTGTAATACGATT

Done.