Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga03g01100.M5

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: 4276
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30


Found at i:657 original size:114 final size:114

Alignment explanation


    Indices: 469--726  Score: 308
    Period size: 114  Copynumber: 2.3  Consensus size: 114

        459 GAGGAGCGAA

                 *                                                        *  
        469 GAAAGTGAAAGAATTCATG-C--TGATAATGATAGTAAGGATAGGCAGAGAGAAAAACGTCCTAG
          1 GAAAGAGAAAGAATTCATGACGGTGATAATGATAGTAAGGATAGGCAGAGAGAAAAACGTCCAAG

                                *                         ** 
        531 ATCCTCTGATGAAGAAGATGGCAAGCATTCCTATAGAGATAGAAGGGGT
         66 ATCCTCTGATGAAGAAGATGACAAGCATTCCTATAGAGATAGAAGGCAT

                    *                  *     *            *          **      
        580 GAAAGAGAGAGAATTCATGACGGTGATGATGATGGTAAGGATAGGCGGAGAGAAGAAGGGT-CAA
          1 GAAAGAGAAAGAATTCATGACGGTGATAATGATAGTAAGGATAGGCAGAGAGAA-AAACGTCCAA

                *                      *     *   *            
        644 GATCTTCTGATGAAGAAGATGACAAGCCTTCCTTTAGGGATAGAAGGCAT
         65 GATCCTCTGATGAAGAAGATGACAAGCATTCCTATAGAGATAGAAGGCAT

                    *       *   *     *      
        694 GAAAGAGATAGAATTCGTGAAGGTGAAAATGAT
          1 GAAAGAGAAAGAATTCATGACGGTGATAATGAT

        727 TCCAAGGCTA


Statistics
Matches: 123,  Mismatches: 20, Indels: 5
        0.83            0.14        0.03

Matches are distributed among these distances:
 111   17  0.14
 112    1  0.01
 114  101  0.82
 115    4  0.03

ACGTcount: A:0.39, C:0.10, G:0.31, T:0.21


Consensus pattern (114 bp):   
GAAAGAGAAAGAATTCATGACGGTGATAATGATAGTAAGGATAGGCAGAGAGAAAAACGTCCAAG
ATCCTCTGATGAAGAAGATGACAAGCATTCCTATAGAGATAGAAGGCAT

Done.