Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga06g00260.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: 3332
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31


Found at i:1983 original size:139 final size:139

Alignment explanation


    Indices: 1724--1997  Score: 401
    Period size: 139  Copynumber: 2.0  Consensus size: 139

       1714 GTCCTATAAA

                        *                     *         *           *        
       1724 GGAAATGCCTCCCATGACTAAGAAGGGAAAGAAAGCTAAATCTGTGAAGAAGGCTCGGAAAGTGA
          1 GGAAATGCCTCCAATGACTAAGAAGGGAAAGAAAACTAAATCTGGGAAGAAGGCTCAGAAAGTGA

                  *                     *                 *   *              
       1789 TAAAGAGTATGTATCCTCTAGTCAAACGCACAAAGAAATTGAAATCTACTTCCTCTTAGCAGAGT
         66 TAAAGAATATGTATCCTCTAGTCAAACGAACAAAGAAATTGAAATCCACTCCCTCTTAGCAGAGT

                     
       1854 CTGCTCAAG
        131 CTGCTCAAG

                                    *                                        
       1863 GGAAATGCCTCCAATGTA-TAAGATGGTG-AAGAAAACTAAATCTGGGAAGAAGGCTCAGAAAGT
          1 GGAAATGCCTCCAATG-ACTAAGAAGG-GAAAGAAAACTAAATCTGGGAAGAAGGCTCAGAAAGT

                      *                      *                               
       1926 GATAAAGAATGTGTATCCTCTAGTCAAACGAACGAAGAAATTGAAATCCA-TGCCCTCTTAGCAG
         64 GATAAAGAATATGTATCCTCTAGTCAAACGAACAAAGAAATTGAAATCCACT-CCCTCTTAGCAG

                    
       1990 AGTCTGCT
        128 AGTCTGCT

       1998 TTGTGAGTTT


Statistics
Matches: 121,  Mismatches: 11, Indels: 6
        0.88            0.08        0.04

Matches are distributed among these distances:
 138    1  0.01
 139  118  0.98
 140    2  0.02

ACGTcount: A:0.38, C:0.18, G:0.23, T:0.22


Consensus pattern (139 bp):   
GGAAATGCCTCCAATGACTAAGAAGGGAAAGAAAACTAAATCTGGGAAGAAGGCTCAGAAAGTGA
TAAAGAATATGTATCCTCTAGTCAAACGAACAAAGAAATTGAAATCCACTCCCTCTTAGCAGAGT
CTGCTCAAG
Done.