Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga06g01262.F5

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: 4303
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34


Found at i:3538 original size:129 final size:126

Alignment explanation


    Indices: 3287--3546  Score: 312
    Period size: 129  Copynumber: 2.0  Consensus size: 126

       3277 CAGACGGGGT

                  *                                            *        *    
       3287 TGGTGATGAAAATGATTCTGAAGTGAATAGAGAATCCTTGGGTGTATCTGCTGCACTTAGTCCCT
          1 TGGTGACGAAAATGATTCTGAAGTGAATAGAGAATCCTTGGGTGTATCTGCAGCACTTAGGCCCT

                                     *  *  *      *        *             
       3352 CAGAAAGGCTTCACTTGGGAGCAAGTGGTATTCGCAGTCACACAGCATATGGCAGTTTGAG
         66 CAGAAAGGCTTCACTTGGGAGCAAGCGGCATGCGCAGTAACACAGCACATGGCAGTTTGAG

                                    *           *                   *        
       3413 TGGTGACGAAAATGATTCTGAAGTTAATAGAGAATCTTTGGGCTTGT-T-TGCAGCTCTTAATGG
          1 TGGTGACGAAAATGATTCTGAAGTGAATAGAGAATCCTTGGG--TGTATCTGCAGCACTT-A-GG

                  *                      *                                   
       3476 CCTCTCTGAAAGGCTTCA-TTGGGGAGCAGGCGGCATGCGCAGTAACACAAG-ACATGGCAGTTT
         62 CC-CTCAGAAAGGCTTCACTT-GGGAGCAAGCGGCATGCGCAGTAACAC-AGCACATGGCAGTTT

               
       3539 GAG
        124 GAG

                 
       3542 TGGTG
          1 TGGTG

       3547 GAAATGGAAA


Statistics
Matches: 114,  Mismatches: 13, Indels: 11
        0.83            0.09        0.08

Matches are distributed among these distances:
 126   47  0.41
 127    2  0.02
 128    8  0.07
 129   55  0.48
 130    2  0.02

ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28


Consensus pattern (126 bp):   
TGGTGACGAAAATGATTCTGAAGTGAATAGAGAATCCTTGGGTGTATCTGCAGCACTTAGGCCCT
CAGAAAGGCTTCACTTGGGAGCAAGCGGCATGCGCAGTAACACAGCACATGGCAGTTTGAG
Done.