Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga07g02168.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, 609

Length: 1016
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24


Found at i:204 original size:54 final size:54

Alignment explanation


    Indices: 122--242  Score: 170
    Period size: 54  Copynumber: 2.2  Consensus size: 54

        112 CGGATCCGGC

                  * *                          *    *             
        122 CGGAGATCAGAATTTGAGCAGCCTCCGCCGCCCGAGTTTGGATCTGGGTATCGA
          1 CGGAGACCCGAATTTGAGCAGCCTCCGCCGCCCGAATTTGAATCTGGGTATCGA

                                         *  *                  * *
        176 CGGAGACCCGAATTTGAGCAGCCTCCGCCTCCTGAATTTGAATCTGGGTATGGC
          1 CGGAGACCCGAATTTGAGCAGCCTCCGCCGCCCGAATTTGAATCTGGGTATCGA

                         
        230 CGGAGACCCGAAT
          1 CGGAGACCCGAAT

        243 ATGGCGAACA


Statistics
Matches: 59,  Mismatches: 8, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  54   59  1.00

ACGTcount: A:0.21, C:0.27, G:0.30, T:0.21


Consensus pattern (54 bp):   
CGGAGACCCGAATTTGAGCAGCCTCCGCCGCCCGAATTTGAATCTGGGTATCGA

Found at i:558 original size:45 final size:45

Alignment explanation


    Indices: 494--615  Score: 226
    Period size: 45  Copynumber: 2.7  Consensus size: 45

        484 CGGGTATGAG

                 *                                       
        494 AGGAAACCAAGTTATGGTAGATCCGAGGAAGAGGAAGAAGGATAT
          1 AGGAAGCCAAGTTATGGTAGATCCGAGGAAGAGGAAGAAGGATAT

                                         *               
        539 AGGAAGCCAAGTTATGGTAGATCCGAGGAGGAGGAAGAAGGATAT
          1 AGGAAGCCAAGTTATGGTAGATCCGAGGAAGAGGAAGAAGGATAT

                                            
        584 AGGAAGCCAAGTTATGGTAGATCCGAGGAAGA
          1 AGGAAGCCAAGTTATGGTAGATCCGAGGAAGA

        616 AGGATATGGC


Statistics
Matches: 74,  Mismatches: 3, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  45   74  1.00

ACGTcount: A:0.39, C:0.10, G:0.35, T:0.16


Consensus pattern (45 bp):   
AGGAAGCCAAGTTATGGTAGATCCGAGGAAGAGGAAGAAGGATAT
Done.