Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000504.1 Kokia drynarioides strain JFW-HI SEQ_111382, whole genome shotgun sequence

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, 978

Length: 1630
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29


Found at i:436 original size:144 final size:144

Alignment explanation


    Indices: 244--528  Score: 473
    Period size: 144  Copynumber: 2.0  Consensus size: 144

        234 GACAAGTCTG

                                                                             
        244 TTGTTGGAGAGATACAAATAAGTCAAATTTCTCAAATATCCAAGTTCTAATGGGATAGATCCATT
          1 TTGTTGGAGAGATACAAATAAGTCAAATTTCTCAAATATCCAAGTTCTAATGGGATAGATCCATT

                                                     * *                     
        309 GATTTGGTTCCCCCAAAGGATCAGAGATTGGAGACTGGTTACTTGACCCAAAGCAGAAGGGACTG
         66 GATTTGGTTCCCCCAAAGGATCAGAGATTGGAGACTGGTTAATGGACCCAAAGCAGAAGGGACTG

                          
        374 GACCAACAATTTTA
        131 GACCAACAATTTTA

                                     *                  *                    
        388 TTGTTGGAGAGACT-CAAATAAGTCGAATTTCTCAAATATCCAATTTCTAATGGGATAGATCCAT
          1 TTGTTGGAGAGA-TACAAATAAGTCAAATTTCTCAAATATCCAAGTTCTAATGGGATAGATCCAT

                           *           *       *                           * 
        452 TGATTTGGTTCCCCCCAAGGATCAGAGTTTGGAGATTGGTTAATGGACCCAAAGCAGAAGGGATT
         65 TGATTTGGTTCCCCCAAAGGATCAGAGATTGGAGACTGGTTAATGGACCCAAAGCAGAAGGGACT

                   *    
        517 GGACCAATAATT
        130 GGACCAACAATT

        529 CCACATTGAC


Statistics
Matches: 131,  Mismatches: 9, Indels: 2
        0.92            0.06        0.01

Matches are distributed among these distances:
 144  130  0.99
 145    1  0.01

ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28


Consensus pattern (144 bp):   
TTGTTGGAGAGATACAAATAAGTCAAATTTCTCAAATATCCAAGTTCTAATGGGATAGATCCATT
GATTTGGTTCCCCCAAAGGATCAGAGATTGGAGACTGGTTAATGGACCCAAAGCAGAAGGGACTG
GACCAACAATTTTA
Done.