Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004928.1 Kokia drynarioides strain JFW-HI SEQ_118631, 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, 1000

Length: 2355
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.31

Warning! 65 characters in sequence are not A, C, G, or T


Found at i:535 original size:41 final size:41

Alignment explanation


    Indices: 457--583  Score: 148
    Period size: 41  Copynumber: 3.1  Consensus size: 41

        447 AAACGCCGCA

                     *   *      *      **    *       
        457 AAAGG-TAATGCAATAGCGGTGTTTATAAGAAAACGCCACT
          1 AAAGGTTAAAGCATTAGCGGCGTTTATGGGAAAGCGCCACT

                                                     
        497 AAAGGTTAAAGCATTAGCGGCGTTTATGGGAAAGCGCCACT
          1 AAAGGTTAAAGCATTAGCGGCGTTTATGGGAAAGCGCCACT

                * * *                    *        *  
        538 AAAGATCAGAGCATTAGCGGCGTTTATGGAAAAGCGCCGCT
          1 AAAGGTTAAAGCATTAGCGGCGTTTATGGGAAAGCGCCACT

                 
        579 AAAGG
          1 AAAGG

        584 CCCAAACATT


Statistics
Matches: 74,  Mismatches: 12, Indels: 1
        0.85            0.14        0.01

Matches are distributed among these distances:
  40    5  0.07
  41   69  0.93

ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20


Consensus pattern (41 bp):   
AAAGGTTAAAGCATTAGCGGCGTTTATGGGAAAGCGCCACT

Found at i:594 original size:41 final size:41

Alignment explanation


    Indices: 508--611  Score: 129
    Period size: 41  Copynumber: 2.5  Consensus size: 41

        498 AAGGTTAAAG

                              *                *    *
        508 CATTAGCGGCGTTTATGGGAAAGCGCCACTAAAGATCAGAG
          1 CATTAGCGGCGTTTATGGAAAAGCGCCACTAAAGACCAGAA

                                       *       *      
        549 CATTAGCGGCGTTTATGGAAAAGCGCCGCTAAAGGCCCA-AA
          1 CATTAGCGGCGTTTATGGAAAAGCGCCACTAAA-GACCAGAA

                  * *             
        590 CATTAGTGACGTTTATGGAAAA
          1 CATTAGCGGCGTTTATGGAAAA

        612 ACANNNNNNN


Statistics
Matches: 55,  Mismatches: 7, Indels: 2
        0.86            0.11        0.03

Matches are distributed among these distances:
  41   52  0.95
  42    3  0.05

ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21


Consensus pattern (41 bp):   
CATTAGCGGCGTTTATGGAAAAGCGCCACTAAAGACCAGAA
Done.