Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01010254.1 Kokia drynarioides strain JFW-HI SEQ_125091, 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: 6219
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33

Warning! 2 characters in sequence are not A, C, G, or T


Found at i:5479 original size:30 final size:30

Alignment explanation


    Indices: 5356--5723  Score: 311
    Period size: 30  Copynumber: 12.5  Consensus size: 30

       5346 GCACGAGGGC

                   * *         *  *  *    
       5356 AAAATGGTAGTTTTGGAAGGTTCGGAGTCA
          1 AAAATGGGATTTTTGGAAGTTTGGGGGTCA

                *        *       * *      
       5386 AAAACGGGATTTTGGGAAGTTCGAGGGT--
          1 AAAATGGGATTTTTGGAAGTTTGGGGGTCA

                    *      * *  *  **     *
       5414 AAAATGGTAATTTTTAGTAGGTTCAGGGTCG
          1 AAAATGG-GATTTTTGGAAGTTTGGGGGTCA

                        *         *       
       5445 AAAATGGGATTTATGGAAGTTTTGGGGTCA
          1 AAAATGGGATTTTTGGAAGTTTGGGGGTCA

                                  * *     
       5475 AAAATGGGATTTTTGGAAGTTTCGAGGTCA
          1 AAAATGGGATTTTTGGAAGTTTGGGGGTCA

                                 *        
       5505 AAAATGGGATTTTTGGAAGTTCGGGGGT-A
          1 AAAATGGGATTTTTGGAAGTTTGGGGGTCA

                  **              *     * 
       5534 AAAATGAAATTTTTGGAAGTTTTGGGGTTA
          1 AAAATGGGATTTTTGGAAGTTTGGGGGTCA

                                 *        
       5564 AAAATGGGA-TTTTGGAAGTTCGGGGGT-A
          1 AAAATGGGATTTTTGGAAGTTTGGGGGTCA

                *    *        *   *       
       5592 AAAAAGGGAATTTTGGAAATTTTGGGGTCA
          1 AAAATGGGATTTTTGGAAGTTTGGGGGTCA

                                 *        
       5622 AAAATGGGATTTTTGGAAGTTCGGGGGT-A
          1 AAAATGGGATTTTTGGAAGTTTGGGGGTCA

                  *       *   *   *       
       5651 AAAATGAGATTTTTTGAAATTTAGGGGT-A
          1 AAAATGGGATTTTTGGAAGTTTGGGGGTCA

             *  *             *            
       5680 AGAACGGGATTTTTGGAAATTTCGGGGGTC-
          1 AAAATGGGATTTTTGGAAGTTT-GGGGGTCA

               *          
       5710 AAATTGGGATTTTT
          1 AAAATGGGATTTTT

       5724 AGAAATTTCG


Statistics
Matches: 269,  Mismatches: 61, Indels: 16
        0.78            0.18        0.05

Matches are distributed among these distances:
  28   15  0.06
  29  113  0.42
  30  134  0.50
  31    7  0.03

ACGTcount: A:0.30, C:0.04, G:0.33, T:0.33


Consensus pattern (30 bp):   
AAAATGGGATTTTTGGAAGTTTGGGGGTCA

Found at i:5670 original size:59 final size:59

Alignment explanation


    Indices: 5356--5735  Score: 379
    Period size: 59  Copynumber: 6.4  Consensus size: 59

       5346 GCACGAGGGC

                   * *        **     *        *        *         *     
       5356 AAAATGGTAGTTTTGGAAGGTTCGGAGTCAAAAACGGGATTTTGGGAAGTTCGAGGGT-
          1 AAAATGGGATTTTTGGAAATTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTA

                    *      * * **   *     *            *        **       
       5414 AAAATGGTAATTTTTAGTAGGTTCAGGGTCGAAAATGGGATTTATGGAAGTTTTGGGGTCA
          1 AAAATGG-GATTTTTGGAAATTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGT-A

                              *     *                                  
       5475 AAAATGGGATTTTTGGAAGTTTCGAGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTA
          1 AAAATGGGATTTTTGGAAATTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTA

                  **          *   *     *                              
       5534 AAAATGAAATTTTTGGAAGTTTTGGGGTTAAAAATGGGA-TTTTGGAAGTTCGGGGGTA
          1 AAAATGGGATTTTTGGAAATTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTA

                *    *            *                                    
       5592 AAAAAGGGAATTTTGGAAATTTTGGGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTA
          1 AAAATGGGATTTTTGGAAATTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTA

                  *       *       *        *  *              *         *
       5651 AAAATGAGATTTTTTGAAATTTAGGGGT-AAGAACGGGATTTTTGGAAATTTCGGGGGTC
          1 AAAATGGGATTTTTGGAAATTTCGGGGTCAAAAATGGGATTTTTGG-AAGTTCGGGGGTA

               *          *           
       5710 AAATTGGGATTTTTAGAAATTTCGGG
          1 AAAATGGGATTTTTGGAAATTTCGGG

       5736 ACCTTCAAGG


Statistics
Matches: 270,  Mismatches: 47, Indels: 9
        0.83            0.14        0.03

Matches are distributed among these distances:
  58   74  0.27
  59  148  0.55
  60   41  0.15
  61    7  0.03

ACGTcount: A:0.30, C:0.04, G:0.33, T:0.33


Consensus pattern (59 bp):   
AAAATGGGATTTTTGGAAATTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTA

Done.