Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01010110.1 Kokia drynarioides strain JFW-HI SEQ_124896, 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: 2927
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.34

Warning! 50 characters in sequence are not A, C, G, or T


Found at i:33 original size:24 final size:24

Alignment explanation


    Indices: 1--219  Score: 294
    Period size: 24  Copynumber: 9.1  Consensus size: 24

                     *    *      *  
          1 GGAGGAGCTAGAGGTGGCGTACGT
          1 GGAGGAGCTGGAGGAGGCGTAGGT

                     *           *  
         25 GGAGGAGCTCGAGGAGGCGTACGT
          1 GGAGGAGCTGGAGGAGGCGTAGGT

                          *        *
         49 GGAGGAGCTGGAGGTGGCGTAGGC
          1 GGAGGAGCTGGAGGAGGCGTAGGT

                          *        *
         73 GGAGGAGCTGGAGGTGGCGTAGGC
          1 GGAGGAGCTGGAGGAGGCGTAGGT

                           *     ** 
         97 GGAGGAGCTGGAGGAAGCGTACAT
          1 GGAGGAGCTGGAGGAGGCGTAGGT

                     *              
        121 GGAGGAGCTCGAGGAGGCGTAGGT
          1 GGAGGAGCTGGAGGAGGCGTAGGT

                                *   
        145 GGAGGAGCTGGAGGAGGCGTTGGT
          1 GGAGGAGCTGGAGGAGGCGTAGGT

                                    
        169 GGAGGAGCTGGAGGAGGCGTAGGT
          1 GGAGGAGCTGGAGGAGGCGTAGGT

                             * *    
        193 GGAGGAGCTGGAGGAGGAGCAGGT
          1 GGAGGAGCTGGAGGAGGCGTAGGT

               
        217 GGA
          1 GGA

        220 AGAGTTAGTG


Statistics
Matches: 175,  Mismatches: 20, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  24  175  1.00

ACGTcount: A:0.21, C:0.11, G:0.55, T:0.13


Consensus pattern (24 bp):   
GGAGGAGCTGGAGGAGGCGTAGGT

Found at i:2854 original size:23 final size:23

Alignment explanation


    Indices: 2828--2881  Score: 90
    Period size: 23  Copynumber: 2.3  Consensus size: 23

       2818 TAGCGCAAGT

                 *                 
       2828 CAGTAGGCACACGAAATGCGAAA
          1 CAGTAAGCACACGAAATGCGAAA

                           *       
       2851 CAGTAAGCACACGAAGTGCGAAA
          1 CAGTAAGCACACGAAATGCGAAA

                    
       2874 CAGTAAGC
          1 CAGTAAGC

       2882 GCGCTAGCGT


Statistics
Matches: 29,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  23   29  1.00

ACGTcount: A:0.43, C:0.22, G:0.26, T:0.09


Consensus pattern (23 bp):   
CAGTAAGCACACGAAATGCGAAA
Done.