Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01010183.1 Kokia drynarioides strain JFW-HI SEQ_124992, 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: 4193
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.37


Found at i:1510 original size:31 final size:31

Alignment explanation


    Indices: 1466--1525  Score: 75
    Period size: 31  Copynumber: 1.9  Consensus size: 31

       1456 TTGTCGTTTC

                            *     *        
       1466 ACATGACAATATATAATTCAACTCCGAAAAT
          1 ACATGACAATATATAACTCAACCCCGAAAAT

                  * *      *             
       1497 ACATGATAGTATATAGCTCAACCCCGAAA
          1 ACATGACAATATATAACTCAACCCCGAAA

       1526 TTCGATTGTA


Statistics
Matches: 24,  Mismatches: 5, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  31   24  1.00

ACGTcount: A:0.45, C:0.22, G:0.10, T:0.23


Consensus pattern (31 bp):   
ACATGACAATATATAACTCAACCCCGAAAAT

Found at i:1838 original size:60 final size:60

Alignment explanation


    Indices: 1686--2034  Score: 329
    Period size: 59  Copynumber: 5.8  Consensus size: 60

       1676 AGGGGAAGTT

                   *     *     *     **             *       *              
       1686 GGTGTCGACCATTACATGGTCAACATAAAAAAAATTT-AATTTTTTTACCAAAT-AAAAAGGG
          1 GGTGTCGGCCATTGCATGGCCAACACCAAAAAAATTTGAAATTTTTTATC---TGAAAAAGGG

            *      *    *                     * *                         
       1747 AGTGTCGACCATGGCATGGCCAACA-CAAAAAAAATCG-AA-TTTTTATCTGACAAAAAGGG
          1 GGTGTCGGCCATTGCATGGCCAACACCAAAAAAATTTGAAATTTTTTATCTG--AAAAAGGG

                        *                    *       *       *          
       1806 GGTGTCGGCCATGGCATGGCCAACACCAAAAAATTTTGAAAATTTTTATTTGAAAAAGGG
          1 GGTGTCGGCCATTGCATGGCCAACACCAAAAAAATTTGAAATTTTTTATCTGAAAAAGGG

               *  *       *     *                             *          
       1866 GG-ATCAGCCATTGTATGGCTAACA-CAAAAAAATTTTGAAATTTTTTATTTGAAAAA-GG
          1 GGTGTCGGCCATTGCATGGCCAACACCAAAAAAA-TTTGAAATTTTTTATCTGAAAAAGGG

                                                                         *
       1924 GGTGTCGGCCATTGCATGGCCAACACCAAAAAAATTTGAAATTTTTTTATCTGAGAAAAGGA
          1 GGTGTCGGCCATTGCATGGCCAACACCAAAAAAATTTGAAA-TTTTTTATCTGA-AAAAGGG

                         *   *          *        *            
       1986 GGTGTCGGCCATTTCATCGCCAACACC-TAAAAATTTAAAATTTTTTATC
          1 GGTGTCGGCCATTGCATGGCCAACACCAAAAAAATTTGAAATTTTTTATC

       2035 AGACCCAAAA


Statistics
Matches: 243,  Mismatches: 32, Indels: 27
        0.80            0.11        0.09

Matches are distributed among these distances:
  56    1  0.00
  58   11  0.05
  59  102  0.42
  60   56  0.23
  61   38  0.16
  62   35  0.14

ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28


Consensus pattern (60 bp):   
GGTGTCGGCCATTGCATGGCCAACACCAAAAAAATTTGAAATTTTTTATCTGAAAAAGGG
Done.