Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000402.1 Kokia drynarioides strain JFW-HI SEQ_111218, 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: 1683
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:657 original size:29 final size:29

Alignment explanation


    Indices: 624--1024  Score: 392
    Period size: 30  Copynumber: 13.6  Consensus size: 29

        614 ATTCGAGGTC

                           *             
        624 AAAAATGGGATTTTTAGAAGTTTAGGGGT
          1 AAAAATGGGATTTTTGGAAGTTTAGGGGT

                  * *       *      *      
        653 AAAAATAGAATTTTTGAAAGTTTTGGGGTT
          1 AAAAATGGGATTTTTGGAAGTTTAGGGG-T

                                   *     
        683 AAAAATGGGATTTTTGGAAGTTTGGGGGT
          1 AAAAATGGGATTTTTGGAAGTTTAGGGGT

                    *   *           *     
        712 AAAAATGGAATTCTT-GAAGGTTTTGGGGT
          1 AAAAATGGGATTTTTGGAA-GTTTAGGGGT

                        *          * *    
        741 AAAAAATGGGATGTTTGGAAGTTCATGGGT
          1 -AAAAATGGGATTTTTGGAAGTTTAGGGGT

                  * *       *             
        771 AAAAATAGAATTTTTGAAAGTTTTA-GGGT
          1 AAAAATGGGATTTTTGGAAG-TTTAGGGGT

                                   **     
        800 AAAAAATGGGATTTTTGGAAGTTCGGGGGT
          1 -AAAAATGGGATTTTTGGAAGTTTAGGGGT

                  * * *     *      *      
        830 AAAAATAGAAATTTTGAAAGTTTTGGGGTT
          1 AAAAATGGGATTTTTGGAAGTTTAGGGG-T

                                    *      
        860 AAAAATGGGATTTTTGGAAGTTTTTGAGGGT
          1 AAAAATGGGATTTTTGGAAG-TTTAG-GGGT

                                   *     
        891 AAAAATGGGATTTTTGGAAGTTTTGGGGT
          1 AAAAATGGGATTTTTGGAAGTTTAGGGGT

                                   **     
        920 CAAAAATGGGATTTTTGGAAGTTCGGGGGT
          1 -AAAAATGGGATTTTTGGAAGTTTAGGGGT

                  * *      **           * 
        950 AAAAATAGAATTTTTAAAAGTTTTAGGGTT
          1 AAAAATGGGATTTTTGGAAG-TTTAGGGGT

                                    *    
        980 AAAAATGGGATTTTTGGAAGTTTAAGGGT
          1 AAAAATGGGATTTTTGGAAGTTTAGGGGT

                  * *       
       1009 AAAAATAGAATTTTTG
          1 AAAAATGGGATTTTTG

       1025 AACAATTTAG


Statistics
Matches: 305,  Mismatches: 55, Indels: 24
        0.79            0.14        0.06

Matches are distributed among these distances:
  28    3  0.01
  29  131  0.43
  30  139  0.46
  31   29  0.10
  32    3  0.01

ACGTcount: A:0.34, C:0.01, G:0.29, T:0.35


Consensus pattern (29 bp):   
AAAAATGGGATTTTTGGAAGTTTAGGGGT

Found at i:1036 original size:59 final size:58

Alignment explanation


    Indices: 624--1026  Score: 518
    Period size: 59  Copynumber: 6.8  Consensus size: 58

        614 ATTCGAGGTC

                           *       *                                   
        624 AAAAATGGGATTTTTAGAAGTTTAGGGGTAAAAATAGAATTTTTGAAAGTTTTGGGGTT
          1 AAAAATGGGATTTTTGGAAGTTTGGGGGTAAAAATAGAATTTTTGAAA-TTTTGGGGTT

                                               *     *      *         *
        683 AAAAATGGGATTTTTGGAAGTTTGGGGGTAAAAATGGAATTCTTGAAGGTTTTGGGGTA
          1 AAAAATGGGATTTTTGGAAGTTTGGGGGTAAAAATAGAATTTTTGAA-ATTTTGGGGTT

                       *          ***                            *    *
        742 AAAAATGGGATGTTTGGAAGTTCATGGGTAAAAATAGAATTTTTGAAAGTTTTAGGGTA
          1 AAAAATGGGATTTTTGGAAGTTTGGGGGTAAAAATAGAATTTTTGAAA-TTTTGGGGTT

                                  *                *                   
        801 AAAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATAGAAATTTTGAAAGTTTTGGGGTT
          1 AAAAATGGGATTTTTGGAAGTTTGGGGGTAAAAATAGAATTTTTGAAA-TTTTGGGGTT

                                      *          * *          *         *
        860 AAAAATGGGATTTTTGGAAGTTTTTGAGGGTAAAAATGGGATTTTTGGAAGTTTTGGGGTC
          1 AAAAATGGGATTTTTGGAAG--TTTGGGGGTAAAAATAGAATTTTT-GAAATTTTGGGGTT

                                  *                     *        *     
        921 AAAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATAGAATTTTTAAAAGTTTTAGGGTT
          1 AAAAATGGGATTTTTGGAAGTTTGGGGGTAAAAATAGAATTTTTGAAA-TTTTGGGGTT

                                   **                      
        980 AAAAATGGGATTTTTGGAAGTTTAAGGGTAAAAATAGAATTTTTGAA
          1 AAAAATGGGATTTTTGGAAGTTTGGGGGTAAAAATAGAATTTTTGAA

       1027 CAATTTAGGG


Statistics
Matches: 299,  Mismatches: 39, Indels: 12
        0.85            0.11        0.03

Matches are distributed among these distances:
  58    2  0.01
  59  246  0.82
  61   48  0.16
  62    3  0.01

ACGTcount: A:0.34, C:0.01, G:0.29, T:0.35


Consensus pattern (58 bp):   
AAAAATGGGATTTTTGGAAGTTTGGGGGTAAAAATAGAATTTTTGAAATTTTGGGGTT
Done.