Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007973.1 Kokia drynarioides strain JFW-HI SEQ_122622, 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, 835

Length: 1392
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27


Found at i:432 original size:215 final size:214

Alignment explanation


    Indices: 1--1392  Score: 1543
    Period size: 215  Copynumber: 6.5  Consensus size: 214

                              *       *                      *               
          1 TTATAAAAGAACTCGTAAGAGTTTGAAAAGTTCGAAAGTTCGTCCAAGAGCCAAGAGAAACAATT
          1 TTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAAACAATT

                          *   * *  **                          *             
         66 CTCACGTAAATAAGATTTCATTTTGAAGACCAAAACTTGTTTACAAAATGAAAAACTATTTAGAC
         66 CTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGAC

            *              * *   * *        *            *             *     
        131 TAAATGATGCGATTTTCGGAGAAGGGAATGTTCA-AAAATTGC-ACAATGGAATGGATCGTCTTG
        131 CAAATGATGCGATTTCCCGAGCATGGAATGTTTAGAAAATTGCTAGAA-GGAATGGATCATCTTG

                                
        194 AATACTTTAAGGAACCGAAG
        195 AATACTTTAAGGAACCGAAG

                                            * *           *               *  
        214 TTATAAAAGAACTCGTAAAAGTTTGACAAGTTTGGAAGTTCGTCCATGAACCGAGAGAGAAATAA
          1 TTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACC-A-AGAGAAACAA

                  *  *              *          *             *        *      
        279 TTCTCATG-GAATAAGTTTTTAATGCAAAGACCAATACTTGTTTACAAAGTGACAAACAATTTAG
         64 TTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAG

               *      * *                                 *   **  *        * 
        343 ACCGAATGATACAATTTCCCGAGCATGGAATGTTTAGAAAATTGCTTGAATTAAAGGATCATCCT
        129 ACCAAATGATGCGATTTCCCGAGCATGGAATGTTTAGAAAATTGCTAGAAGGAATGGATCATCTT

                      *    * *   
        408 GAATACTTTATGGAATCAAAG
        194 GAATACTTTAAGGAACCGAAG

                                   *  *       *                     *   *    
        429 TTATAAAAGAACTCGTAAAAGTTGGAAAAGTTCGGAAGTTCGTCCAAGAACCAAGACAAATAATT
          1 TTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAAACAATT

                *                  *   * *         *                         
        494 CTCAAGTAAATAAGTTTTTAATTAAAACAACAAAACTTTTTTTACAAAATGACAAACTATTTAGA
         66 CTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAC-TTGTTTACAAAATGACAAACTATTTAGA

            *             *          *  *     *        *  *         *        
        559 TCAAATGATGCGATATCCCGAGCATTGAGTG-TTCGAAAAATTACTCGAAGGAATGAATCATCTT
        130 CCAAATGATGCGATTTCCCGAGCATGGAATGTTTAG-AAAATTGCTAGAAGGAATGGATCATCTT

                                 
        623 GAATACTTTAAGGAACCGAAG
        194 GAATACTTTAAGGAACCGAAG

                *        *                                                   
        644 TTATGAAAGAACTTGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAA
          1 TTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACC-A-AGAGAAACAA

              *                      *    *      *     *            *        
        709 TTTTCACGTAAATAAGTTTTTAATTTAAACAACCAAACCTT-TCTACAAAATG-CATACTATTTA
         64 TTCTCACGTAAATAAGTTTTTAATTCAAA-GACCAAAACTTGTTTACAAAATGACAAACTATTTA

                                           *    *        **                  
        772 GACCAAATGATGCGATTTCCCGAGCATGGAAAG-TTCGAAAATTTTTTCA-AAGGAATGGATCGA
        128 GACCAAATGATGCGATTTCCCGAGCATGGAATGTTTAGAAAA-TTGCT-AGAAGGAATGGATC-A

               *    *     *     **  *
        835 -CTAGAATTCTTTATGGAACAAAAA
        190 TCTTGAATACTTTAAGGAACCGAAG

                          *     *                    *                       
        859 TTATAAAAGAACTCATAAAATTTTGACAAGTTCGAAAGTTCATCCAAGAACCAAAAGAGAAACAA
          1 TTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACC--AAGAGAAACAA

                           * *                   *                           
        924 TTCTCACGTAAATAAATATTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAG
         64 TTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAG

                 *            *               * *             *              
        989 ACCAAGTGATGCGATTTCTCGAGCATGGAAT-TTCAAAAAATTGCT----CGAA-GG----TCTT
        129 ACCAAATGATGCGATTTCCCGAGCATGGAATGTTTAGAAAATTGCTAGAAGGAATGGATCATCTT

                   *    *        
       1044 GAATACTCTAAGAAACCGAAG
        194 GAATACTTTAAGGAACCGAAG

                              *       *                 *                  * 
       1065 TTATAAAAGAACTCGT-AGAGTTTGAAAAGTTCGAAAGTTCGTCAAAGAACCAAAAGAGAAACGA
          1 TTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACC--AAGAGAAACAA

                             *      *            *  *              *        *
       1129 TTCTCACGT-AATAAGTGTTTAATCCAAAGACCAAAAATTATTTACAAAATGACACACTATTTAT
         64 TTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAG

                        *  *           *                                     
       1193 ACCAAATGATGCCATATCCCGAGCATGTAATGTTTAGAAAATTGCTAGAAGGAATGGATCATCTT
        129 ACCAAATGATGCGATTTCCCGAGCATGGAATGTTTAGAAAATTGCTAGAAGGAATGGATCATCTT

                                  
       1258 GAATA-TTGTAAGGAACCGAAG
        194 GAATACTT-TAAGGAACCGAAG

                 *                                       *                   
       1279 TTATAGAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCTAGAACCAAGAGAAACAATT
          1 TTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAAACAATT

                               *                      *       
       1344 CTCACGTAAATAAGTTTTTGATTCAAAGACCAAAACTTG-TTCCAAAATG
         66 CTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATG


Statistics
Matches: 980,  Mismatches: 168, Indels: 62
        0.81            0.14        0.05

Matches are distributed among these distances:
 204   74  0.08
 205   63  0.06
 206   31  0.03
 209    3  0.00
 210    4  0.00
 211    3  0.00
 213   91  0.09
 214  174  0.18
 215  435  0.44
 216   60  0.06
 217   36  0.04
 218    6  0.01

ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27


Consensus pattern (214 bp):   
TTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAAACAATT
CTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGAC
CAAATGATGCGATTTCCCGAGCATGGAATGTTTAGAAAATTGCTAGAAGGAATGGATCATCTTGA
ATACTTTAAGGAACCGAAG

Done.