Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005518.1 Kokia drynarioides strain JFW-HI SEQ_119597, 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, 617

Length: 1029
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39


Found at i:780 original size:218 final size:217

Alignment explanation


    Indices: 1--1017  Score: 968
    Period size: 217  Copynumber: 4.7  Consensus size: 217

                         **     *  *     *               *                   
          1 TTGTTTCTCTCTTATTTCTTGGATGAACTCCCGAACTTGTCAAACATTTACGAGTTC-TTTTATA
          1 TTGTTTCTCTCTTGGTTCTTAGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTTATA

                **           *      *   *           **       *  *         *  
         65 ACTTATGTTCCTTAAAGCA-TCTATG-CGATCCATTCCTTTTA-CAAATTTTTCGAACATTCAAT
         66 ACTTCGGTTCCTTAAAGTATTC-AAGACAATCCATTCCTTCGAGC-AATATTCCGAACATTCCAT

             *           *      *  *         *           *                   
        127 GTTCG-GAAATTCACATCATGTGATCTAAATAGATTGTCATTTTGTAAACAACTTTTGGTCTTTA
        129 GCTCGAGAAATT-GCATCATTTGGTCTAAATAGTTTGTCATTTTGAAAACAACTTTTGGTCTTTA

                           *     *  *
        191 AATTAAAAACTTATTGACGTGGGAT
        193 AATTAAAAACTTATTTACGTGAGAA

                                *       *   *                  *         *   
        216 TTGTTTCTCTCTTGGTTCTTGGACGAACATCCAAACTTGTCAAACTTTTACAAGTTCTTTTCA-A
          1 TTGTTTCTCTCTTGGTTCTTAGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTTATA

                             *         * **          *            *          
        280 ACTTCGGTTCCTTGAAGTGTATT-ATAAATGATCCACTT-CATCGAGCAAT-TTTCGAACATTCC
         66 ACTTCGGTTCCTT-AA-AGTATTCA-AGACAATCCA-TTCCTTCGAGCAATATTCCGAACATTCC

              **          * *           *                   *       *        
        342 ATTTTC-AGGAAATCGAAT-ATTTTGGTTTAAATAGTTTGTCATTTTGTAAACAACATTTGGTCT
        127 ATGCTCGA-GAAATTGCATCA-TTTGGTCTAAATAGTTTGTCATTTTGAAAACAACTTTTGGTCT

              *                      *  
        405 TTGAATTAAAAACTTATTTACGTGAAAA
        190 TTAAATTAAAAACTTATTTACGTGAGAA

                         *      *        *      *   *                *       
        433 TTGTTTCTCTCTTAGTTCTTGGACGAACTACCGAACGTGTAAAACTTTTACGAGTT-ATTTTATA
          1 TTGTTTCTCTCTTGGTTCTTAGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTTATA

                                       *       *  *        *    *            
        497 ACTTCGGTTCCTTAAAGTATTCAAGACCATCCATTTCTACGAGCAATTTTCCAAACATTCCATGC
         66 ACTTCGGTTCCTTAAAGTATTCAAGACAATCCATTCCTTCGAGCAATATTCCGAACATTCCATGC

                           *                  *               *          *   
        562 TCGAGAAATTGCATCTTTTGGTCTAAATAGTTTGCCATTTTGAAAACCAAGTTTTGGTCTTCAAA
        131 TCGAGAAATTGCATCATTTGGTCTAAATAGTTTGTCATTTTGAAAA-CAACTTTTGGTCTTTAAA

                                   
        627 TTAAAAACTTATTTACGTGAGAA
        195 TTAAAAACTTATTTACGTGAGAA

                                    *   *   *     **    *      *           * 
        650 TTGTTTCTC-CTTTGGTTCTTAGATGAATTTCTGAACTACTCAAGCTTTTATGAGTTCTTTTTGT
          1 TTGTTTCTCTC-TTGGTTCTTAGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTTAT

                 *                                   * *                     
        714 AACTTTGGTTCCTTAAAGTATTCAAGACAATCCATTCCTTCAATCAATATTCCGAACATTCCATG
         65 AACTTCGGTTCCTTAAAGTATTCAAGACAATCCATTCCTTCGAGCAATATTCCGAACATTCCATG

                *     *        *                                      * *  * 
        779 CTCGGGAAATAGCATCATTCGGTCTAAATAGTTTGTCATTTTGAAAACAACTTTTCGGACATTGA
        130 CTCGAGAAATTGCATCATTTGGTCTAAATAGTTTGTCATTTTGAAAACAACTTTT-GGTCTTTAA

                             *       
        844 ATTAAAAA-TATATTTATGTGAGAA
        194 ATTAAAAACT-TATTTACGTGAGAA

              *            *         *      *           *       * *          
        868 TTATTTCTCT-TTCGATTCTTAGACAAACTTCTGAACTTGTCAAGCTTTTACTATTTCTTTTATA
          1 TTGTTTCTCTCTT-GGTTCTTAGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTT-T-

                                         *      *    *                       
        932 ATAACTTCGGTTCCTTAAAGTATTCAAGATAATCCAATCCTCCGAGCAATATTCCGAACATTCCA
         63 ATAACTTCGGTTCCTTAAAGTATTCAAGACAATCCATTCCTTCGAGCAATATTCCGAACATTCCA

                    *             
        997 TGCTCG-GGAATTCGCATCATT
        128 TGCTCGAGAAATT-GCATCATT

       1018 CGGGCAAAAT


Statistics
Matches: 659,  Mismatches: 116, Indels: 49
        0.80            0.14        0.06

Matches are distributed among these distances:
 214    2  0.00
 215   82  0.12
 216   66  0.10
 217  234  0.36
 218  195  0.30
 219    8  0.01
 220   72  0.11

ACGTcount: A:0.29, C:0.18, G:0.13, T:0.39


Consensus pattern (217 bp):   
TTGTTTCTCTCTTGGTTCTTAGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTTATA
ACTTCGGTTCCTTAAAGTATTCAAGACAATCCATTCCTTCGAGCAATATTCCGAACATTCCATGC
TCGAGAAATTGCATCATTTGGTCTAAATAGTTTGTCATTTTGAAAACAACTTTTGGTCTTTAAAT
TAAAAACTTATTTACGTGAGAA

Done.