Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005273.1 Kokia drynarioides strain JFW-HI SEQ_119193, 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, 874

Length: 1458
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39


Found at i:377 original size:215 final size:215

Alignment explanation


    Indices: 1--1458  Score: 1564
    Period size: 215  Copynumber: 6.8  Consensus size: 215

                                   * *     *          *      *  *      **    
          1 TTTGTCATTTTGTAAACAACTTTCTATCTTTAAATTAAAAACATATTTAGGTTAGAATTGGTTGT
          1 TTTGTCATTTTGTAAACAACTTTTTGTCTTTGAATTAAAAACTTATTTACGTGAGAATTATTTGT

              *           *               *                                * 
         66 CTCTTGGTTCTTGGACGAACATTC-GAACTGGTAAAACTTTTACGAGTTCTTTTATAACATT-AG
         66 CTATTGGTTCTTGGCCGAAC-TTCTGAACTTGT-AAACTTTTACGAGTTCTTTTATAAC-TTCGG

                             *   *                      *     *              
        129 TTCCTTAAAGTATTCAAAACGGTCCATTCCTTCGAGGAATTTTTTGAACAATCCATGCT-GGGAA
        128 TTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGGAATTTTTCGAACATTCCATGCTCGGGAA

               *                   
        193 ATCACATCATTAGGTCCAAATAG
        193 ATCGCATCATTAGGTCCAAATAG

               **                   *           *                          * 
        216 TTTAACATTTTGTAAACAACTTTTGGTCTTTGAATTTAAAACTTATTTACGTGAGAATTATTTTT
          1 TTTGTCATTTTGTAAACAACTTTTTGTCTTTGAATTAAAAACTTATTTACGTGAGAATTATTTGT

                     *    *                      *          *      *    *    
        281 CTATTGGTTTTTGGTCGAACTTCTGAACTTGTATAACCTTTACGAGTTATTTTATTACTTTGGTT
         66 CTATTGGTTCTTGGCCGAACTTCTGAACTTGTA-AACTTTTACGAGTTCTTTTATAACTTCGGTT

                   *         *                   *   * *                     
        346 CCTTAAACTATTCAAGATGATCCATTCCTTCGAGGAACTTTCCAAACATTCCATGCTCGGGAAAT
        130 CCTTAAAGTATTCAAGACGATCCATTCCTTCGAGGAATTTTTCGAACATTCCATGCTCGGGAAAT

                         *       
        411 CGCATC-----GTGCAAATAG
        195 CGCATCATTAGGTCCAAATAG

                                          *                           * *    
        427 TTTGTCATTTTGTAAACAACTTTTTGTCTTCGAATTAAAAACTTATTTAC-TAGAGAACTGTTTG
          1 TTTGTCATTTTGTAAACAACTTTTTGTCTTTGAATTAAAAACTTATTTACGT-GAGAATTATTTG

                     * *          *              *            *            * 
        491 TCTATTGGTCCATGGCCGAACTCCTGAACTTGTCAAATTTTTACGAGTTCCTTTATAACTTCGAT
         65 TCTATTGGTTCTTGGCCGAACTTCTGAACTTGT-AAACTTTTACGAGTTCTTTTATAACTTCGGT

                                           *   *       *    *           *    
        556 TCCTTAAAGTATTCAAGACGATCCATTCCTTAGAGCAATTTTTTGAACGTTCCATGCTCGAGAAA
        129 TCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGGAATTTTTCGAACATTCCATGCTCGGGAAA

             *  *     *        *  
        621 TAGCGTCATTTGGTCCAAAAAG
        194 TCGCATCATTAGGTCCAAATAG

                                                              **            *
        643 TTTGTCATTTTGTAAACAACTTTTTTGTCTTTGAATTAAAAACTTATTTAAATGAGAATTATTTA
          1 TTTGTCATTTTGTAAACAAC-TTTTTGTCTTTGAATTAAAAACTTATTTACGTGAGAATTATTTG

            *        *   *          *    *              *    *               
        708 CCTATTGGTCCTTTGCCGAACTTCAGAACATGTCAAACTTTCT-TGAGTACTTTTATAACTTCGG
         65 TCTATTGGTTCTTGGCCGAACTTCTGAACTTGT-AAACTTT-TACGAGTTCTTTTATAACTTCGG

                 *  *        *        **                      *        *     
        772 TTCCTGAAGGTATTCAAAACGATCCAAACCTTC-AGGAATTTTTCGAACAATCCATGCTTGGGAA
        128 TTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGGAATTTTTCGAACATTCCATGCTCGGGAA

                  *                
        836 ATCGCAACATTAGGTCCAAATAG
        193 ATCGCATCATTAGGTCCAAATAG

               *                   **        *  *                          * 
        859 TTTATCATTTTGTAAACAACTTTCGGTCTTTGAGTTTAAAACTTATTTACGTGAGAATTATTTTT
          1 TTTGTCATTTTGTAAACAACTTTTTGTCTTTGAATTAAAAACTTATTTACGTGAGAATTATTTGT

              *           *            *       * *    *      *          *    
        924 CTCTTGGTTCTTGGTCGAACTTCTGAAATTGTATATCCTTTATGAGTTCCTTTATAACTTTGGTT
         66 CTATTGGTTCTTGGCCGAACTTCTGAACTTGTA-AACTTTTACGAGTTCTTTTATAACTTCGGTT

                       *     *  *                    * *          *  *       
        989 CCTTAAAGTATACAAGATGAACCATTCCTTCGAGGAATTTTCCAAACATTCCATTCTTGGGAAAT
        130 CCTTAAAGTATTCAAGACGATCCATTCCTTCGAGGAATTTTTCGAACATTCCATGCTCGGGAAAT

                     *           
       1054 CGCATCATTTGGTCCAAATAG
        195 CGCATCATTAGGTCCAAATAG

                                                               *        *   *
       1075 TTTGTCATTTTGTAAA-ACACTTTTTGTCTTTGAA-TAAAAACTTATTTACATGAGAATTGTTTA
          1 TTTGTCATTTTGTAAACA-ACTTTTTGTCTTTGAATTAAAAACTTATTTACGTGAGAATTATTTG

                     *                    *                               ** 
       1138 TCTATTGGTCCTTGGCCGAACTTCTGAACTAGTCAAACTTTTACGAGTTCTTTTATAACTTCAAT
         65 TCTATTGGTTCTTGGCCGAACTTCTGAACTTGT-AAACTTTTACGAGTTCTTTTATAACTTCGGT

                                       *       *       **           *   **   
       1203 TCCTTAAAGTATTCAAGACGATCCATTGCTTCGAGCAATTTTTTTAA-ATTTCCATTCTCAAGAA
        129 TCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGGAATTTTTCGAACA-TTCCATGCTCGGGAA

              *            *    *   
       1267 ATTGCATCATGTA-GACCAATTAG
        193 ATCGCATCAT-TAGGTCCAAATAG

                                     *               *       *               
       1290 TTTGTCATTTTGTAAACAACTTTTTATCTTTGAATTAAAAATTTATTTATGTGAGAA-TAGTTTG
          1 TTTGTCATTTTGTAAACAACTTTTTGTCTTTGAATTAAAAACTTATTTACGTGAGAATTA-TTTG

               *           *         *     *     *                       *   
       1354 TCTCTTGGTTCTTGGACGAA-TATCCGAACTGGTAAAATTTTACGAGTTCTTTTATAACTTAGGT
         65 TCTATTGGTTCTTGGCCGAACT-TCTGAACTTGTAAACTTTTACGAGTTCTTTTATAACTTCGGT

                            *     *            *     
       1418 TCCTTAAAGTATTCAAAACGATGCATTCCTTCGAGAAATTT
        129 TCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGGAATTT


Statistics
Matches: 1030,  Mismatches: 188, Indels: 50
        0.81            0.15        0.04

Matches are distributed among these distances:
 210    1  0.00
 211  174  0.17
 212    1  0.00
 214    9  0.01
 215  499  0.48
 216  229  0.22
 217  115  0.11
 218    2  0.00

ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39


Consensus pattern (215 bp):   
TTTGTCATTTTGTAAACAACTTTTTGTCTTTGAATTAAAAACTTATTTACGTGAGAATTATTTGT
CTATTGGTTCTTGGCCGAACTTCTGAACTTGTAAACTTTTACGAGTTCTTTTATAACTTCGGTTC
CTTAAAGTATTCAAGACGATCCATTCCTTCGAGGAATTTTTCGAACATTCCATGCTCGGGAAATC
GCATCATTAGGTCCAAATAG
Done.