Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01010020.1 Kokia drynarioides strain JFW-HI SEQ_124785, 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: 2625
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.37

Warning! 187 characters in sequence are not A, C, G, or T


Found at i:699 original size:216 final size:214

Alignment explanation


    Indices: 1--1593  Score: 1616
    Period size: 216  Copynumber: 7.4  Consensus size: 214

                                                          *      *           
          1 GGGAAGTCGCATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAGGTTTTGGCCTTTGAATTA
          1 GGGAAGTCGCATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAAGTTTTGACCTTTGAATTA

                                    *       *                  **      *     
         66 AAAACTTATTTACGTGAGAATCGTTTCTCTCTTGGTTCTTGGACGAAATTCTTAAATTAACAAAC
         66 AAAACTTATTTACGTGAGAATCGTGTCTCTCTGGGTTCTTGGACGAAATTCCGAAATTATCAAAC

                               *   *         *   * *    *       *         *  
        131 TTTTACGAGTTCTTTTATAGCTTCGGTTCATTAAAGTGTCCAAGACGATCCATTCCTTCGAGTAA
        131 TTTTACGAGTTCTTTTATAACTTTGGTTC-TTATAGTATTCAAGTCGATCCAATCCTTCGAGCAA

                *        *       
        196 TTTTCCGAACATTCCATGCGA
        195 TTTTTC-AACATTACATGCGA

                 *              *    *               *     *       *         
        217 GGGAAATCGCATCATTTGGTGTAAATAGTTT-TACATTTTGGAAACATGTTTTGATCTTTGAATT
          1 GGGAAGTCGCATCATTTGGTCTAAAAAGTTTGT-CATTTTGTAAACAAGTTTTGACCTTTGAATT

                  *       *       *   *  *   **   *         *           *  * 
        281 AAAAACATATTTACTTGAGAATTGTGCCTGTCTTTGTTATTGGACGAACTTCC-AAACTTGTCCA
         65 AAAAACTTATTTACGTGAGAATCGTGTCTCTCTGGGTTCTTGGACGAAATTCCGAAA-TTATCAA

                        *                                                  * 
        345 ACTTTTACGAGTCCTTTTAT-ACTTTGGTTTCTTATAGTATTCAAGTCGATCCAATCCTTCGAAC
        129 ACTTTTACGAGTTCTTTTATAACTTTGG-TTCTTATAGTATTCAAGTCGATCCAATCCTTCGAGC

                                 **
        409 AATTTTTCAATCATTACATGCTC
        193 AATTTTTCAA-CATTACATGCGA

                              *                     *            *           
        432 GGGAAGTCGCATCATTTGTTCTAAAAAGTTTGTCATTTTGAAAACAAGTTTTGGCCTTTGAATTA
          1 GGGAAGTCGCATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAAGTTTTGACCTTTGAATTA

                                    *  *                       **      *     
        497 AAAACTTATTTACGTGAGAATCGTTTCGCTCTGGGTTCTTGGACGAAATTCTTAAATTAACAAAC
         66 AAAACTTATTTACGTGAGAATCGTGTCTCTCTGGGTTCTTGGACGAAATTCCGAAATTATCAAAC

                  *   *  **    *   **        *   * *             *        ** 
        562 TTTTACAAGTACTCCTATAGCTTCAGTTCATTAAAGTGTCCAAGAT-GATCCATTCCTTCGATTA
        131 TTTTACGAGTTCTTTTATAACTTTGGTTC-TTATAGTATTCAAG-TCGATCCAATCCTTCGAGCA

                          *       
        626 ATTTTTCGAACATTCCATGCGA
        194 ATTTTTC-AACATTACATGCGA

            *    *                   *     *                      *          
        648 TGGAAATCGCATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGATCTTTGAATTA
          1 GGGAAGTCGCATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAAGTTTTGACCTTTGAATTA

                *     *    *     *                   *  *            *   * * 
        713 AAAATTTATTGACGTAAGAATTGTGTCTCTCTTGGG-TCTTCGATGAACA-TCCGAACTTGTTGA
         66 AAAACTTATTTACGTGAGAATCGTGTCTCTC-TGGGTTCTTGGACGAA-ATTCCGAAATT-ATCA

                              *                *              *              
        776 AA-TTTTACGAGTTCTTTAATAACTTTGGTTTCTTGTAGTATTCAAGTCGGTCCAATCCTTCGAG
        128 AACTTTTACGAGTTCTTTTATAACTTTGG-TTCTTATAGTATTCAAGTCGATCCAATCCTTCGAG

                *                 **
        840 CAATATTTCAAACATTACATGCTC
        192 CAATTTTTC-AACATTACATGCGA

             *        * *      *                                * *         *
        864 GAGAAGTCGCCTAATTTGGCCTAAAAAGTTTGTCATTTTGTAAACAAGTTTTAATCTTTGAATTG
          1 GGGAAGTCGCATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAAGTTTTGACCTTTGAATTA

                           *     *                      *            *  * ** 
        929 AAAACTTATTTACGTAAGAATTGTGTCTCTCTTGGG-TCTTGGATGAACA-TCCGAACTTGTTGA
         66 AAAACTTATTTACGTGAGAATCGTGTCTCTC-TGGGTTCTTGGACGAA-ATTCCGAAATTATCAA

                                          *                                  
        992 ACTTTTACGAGTTCTTTTATAACTTTGGTTTTTATAGTATTCAAGTCGATCCAATCCTTCGAGCA
        129 ACTTTTACGAGTTCTTTTATAACTTTGGTTCTTATAGTATTCAAGTCGATCCAATCCTTCGAGCA

                                **
       1057 ATTTTTCAATCATTACATGCTC
        194 ATTTTTCAA-CATTACATGCGA

                              * *                   *            *           
       1079 GGGAAGTCGCATCATTTGTTATAAAAAGTTTGTCATTTTGCAAACAAGTTTTGGCCTTTGAATTA
          1 GGGAAGTCGCATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAAGTTTTGACCTTTGAATTA

                                    *                          **      *     
       1144 AAAACTTATTTACGTGAGAATCGTTTCTCTCTGGGTTCTTGGACGAAATTCTTAAATTAACAAAC
         66 AAAACTTATTTACGTGAGAATCGTGTCTCTCTGGGTTCTTGGACGAAATTCCGAAATTATCAAAC

                 *             *   **        *   *  * * *       *         *  
       1209 TTTTATGAG----TTTATAGCTTCAGTTCATTAAAGTGTTTAGGACGATCCATTCCTTCGAGTAA
        131 TTTTACGAGTTCTTTTATAACTTTGGTTC-TTATAGTATTCAAGTCGATCCAATCCTTCGAGCAA

                *        *       
       1270 TTTTCCGAACATTCCATGCGA
        195 TTTTTC-AACATTACATGCGA

                 *  *                       *        *             *         
       1291 GGGAAATCTCATCATTTGGTCTAAATAA-TTTTTCATTTTGAAAACAAGTTTTGATCTTTGAATT
          1 GGGAAGTCGCATCATTTGGTCTAAA-AAGTTTGTCATTTTGTAAACAAGTTTTGACCTTTGAATT

                            *     *      *               *            *  * **
       1355 AAAAACTTATTTACGTAAGAATTGTGTCTTTCTTGGG-TCTTGGATGAACA-TCCGAACTTGTTG
         65 AAAAACTTATTTACGTGAGAATCGTGTCTCTC-TGGGTTCTTGGACGAA-ATTCCGAAATTATCA

                         *                                                  *
       1418 AACTTTTACGAGTACTTTTATAACTTTGGTTTCTTATAGTATTCAAGTCGATCCAATCCTTCGAA
        128 AACTTTTACGAGTTCTTTTATAACTTTGG-TTCTTATAGTATTCAAGTCGATCCAATCCTTCGAG

                                  **
       1483 CAATTTTTCAATCATTACATGCTC
        192 CAATTTTTCAA-CATTACATGCGA

                              *                     *            *           
       1507 GGGAAGTCGCATCATTTGTTCTAAAAAGTTTGTCATTTTGCAAACAAGTTTTGGCCTTTGAATTA
          1 GGGAAGTCGCATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAAGTTTTGACCTTTGAATTA

                                  
       1572 AAAACTTATTTACGTGAGAATC
         66 AAAACTTATTTACGTGAGAATC

       1594 NNNNNNNNNN


Statistics
Matches: 1126,  Mismatches: 220, Indels: 62
        0.80            0.16        0.04

Matches are distributed among these distances:
 211   12  0.01
 212  150  0.13
 213    9  0.01
 214    9  0.01
 215  338  0.30
 216  591  0.52
 217   17  0.02

ACGTcount: A:0.28, C:0.16, G:0.16, T:0.39


Consensus pattern (214 bp):   
GGGAAGTCGCATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAAGTTTTGACCTTTGAATTA
AAAACTTATTTACGTGAGAATCGTGTCTCTCTGGGTTCTTGGACGAAATTCCGAAATTATCAAAC
TTTTACGAGTTCTTTTATAACTTTGGTTCTTATAGTATTCAAGTCGATCCAATCCTTCGAGCAAT
TTTTCAACATTACATGCGA
Done.