Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003705.1 Kokia drynarioides strain JFW-HI SEQ_116646, 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: 1786
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42

Warning! 9 characters in sequence are not A, C, G, or T


Found at i:377 original size:216 final size:216

Alignment explanation


    Indices: 1--1786  Score: 2395
    Period size: 216  Copynumber: 8.3  Consensus size: 216

                                                      *                      
          1 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTG-TCTTTGTACGAACTTTCGAACTTGTCAAA
          1 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTC-TTGGACGAACTTTCGAACTTGTCAAA

                         *      *   **                        *              
         65 CTTTTACGAGTTACTTTTTATCTTTTGTTCCCTAAAGTATTCAACAAGATTCATTCCTTTGAGCA
         65 CTTTTACGAGTTATTTTTTAACTTCGGTTCCCTAAAGTATTCAACAAGATCCATTCCTTTGAGCA

                      *                             *                        
        130 ATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGCTCTAAATAGTTTGTCATTTTGTAA
        130 ATTTTTCGAATATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA

                                  
        195 ACAAGTTTTTGTCTTTGAATTA
        195 ACAAGTTTTTGTCTTTGAATTA

                        *    *     *   *                                     
        217 AAAACTTATTTATGTGAAAATTGCTTCCCTCTTTGTTCTTGGACGAACTTTCGAACTTGTCAAAC
          1 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTTCGAACTTGTCAAAC

             * *                    *       *    *                           
        282 TGTCACGAGTTATTTTTTAACTTCAGTTCCCTTAAGTTTTCAACAAGATCCATTCCTTTGAGCAA
         66 TTTTACGAGTTATTTTTTAACTTCGGTTCCCTAAAGTATTCAACAAGATCCATTCCTTTGAGCAA

                  *   *      *  *  *       *                                 
        347 TTTTTCAAATTTTCCATACTTGGAAAATCGCTTCATTTGGTCTAAATAGTTTGTCATTTTGTAAA
        131 TTTTTCGAATATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAA

                                 
        412 CAAGTTTTTGTCTTTGAATTA
        196 CAAGTTTTTGTCTTTGAATTA

                *                    *                *     *                
        433 AAAATTTATTTACGTGAGAATTGTTCCTCTCTTTG-TCTTTGTACGAAGTTTCGAACTTGTCAAA
          1 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTC-TTGGACGAACTTTCGAACTTGTCAAA

                   *                        *********                  *     
        497 CTTTTACAAGTTATTTTTTAACTTCGGTTCCCNNNNNNNNNCAACAAGATCCATTCCTTAGAGCA
         65 CTTTTACGAGTTATTTTTTAACTTCGGTTCCCTAAAGTATTCAACAAGATCCATTCCTTTGAGCA

                 *    *                             *     *  *  *         *  
        562 ATTTTCCGAACATTCCATGCTCGGGAAATCGCATCATTTGTTCTAAGTAATTCGTCATTTTGCAA
        130 ATTTTTCGAATATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA

                     * *          
        627 ACAAGTTTTAGACTTTGAATTA
        195 ACAAGTTTTTGTCTTTGAATTA

                       **                           *                 *      
        649 AAAACTTATTTTTGTGAGAATTGTTTCTCTCTTTGTTCTTCGACGAACTTTCGAACTTTTCAAAC
          1 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTTCGAACTTGTCAAAC

                          *         *          *                        *    
        714 TTTTACGAGTTATTCTTTAACTTCAGTTCCCTAAACTATTCAACAAGATCCATTCCTTTGTGCAA
         66 TTTTACGAGTTATTTTTTAACTTCGGTTCCCTAAAGTATTCAACAAGATCCATTCCTTTGAGCAA

                      *       *                                              
        779 TTTTTCGAATTTTCCATAACT-GGGAAATCGCATCATTTGGT-TAAAATAGTTTGTCATTTTGTA
        131 TTTTTCGAATATTCCAT-GCTCGGGAAATCGCATCATTTGGTCT-AAATAGTTTGTCATTTTGTA

                                   
        842 AACAAGTTTTTGTCTTTGAATTA
        194 AACAAGTTTTTGTCTTTGAATTA

                            *                         *  *                   
        865 AAAACTTATTTACGTGTGAATTGTTTCTCTCTTTG-TCTTTGTACTAACTTTCGAACTTGTCAAA
          1 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTC-TTGGACGAACTTTCGAACTTGTCAAA

                    *                                                  *     
        929 CTTTTACGGGTTATTTTTTAACTTCGGTTCCCTAAAGTATTCAACAAGATCCATTCCTTCGAGCA
         65 CTTTTACGAGTTATTTTTTAACTTCGGTTCCCTAAAGTATTCAACAAGATCCATTCCTTTGAGCA

                 *    *                    *              *  *               
        994 ATTTTCCGAACATTCCATGCTCGGGAAATCGTATCATTTGGTCTAATTAATTTGTCATTTTGTAA
        130 ATTTTTCGAATATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA

                        *          
       1059 ACAAG-TTTTGCACTTTGAATTA
        195 ACAAGTTTTTG-TCTTTGAATTA

                         *                              *                    
       1081 AAAACTTATTTACATGAGAATTGTTTCTCTCTTTGTTCTTGG-CAAACTTTCGAACTTGTCAAAC
          1 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTTCGAACTTGTCAAAC

                                    *               *                        
       1145 TTTTACGAGTTATTTTTTAACTTCAGTTCCCTAAAGTATTTAACAAGATCCATTCCTTTGAGCAA
         66 TTTTACGAGTTATTTTTTAACTTCGGTTCCCTAAAGTATTCAACAAGATCCATTCCTTTGAGCAA

                  *          *  *        ***      *                        **
       1210 TTTTTCTAATATTCCATCCTTGGGAAATCATTTCATTTCGTCTAAATAGTTTGTCATTTTGTATC
        131 TTTTTCGAATATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAA

                                 
       1275 CAAGTTTTTGTCTTTGAATTA
        196 CAAGTTTTTGTCTTTGAATTA

                                                  *                     *    
       1296 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCCTGGACGAACTTTCGAACTTGTTAAAC
          1 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTTCGAACTTGTCAAAC

                  *    *    *         *   *     *      * *                   
       1361 TTTTACTAGTTCTTTTATAACTTCGGATCCTTAAAGAATTCAAGACGATCCATT-CTTTCGAGCA
         66 TTTTACGAGTTATTTTTTAACTTCGGTTCCCTAAAGTATTCAACAAGATCCATTCCTTT-GAGCA

                   *  *   *           *              *    *               *  
       1425 ATTTTTCAAACATTTCATGCTCGGGAGATCGCATCATTTGGCCTAATTAGTTTGTCATTTTGCAA
        130 ATTTTTCGAATATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA

                     *            
       1490 ACAAGTTTTGGTCTTTGAATTA
        195 ACAAGTTTTTGTCTTTGAATTA

                                                      *                      
       1512 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTG-TCTTTGTACGAACTTTCGAACTTGTCAAA
          1 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTC-TTGGACGAACTTTCGAACTTGTCAAA

             *           *                                                   
       1576 CATTTACGAGTTACTTTTTAAC-TCGGTTCCCTAAAGTATTCAACAAGATCCATTCCTTTGAGCA
         65 CTTTTACGAGTTATTTTTTAACTTCGGTTCCCTAAAGTATTCAACAAGATCCATTCCTTTGAGCA

             *     *   *  *   *  ** *       *                             *  
       1640 AATTTTCAAATTTTTCATACTTTGAAAATCGCTTCATTTGGTCTAAATAGTTTGTCATTTTGAAA
        130 ATTTTTCGAATATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA

                                  
       1705 ACAAGTTTTTGTCTTTGAATTA
        195 ACAAGTTTTTGTCTTTGAATTA

                *       *                         *                     
       1727 AAAATTTATTTATGTGAGAATTGTTTCTCTCTTTGTTCCTGGACGAACTTTCGAACTTGT
          1 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTTCGAACTTGT


Statistics
Matches: 1360,  Mismatches: 194, Indels: 33
        0.86            0.12        0.02

Matches are distributed among these distances:
 215  366  0.27
 216  985  0.72
 217    9  0.01

ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42


Consensus pattern (216 bp):   
AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTTCGAACTTGTCAAAC
TTTTACGAGTTATTTTTTAACTTCGGTTCCCTAAAGTATTCAACAAGATCCATTCCTTTGAGCAA
TTTTTCGAATATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAA
CAAGTTTTTGTCTTTGAATTA

Done.