Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01013293.1 Kokia drynarioides strain JFW-HI SEQ_128315, 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, 970

Length: 1617
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41


Found at i:383 original size:216 final size:217

Alignment explanation


    Indices: 3--1617  Score: 2144
    Period size: 216  Copynumber: 7.5  Consensus size: 217

          1 AG

                          *    *                                             
          3 ATCGCATCATTTGGCCTAATTAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAATTAAAAAC
          1 ATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAATTAAAAAC

                             *                   *      *                    
         68 TTATTTACGTGAGAATTATTTCTCTCTTTGTCT-TTGTACGAACATTCGAACTTGTCAAACTTTT
         66 TTATTTACGTGAGAATTGTTTCTCTCTTTGTCTCTTGGACGAACTTTCGAACTTGTCAAACTTTT

                    *                                                        
        132 ACGAGTTACTTTTTAACTTCGGTTCCCTGAAGTATTCAACAAGATCCATTCCTTTGAGCAATTTT
        131 ACGAGTTATTTTTTAACTTCGGTTCCCTGAAGTATTCAACAAGATCCATTCCTTTGAGCAATTTT

                                  
        197 CCGAACATTCCATGCTCGGGAA
        196 CCGAACATTCCATGCTCGGGAA

                                               *  *        *    *      *     
        219 ATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAACCAAGTTTTTGTCTATGAATTCAAAAC
          1 ATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAATTAAAAAC

                                         *       *                           
        284 TTATTTACGTGAGAATTGTTTCTCTCTTTATCT-TTGTACGAACTTTCGAACTTGTCAAACTTTT
         66 TTATTTACGTGAGAATTGTTTCTCTCTTTGTCTCTTGGACGAACTTTCGAACTTGTCAAACTTTT

              *                *        *         *               *          
        348 ACAAGTTATTTTTTAACTTTGGTTCCCTAAAGTATTCATCAAGATCCATTCCTTAGAGCAATTTT
        131 ACGAGTTATTTTTTAACTTCGGTTCCCTGAAGTATTCAACAAGATCCATTCCTTTGAGCAATTTT

             **                   
        413 CTAAACATTCCATGCTCGGGAA
        196 CCGAACATTCCATGCTCGGGAA

                *          *      *       *   *    *        **  *            
        435 ATCGTATCATTTGGTTTAAATAATTTGTCAGTTTCCAAATAAGTTTTGCACTCTGAATTAAAAAC
          1 ATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAATTAAAAAC

                                                                         *  *
        500 TTATTTACGTGAGAATTGTTTCTCTCTTTG-CTCTTGGACGAACTTTCGAACTTGTCAAACATTC
         66 TTATTTACGTGAGAATTGTTTCTCTCTTTGTCTCTTGGACGAACTTTCGAACTTGTCAAACTTTT

                      *         *          * *                               
        564 ACGAGTTATTCTTTAACTTCAGTTCCCTGAACTGTTCAACAAGATCCATTCCTTTGAGCAATTTT
        131 ACGAGTTATTTTTTAACTTCGGTTCCCTGAAGTATTCAACAAGATCCATTCCTTTGAGCAATTTT

               * *           *     
        629 CCGTATATTCCAT-CGTTGGGAA
        196 CCGAACATTCCATGC-TCGGGAA

                **                    *        * **                          
        651 ATCGTTTCATTTGGTCTAAATAGTTTCTCATTTTGTATCCAAGTTTTGGTCTTTGAATTAAAAAC
          1 ATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAATTAAAAAC

                                                                             
        716 TTATTTACGTGAGAATTGTTTCTCTCTTTGT-TCTTGGACGAACTTTCGAACTTGTCAAACTTTT
         66 TTATTTACGTGAGAATTGTTTCTCTCTTTGTCTCTTGGACGAACTTTCGAACTTGTCAAACTTTT

                    *   *      *  *   * *          * *         *   *         
        780 AC----TAGTTTATAACTTTGGATCCTTAAAGTATTCAAGACGATCCATTCATTTCAGCAATTTT
        131 ACGAGTTATTTTTTAACTTCGGTTCCCTGAAGTATTCAACAAGATCCATTCCTTTGAGCAATTTT

             *   **            *  
        841 CTGAATTTTCCATGCTCGGCAA
        196 CCGAACATTCCATGCTCGGGAA

                                         *                     *             
        863 ATCGCATCATTTGGTCTAAATAGTTTGTCGTTTTGCAAACAAGTTTTGGTCGTTGAATTAAAAAC
          1 ATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAATTAAAAAC

                                                                             
        928 TTATTTACGTGAGAATTGTTTCTCTCTTTGT-TCTTGGACGAACTTTCGAACTTGTCAAACTTTT
         66 TTATTTACGTGAGAATTGTTTCTCTCTTTGTCTCTTGGACGAACTTTCGAACTTGTCAAACTTTT

              *    *    *         *   *            * *                       
        992 ACTAGTTCTTTTATAACTTCGGATCCTTGAAGTATTCAAGACGATCCATT-CTTTCGAGCAATTT
        131 ACGAGTTATTTTTTAACTTCGGTTCCCTGAAGTATTCAACAAGATCCATTCCTTT-GAGCAATTT

             * *      *           *
       1056 TTCAAACATTTCATGCTCGGGAG
        195 TCCGAACATTCCATGCTCGGGAA

                          *    *                                          *  
       1079 ATCGCATCATTTGGCCTAATTAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAATTAAACAC
          1 ATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAATTAAAAAC

                    *              *     *       *                         * 
       1144 TTATTTACATGAGAATTGTTTCTTTCTTTCTCT-TTGTACGAACTTTCGAACTTGTCAAACTTCT
         66 TTATTTACGTGAGAATTGTTTCTCTCTTTGTCTCTTGGACGAACTTTCGAACTTGTCAAACTTTT

                    *                   *          *                         
       1208 ACGAGTTACTTTTTAACTTCGGTTCCCTAAAGTATTCAATAAGATCCATTCCTTTGAGCAATCTT
        131 ACGAGTTATTTTTTAACTTCGGTTCCCTGAAGTATTCAACAAGATCCATTCCTTTGAGCAAT-TT

               *             *     
       1273 T-CAAACATTCCATGCTTGGGAA
        195 TCCGAACATTCCATGCTCGGGAA

               *                  *     *                   *                
       1295 ATCACATCATTTGGTCTAAATAATTTGTTATTTTGCAAACAAGTTTTGCTCTTTGAATTAAAAAC
          1 ATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAATTAAAAAC

              *                  *                         *      *          
       1360 TTTTTTACGTGAGAATTGTTTATCTCTTTGT-TCTTGGACGAACTTTTGAACTTTTCAAACTTTT
         66 TTATTTACGTGAGAATTGTTTCTCTCTTTGTCTCTTGGACGAACTTTCGAACTTGTCAAACTTTT

             *                  *                                     *      
       1424 AAGAGTTATTTTTTAACTTCAGTTCCCTGAAGTATTCAACAAGATCCATTCCTTTGAGAAATTTT
        131 ACGAGTTATTTTTTAACTTCGGTTCCCTGAAGTATTCAACAAGATCCATTCCTTTGAGCAATTTT

            *    *       *  *  *  
       1489 TCGAATATTCCATCCTTGGTAA
        196 CCGAACATTCCATGCTCGGGAA

               * *                *            * **                          
       1511 ATCACTTCATTTGGTCTAAATAATTTGTCATTTTGTATCCAAGTTTTGGTCTTTGAATTAAAAAC
          1 ATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAATTAAAAAC

                                                       
       1576 TTATTTACGTGAGAATTGTTTCTCTCTTTGT-TCTTGGACGAA
         66 TTATTTACGTGAGAATTGTTTCTCTCTTTGTCTCTTGGACGAA


Statistics
Matches: 1224,  Mismatches: 161, Indels: 28
        0.87            0.11        0.02

Matches are distributed among these distances:
 212  183  0.15
 213    1  0.00
 215   10  0.01
 216  1022  0.83
 217    8  0.01

ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41


Consensus pattern (217 bp):   
ATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAATTAAAAAC
TTATTTACGTGAGAATTGTTTCTCTCTTTGTCTCTTGGACGAACTTTCGAACTTGTCAAACTTTT
ACGAGTTATTTTTTAACTTCGGTTCCCTGAAGTATTCAACAAGATCCATTCCTTTGAGCAATTTT
CCGAACATTCCATGCTCGGGAA

Done.