Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006216.1 Kokia drynarioides strain JFW-HI SEQ_120787, 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, 833

Length: 1389
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40


Found at i:807 original size:216 final size:216

Alignment explanation


    Indices: 1--1385  Score: 1514
    Period size: 215  Copynumber: 6.5  Consensus size: 216

                               * **                    *    *                
          1 TTACGAGTTCTTTTATAACATCGGTTCCTTAAAGTATTCAAGATGATCGATTCCTTCGAGCAATT
          1 TTACGAGTTCTTTTATAACTTTTGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATT

                                               *     *                       
         66 TTTTGAACATTCC-TGGCTCGGGAAATCGCATCATCTGGTCCAAATAGTTTGTCATTTTGTAAAC
         66 TTTTGAACATTCCAT-GCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAC

                  *                    **   *                                
        130 AACTTTGGGTCTTTGAATTAAAAACTTCCTTAGGTGAGAA-TGTTTCTCTCTTGGTTCTTGG-TC
        130 AACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCT-

                  * *  *           
        193 GAACTTTCAAAGTTGTCAAACTT
        194 GAACTTCCGAACTTGTCAAACTT

                     *            *                      *            *      
        216 TTACGAGTTATTTTATAAC-TTCGATTCCTTAAAGTATTCAAGACAATCCATTCCTTCAAGCAAT
          1 TTACGAGTTCTTTTATAACTTTTG-TTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAAT

                               *                     *                 *     
        280 TTTTTGAACATTCCATGCTTGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTATAAAC
         65 TTTTTGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAC

                    *        *               *      *         *         ** **
        345 AACTTTTGCTCTTTGAAATAAAAACTTATTTACCTGAGAAATGTTTCTCTATTGGTTCTTCACCA
        130 AACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTG

                       *          
        410 AACTTCCGAACATGTCAAACTT
        195 AACTTCCGAACTTGTCAAACTT

               *                                  *                      **  
        432 TTAAGAGTT-TTTTATAAC-TTTGTTTCC-TAAAGGTACTCAAGACGATCCATTCCTTC-AAAAC
          1 TTACGAGTTCTTTTATAACTTTTG-TTCCTTAAA-GTATTCAAGACGATCCATTCCTTCGAGCA-

                     *            **       *      *   *     *  *             
        493 ATTTTTTGAGCATTCCATGCTCAAGAAATCGTATCATTCGGTTTACAAAAGGTTGTCATTTTGTA
         63 ATTTTTTGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTA-AATAGTTTGTCATTTTGTA

                  *     *              *        * * *            *    *      
        558 AA-AACATTTGGCCTTTGAATTAAAAAATTATTTACTTAAAAATTGTTTCTCTGTTGGATCTTGG
        127 AACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGG

                            *      * 
        622 CTGAACTTCCGAACTTTTCAAACAT
        192 CTGAACTTCCGAACTTGTCAAACTT

                *              *           *           *    *                
        647 TTACAAGTTCTTTTATAACATTTGTTCCTTACAGTATTCAAGATGATCAATTCCTTCGAGCAATT
          1 TTACGAGTTCTTTTATAACTTTTGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATT

              ***       *     *       *                                      
        712 TTCCAAACATTCAATGCTTGGGAAATTGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACA
         66 TTTTGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACA

                                                    *               *        
        777 ACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATCGTTTCTCTCTTGGTTATT-G--G-
        131 ACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGA

                                 
        838 ----CCGAACTTGTCAAACTT
        196 ACTTCCGAACTTGTCAAACTT

              *          *         *  *                *                     
        855 TTTCGAGTTCTTTCATAACTTTTATTTCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCAATT
          1 TTACGAGTTCTTTTATAACTTTTGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATT

              ***       *          *   *    *      *          *              
        920 TTCCAAACATTCAATGCTCGGGAGATCACATCTTTTGGTGTAAATAGTTTTTCATTTTGTAAACA
         66 TTTTGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACA

                  **             *        *     *    *          *         *  
        985 ACTTTTTATCTTTGAATTAAAGACTTATTTTCGTGACAATTATTTCTCTCTTTGTTCTTGGCCGA
        131 ACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGA

                  *              
       1050 ACTTCCAAACTTGTCAAACTT
        196 ACTTCCGAACTTGTCAAACTT

                     *                                 *             ** *    
       1071 TTACGAGTTGTTTT-TAAACTTTTGTTCCTTAAAGTATTCAAGGCGATCCATTCCTTTTACCAAT
          1 TTACGAGTTCTTTTAT-AACTTTTGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAAT

               *               ** *     *                                 *  
       1135 TTTCTGAACATTCCATGCTTAGTAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGTACAC
         65 TTTTTGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAC

                  *            *                              *   *          
       1200 AACTTTAGGTCTTTGAATTTAAAACTTATTTACGTGAGAATTGTTTCTCTATTGATTCTTGGCCT
        130 AACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGG-CT

                  *     *          
       1265 -AACTTTCGAACATGTCAAACTT
        194 GAACTTCCGAACTTGTCAAACTT

            *   *             *    *     *                              *    
       1287 ATACAAGTT-TTTTATAATTTTTTTTCCTAAAAGTATTCAAGACGATCCATTCCTTCGAGTAATT
          1 TTACGAGTTCTTTTATAACTTTTGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATT

               *               **              
       1351 TTTCGAACATTCCATGCTCAAGAAATCGCATCATT
         66 TTTTGAACATTCCATGCTCGGGAAATCGCATCATT

       1386 AGGT


Statistics
Matches: 974,  Mismatches: 173, Indels: 46
        0.82            0.15        0.04

Matches are distributed among these distances:
 208  180  0.18
 209    1  0.00
 211    1  0.00
 213    1  0.00
 214    8  0.01
 215  393  0.40
 216  380  0.39
 217   10  0.01

ACGTcount: A:0.28, C:0.18, G:0.13, T:0.40


Consensus pattern (216 bp):   
TTACGAGTTCTTTTATAACTTTTGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATT
TTTTGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACA
ACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGA
ACTTCCGAACTTGTCAAACTT
Done.