Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012423.1 Kokia drynarioides strain JFW-HI SEQ_127427, 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, 889

Length: 1482
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.38

Warning! 50 characters in sequence are not A, C, G, or T


Found at i:375 original size:216 final size:214

Alignment explanation


    Indices: 1--484  Score: 763
    Period size: 216  Copynumber: 2.3  Consensus size: 214

                                                                  *          
          1 TTACGAGTTATTTTTTAACTTTGCTTCCCTAAAGTATTCAACAAGATCCATTCCTTAGAGCTATT
          1 TTACGAGTTATTTTTTAACTTTGCTTCCCTAAAGTATTCAACAAGATCCATTCCGTAGAGCTATT

                *                                                            
         66 TTCCGAACACTCCATTCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACA
         66 TTCCAAACACTCCATTCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACA

                                                       *        *            
        131 AGTTTTGACCTTTGAATTAAAAACTTATTTACGTGAGAAATGTTTCTCTCTTTGTTCTTGGACGA
        131 AGTTTTGACCTTTGAATTAAAAACTTATTTACGTGAGAAATG-CT-TCTCTTGGTTCTTGGACGA

                *                
        196 ACTTTCAAACTTGTCAAACTT
        194 ACTTCCAAACTTGTCAAACTT

                                                                             
        217 TTACGAGTTATTTTTTAACTTTGCTTCCCTAAAGTATTCAACAAGATCCATTCCGTAGAGCTATT
          1 TTACGAGTTATTTTTTAACTTTGCTTCCCTAAAGTATTCAACAAGATCCATTCCGTAGAGCTATT

                                                                             
        282 TTCCAAACACTCCATTCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACA
         66 TTCCAAACACTCCATTCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACA

                   **                              *                    *    
        347 AGTTTTGTTCTTTGAATTAAAAACTTATTTACGTGAGAATTGCTTCTCTTGGTTCTTGGATGAAC
        131 AGTTTTGACCTTTGAATTAAAAACTTATTTACGTGAGAAATGCTTCTCTTGGTTCTTGGACGAAC

                *              
        412 TTCCGAACTTGTCAAACTT
        196 TTCCAAACTTGTCAAACTT

                 *    *   *       * **   *            * *          
        431 TTACTAAG-TCTTTGTTAACTTCGGATCCATAAAGTATTCAAGACGATCCATTCC
          1 TTAC-GAGTTATTTTTTAACTTTGCTTCCCTAAAGTATTCAACAAGATCCATTCC

        485 TTCGAGCGTT


Statistics
Matches: 248,  Mismatches: 19, Indels: 4
        0.92            0.07        0.01

Matches are distributed among these distances:
 214   78  0.31
 215    3  0.01
 216  167  0.67

ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39


Consensus pattern (214 bp):   
TTACGAGTTATTTTTTAACTTTGCTTCCCTAAAGTATTCAACAAGATCCATTCCGTAGAGCTATT
TTCCAAACACTCCATTCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACA
AGTTTTGACCTTTGAATTAAAAACTTATTTACGTGAGAAATGCTTCTCTTGGTTCTTGGACGAAC
TTCCAAACTTGTCAAACTT

Found at i:1356 original size:216 final size:216

Alignment explanation


    Indices: 572--1453  Score: 1010
    Period size: 215  Copynumber: 4.1  Consensus size: 216

        562 NNNNNNNNNN

                    *                *                          *    *       
        572 ACTTTTACAAGTTCTTTTATAACATCGGATCCTTAAAGTATTCAAGACGATCTATTCTTTCGAAC
          1 ACTTTTACTAGTTCTTTTATAACATTGGATCCTTAAAGTATTCAAGACGATCCATTCCTTCGAAC

                   *              *    *  *                *                 
        637 AATTTTTGGAACATTCCATGCTTGGGATATTGCATCATTTGGTCTAAGTAGTTTATCATTTTGCA
         66 AATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTATCATTTTGCA

                                                  *    *         *       *   
        702 AACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTAAGAATTGTTTCTCTATTTGTTCTTGG
        131 AACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAAATGTTTCTCTCTTTGTTCATGG

                    *            
        767 ACGAACTTTCAAAC-TGTCAA
        196 ACGAACTTCCAAACTTGTCAA

             *      *    *    *    *   **   * **                  *      *  *
        787 AATTTTACGAGTTATTTTTTAACTTTGCTTCCCTCGAGTATTCATAGA-GATCCCTTCCTTAGAG
          1 ACTTTTACTAGTTCTTTTATAACATTGGATCCTTAAAGTATTCA-AGACGATCCATTCCTTCGAA

             *            *  *                                     *        *
        851 CTATTTTTCGAACACTCAATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGT
         65 CAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTATCATTTTGC

                       **       *                           *         *    * 
        916 AAACAAGTTTTCTTCTTTGATTTAAAAACTTATTTACGTGAG-AATGGCTTCTCTCTTGGTTCTT
        130 AAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAAAT-GTTTCTCTCTTTGTTCAT

              *         *          
        980 GGGCGAACTTCCGAACTTGTCAA
        194 GGACGAACTTCCAAACTTGTCAA

                       *                     *                              *
       1003 ACTTTTACTAGGTCTTTT-TAAC-TTCGGATCCATAAAGTATTCAAGACGATCCATTCCTTCGAG
          1 ACTTTTACTAGTTCTTTTATAACATT-GGATCCTTAAAGTATTCAAGACGATCCATTCCTTCGAA

             **     *                        *                     *         
       1066 CGTTTTTTTGAACATTCCATGCTCGGGAAATCGAATCATTTGGTCTAAATAGTTTGTCATTTTGC
         65 CAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTATCATTTTGC

                                                                             
       1131 AAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAAATGTTTCTCTCTTTGTTCATG
        130 AAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAAATGTTTCTCTCTTTGTTCATG

                       *   *      
       1196 GACGAACTTCCGAACATGTCAA
        195 GACGAACTTCCAAACTTGTCAA

                 **                    *                    *   *    *       
       1218 ACTTTCGCTAGTTCTTTTATAACATTGAATCCTTAAAGTATTCAAGACTATCTATTCTTTCGAAC
          1 ACTTTTACTAGTTCTTTTATAACATTGGATCCTTAAAGTATTCAAGACGATCCATTCCTTCGAAC

                 *  *           * *          *                               
       1283 AATTTCTCAAACATTCCATGGTTGGGAAATCGCTTCATTTGGTCTAAATAGTTTATCATTTTGCA
         66 AATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTATCATTTTGCA

            *                                      * *         *  *          
       1348 GACAAGTTTTGGTCTTTGACA-TAAAAAC---TTTACGTTAAAAATGTTTCACTTTTTGTT-ATT
        131 AACAAGTTTTGGTCTTTGA-ATTAAAAACTTATTTACGTGAGAAATGTTTCTCTCTTTGTTCA-T

                      **           
       1408 GGACGAACTTTAAAACTTGTCAA
        194 GGACGAACTTCCAAACTTGTCAA

                    *    *    *    
       1431 ACTTTTACGAGTTATTTTTTAAC
          1 ACTTTTACTAGTTCTTTTATAAC

       1454 TTTGCTTCCC


Statistics
Matches: 561,  Mismatches: 96, Indels: 22
        0.83            0.14        0.03

Matches are distributed among these distances:
 212    1  0.00
 213   63  0.11
 214    7  0.01
 215  344  0.61
 216  143  0.25
 217    3  0.01

ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40


Consensus pattern (216 bp):   
ACTTTTACTAGTTCTTTTATAACATTGGATCCTTAAAGTATTCAAGACGATCCATTCCTTCGAAC
AATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTATCATTTTGCA
AACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAAATGTTTCTCTCTTTGTTCATGG
ACGAACTTCCAAACTTGTCAA
Done.