Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001673.1 Kokia drynarioides strain JFW-HI SEQ_113336, 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, 846

Length: 1410
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34


Found at i:1032 original size:87 final size:87

Alignment explanation


    Indices: 885--1106  Score: 311
    Period size: 87  Copynumber: 2.6  Consensus size: 87

        875 GGAGCTTCTA

                         *      *                                        *   
        885 CTTCTGATTCTGGGGATGCTACCTCCCCTGAACTCAAAAGTACCCTTTCAGTTTCCGGAGGTGGC
          1 CTTCTGATTCTGGAGATGCTGCCTCCCCTGAACTCAAAAGTACCCTTTCAGTTTCCGGAGGCGGC

                                  
        950 ATGCCATCAAAAGAATTCTCCC
         66 ATGCCATCAAAAGAATTCTCCC

                                                              *     *        
        972 CTTCTGATTCTGGAGAAT-CTGCCTCCCCTGAACTCAAAAGTACCCTTTCGGTTTCTGGAGGCGG
          1 CTTCTGATTCTGGAG-ATGCTGCCTCCCCTGAACTCAAAAGTACCCTTTCAGTTTCCGGAGGCGG

                 *      * *       *
       1036 CATGCTATCAAACGGATTCTCCT
         65 CATGCCATCAAAAGAATTCTCCC

                *     *           *             *           
       1059 CTTCCGATTCAGGAGATGCTGCTTCCCCTGAACTCATAAGTACCCTTT
          1 CTTCTGATTCTGGAGATGCTGCCTCCCCTGAACTCAAAAGTACCCTTT

       1107 TGGCTTCCGG


Statistics
Matches: 120,  Mismatches: 13, Indels: 4
        0.88            0.09        0.03

Matches are distributed among these distances:
  86    2  0.02
  87  116  0.97
  88    2  0.02

ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29


Consensus pattern (87 bp):   
CTTCTGATTCTGGAGATGCTGCCTCCCCTGAACTCAAAAGTACCCTTTCAGTTTCCGGAGGCGGC
ATGCCATCAAAAGAATTCTCCC

Found at i:1145 original size:87 final size:86

Alignment explanation


    Indices: 885--1148  Score: 307
    Period size: 87  Copynumber: 3.0  Consensus size: 86

        875 GGAGCTTCTA

                         *      *                            *               
        885 CTTCTGATTCTGGGGATGCTACCTCCCCTGAACTCAAAAGTACCCTTTCAGTTTCCGGAGGTGGC
          1 CTTCTGATTCTGGAGATGCTGCCTCCCCTGAACTCAAAAGTACCCTTTCGGTTTCCGGAGGTGGC

                *        *       *
        950 ATGCCATCAAAAGAATTCTCCC
         66 ATGCAATC-AAAGGATTCTCCT

                                                                    *     *  
        972 CTTCTGATTCTGGAGAAT-CTGCCTCCCCTGAACTCAAAAGTACCCTTTCGGTTTCTGGAGGCGG
          1 CTTCTGATTCTGGAG-ATGCTGCCTCCCCTGAACTCAAAAGTACCCTTTCGGTTTCCGGAGGTGG

                 *                 
       1036 CATGCTATCAAACGGATTCTCCT
         65 CATGCAATCAAA-GGATTCTCCT

                *     *           *             *           *  *        * *  
       1059 CTTCCGATTCAGGAGATGCTGCTTCCCCTGAACTCATAAGTACCCTTTTGGCTTCCGGAGATTGC
          1 CTTCTGATTCTGGAGATGCTGCCTCCCCTGAACTCAAAAGTACCCTTTCGGTTTCCGGAGGTGGC

                             *     
       1124 AT-CAAATCGAAAGGATCCTCCT
         66 ATGC-AATC-AAAGGATTCTCCT

               
       1146 CTT
          1 CTT

       1149 GTCCTACTAC


Statistics
Matches: 152,  Mismatches: 20, Indels: 10
        0.84            0.11        0.05

Matches are distributed among these distances:
  86    6  0.04
  87  141  0.93
  88    5  0.03

ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29


Consensus pattern (86 bp):   
CTTCTGATTCTGGAGATGCTGCCTCCCCTGAACTCAAAAGTACCCTTTCGGTTTCCGGAGGTGGC
ATGCAATCAAAGGATTCTCCT
Done.