Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005154.1 Kokia drynarioides strain JFW-HI SEQ_118999, 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: 2803
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30


Found at i:1141 original size:96 final size:95

Alignment explanation


    Indices: 977--1204  Score: 287
    Period size: 96  Copynumber: 2.4  Consensus size: 95

        967 TGAAGCGGTT

                 *     *       *       * *     *      *                      
        977 ATCTTTCTGATAAGATACAAAGAAGTGGACCAAAACAATGAAGTAGAGCTCAACATCCTTAAGGT
          1 ATCTTCCTGATGAGATACAGAGAAGTGTATCAAAATAATGAAATAGAGCTCAACATCCTTAAGGT

                                           
       1042 TACAGTGGAATAGAGCGAAACTTCAAAACCC
         66 TACAGTGGAATAGAGCGAAACTTC-AAACCC

                  *                                              **      *   
       1073 ATCTTCTTGATGAGATACAGAGAAGTGTATCAAAATAATGAAATAGAGCTCAATGT-CTATGAGG
          1 ATCTTCCTGATGAGATACAGAGAAGTGTATCAAAATAATGAAATAGAGCTCAACATCCT-TAAGG

                      *        *           
       1137 TTACAGTGGAGTAGAGCGATACTTCAAACCC
         65 TTACAGTGGAATAGAGCGAAACTTCAAACCC

                     *              *   *        
       1168 ATCTTCCTGGTGAGATACAGAGAAATGTGTCAAAATA
          1 ATCTTCCTGATGAGATACAGAGAAGTGTATCAAAATA

       1205 GGTAGCAGAT


Statistics
Matches: 114,  Mismatches: 17, Indels: 3
        0.85            0.13        0.02

Matches are distributed among these distances:
  95   41  0.36
  96   73  0.64

ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24


Consensus pattern (95 bp):   
ATCTTCCTGATGAGATACAGAGAAGTGTATCAAAATAATGAAATAGAGCTCAACATCCTTAAGGT
TACAGTGGAATAGAGCGAAACTTCAAACCC

Found at i:1479 original size:46 final size:45

Alignment explanation


    Indices: 1355--1480  Score: 153
    Period size: 45  Copynumber: 2.8  Consensus size: 45

       1345 TACATCATCG

                   *                                   * 
       1355 TCTAATCGTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCACTA
          1 TCTAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCACCA

              *            *  *        *       *    *   *
       1400 TCCAATCTTTTACCCTTACTCAAGAGGAGCAGATTTAAGCTACCG
          1 TCTAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCACCA

             *                                  
       1445 TTTAATCTTTTACCCCTAAGTCAAGAGGGGCAGATT
          1 TCTAATCTTTTACCCCTAA-TCAAGAGGGGCAGATT

       1481 AAAGTTGTAA


Statistics
Matches: 66,  Mismatches: 14, Indels: 1
        0.81            0.17        0.01

Matches are distributed among these distances:
  45   51  0.77
  46   15  0.23

ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29


Consensus pattern (45 bp):   
TCTAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCACCA
Done.