Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012515.1 Kokia drynarioides strain JFW-HI SEQ_127520, 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: 3684
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33


Found at i:838 original size:42 final size:41

Alignment explanation


    Indices: 774--908  Score: 137
    Period size: 42  Copynumber: 3.2  Consensus size: 41

        764 TTGAATTAAC

                      *      *               **        
        774 CTTATGCTCCAACCGAGTCATAAGTCTTCCTTTTTACGCAAAT
          1 CTTATGCT-CTACCGAGACATAAGTCTTCCTTTAAAC-CAAAT

                                                **   
        817 CTTATGCTCTACCGAGACATAAGTCTTCCTTTAAACTTAAT
          1 CTTATGCTCTACCGAGACATAAGTCTTCCTTTAAACCAAAT

              *        *        *                      
        858 CTCATGCTCATCCCGAGACACAAGTCTTCCTTTAAA-CATAAT
          1 CTTATGCTC-TACCGAGACATAAGTCTTCCTTTAAACCA-AAT

              *      
        900 CTCATGCTC
          1 CTTATGCTC

        909 ATCCCGAGTC


Statistics
Matches: 79,  Mismatches: 11, Indels: 5
        0.83            0.12        0.05

Matches are distributed among these distances:
  41   11  0.14
  42   60  0.76
  43    8  0.10

ACGTcount: A:0.27, C:0.29, G:0.10, T:0.33


Consensus pattern (41 bp):   
CTTATGCTCTACCGAGACATAAGTCTTCCTTTAAACCAAAT

Found at i:909 original size:42 final size:42

Alignment explanation


    Indices: 814--956  Score: 198
    Period size: 42  Copynumber: 3.4  Consensus size: 42

        804 TTTTTACGCA

                 *        *        *                * 
        814 AATCTTATGCTC-TACCGAGACATAAGTCTTCCTTTAAACTT
          1 AATCTCATGCTCATCCCGAGACACAAGTCTTCCTTTAAACAT

                                                      
        855 AATCTCATGCTCATCCCGAGACACAAGTCTTCCTTTAAACAT
          1 AATCTCATGCTCATCCCGAGACACAAGTCTTCCTTTAAACAT

                                *   *             *    
        897 AATCTCATGCTCATCCCGAGTCACGAGTCTTCCATTTATACAT
          1 AATCTCATGCTCATCCCGAGACACAAGTCTTCC-TTTAAACAT

                     *       
        940 AATCTCATGTTCATCCC
          1 AATCTCATGCTCATCCC

        957 TACATTAGTC


Statistics
Matches: 92,  Mismatches: 8, Indels: 2
        0.90            0.08        0.02

Matches are distributed among these distances:
  41   11  0.12
  42   57  0.62
  43   24  0.26

ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33


Consensus pattern (42 bp):   
AATCTCATGCTCATCCCGAGACACAAGTCTTCCTTTAAACAT

Done.