Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006356.1 Kokia drynarioides strain JFW-HI SEQ_120932, 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, 755

Length: 1259
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30


Found at i:838 original size:42 final size:43

Alignment explanation


    Indices: 774--890  Score: 132
    Period size: 42  Copynumber: 2.7  Consensus size: 43

        764 CTGAATTAAC

                      *      *                  *       
        774 CTTATGCTCCAACCGAGTCATAAGTCTTCCTTTTTACAC-AAAT
          1 CTTATGCT-CTACCGAGACATAAGTCTTCCTTTTTAAACTAAAT

                                                   *   
        817 CTTATGCTCTACCGAGACATAAGTCTTCC--TTTAAACTTAAT
          1 CTTATGCTCTACCGAGACATAAGTCTTCCTTTTTAAACTAAAT

              *        *        *            
        858 CTCATGCTCATCCCGAGACACAAGTCTTCCTTT
          1 CTTATGCTC-TACCGAGACATAAGTCTTCCTTT

        891 AAACATAATC


Statistics
Matches: 63,  Mismatches: 7, Indels: 7
        0.82            0.09        0.09

Matches are distributed among these distances:
  40    6  0.10
  41   11  0.17
  42   37  0.59
  43    8  0.13
  44    1  0.02

ACGTcount: A:0.26, C:0.29, G:0.10, T:0.34


Consensus pattern (43 bp):   
CTTATGCTCTACCGAGACATAAGTCTTCCTTTTTAAACTAAAT

Found at i:891 original size:42 final size:42

Alignment explanation


    Indices: 786--956  Score: 202
    Period size: 42  Copynumber: 4.0  Consensus size: 42

        776 TATGCTCCAA

                 *  *               *         *        *
        786 CCGAGTCATAAGTCTTCCTTTTTACACA-AATCTTATGCTC-TA
          1 CCGAGACACAAGTCTTCC--TTTAAACATAATCTCATGCTCATC

                    *                *                
        828 CCGAGACATAAGTCTTCCTTTAAACTTAATCTCATGCTCATC
          1 CCGAGACACAAGTCTTCCTTTAAACATAATCTCATGCTCATC

                                                      
        870 CCGAGACACAAGTCTTCCTTTAAACATAATCTCATGCTCATC
          1 CCGAGACACAAGTCTTCCTTTAAACATAATCTCATGCTCATC

                 *   *             *             *     
        912 CCGAGTCACGAGTCTTCCATTTATACATAATCTCATGTTCATC
          1 CCGAGACACAAGTCTTCC-TTTAAACATAATCTCATGCTCATC

              
        955 CC
          1 CC

        957 TACATTAGTC


Statistics
Matches: 115,  Mismatches: 11, Indels: 5
        0.88            0.08        0.04

Matches are distributed among these distances:
  40    6  0.05
  41   11  0.10
  42   74  0.64
  43   24  0.21

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


Consensus pattern (42 bp):   
CCGAGACACAAGTCTTCCTTTAAACATAATCTCATGCTCATC

Done.