Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007969.1 Kokia drynarioides strain JFW-HI SEQ_122617, 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: 1964
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33


Found at i:1657 original size:17 final size:17

Alignment explanation


    Indices: 1629--1704  Score: 98
    Period size: 17  Copynumber: 4.4  Consensus size: 17

       1619 AACTGGTCCC

                              
       1629 TTTATAATTTATTTTAAA
          1 TTTA-AATTTATTTTAAA

                *            
       1647 TTTAGATTTATTTTAAA
          1 TTTAAATTTATTTTAAA

                      *     *
       1664 TTTAAATTTAATTTAAT
          1 TTTAAATTTATTTTAAA

                             *
       1681 TTTAAATTTAATTTTAAT
          1 TTTAAATTT-ATTTTAAA

                  
       1699 TTTAAA
          1 TTTAAA

       1705 AAGTCCAAAA


Statistics
Matches: 52,  Mismatches: 5, Indels: 2
        0.88            0.08        0.03

Matches are distributed among these distances:
  17   35  0.67
  18   17  0.33

ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59


Consensus pattern (17 bp):   
TTTAAATTTATTTTAAA

Found at i:1671 original size:23 final size:23

Alignment explanation


    Indices: 1641--1700  Score: 95
    Period size: 23  Copynumber: 2.6  Consensus size: 23

       1631 TATAATTTAT

                                    
       1641 TTTAAATTTAGATTT-ATTTTAAA
          1 TTTAAATTTA-ATTTAATTTTAAA

                                   
       1664 TTTAAATTTAATTTAATTTTAAA
          1 TTTAAATTTAATTTAATTTTAAA

                 *        
       1687 TTTAATTTTAATTT
          1 TTTAAATTTAATTT

       1701 TAAAAAGTCC


Statistics
Matches: 35,  Mismatches: 1, Indels: 2
        0.92            0.03        0.05

Matches are distributed among these distances:
  22    4  0.11
  23   31  0.89

ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60


Consensus pattern (23 bp):   
TTTAAATTTAATTTAATTTTAAA

Found at i:1701 original size:6 final size:6

Alignment explanation


    Indices: 1639--1703  Score: 64
    Period size: 6  Copynumber: 11.2  Consensus size: 6

       1629 TTTATAATTT

                    *                     *      *                  
       1639 ATTTTA AATTTA GA-TTT- ATTTTA AATTTA AATTTA A-TTTA ATTTTA
          1 ATTTTA ATTTTA -ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA

             *                    
       1685 AATTTA ATTTTA ATTTTA A
          1 ATTTTA ATTTTA ATTTTA A

       1704 AAAGTCCAAA


Statistics
Matches: 51,  Mismatches: 4, Indels: 8
        0.81            0.06        0.13

Matches are distributed among these distances:
   4    1  0.02
   5    8  0.16
   6   41  0.80
   7    1  0.02

ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58


Consensus pattern (6 bp):   
ATTTTA
Done.