Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01013042.1 Kokia drynarioides strain JFW-HI SEQ_128060, 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: 2470
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30


Found at i:876 original size:32 final size:32

Alignment explanation


    Indices: 796--862  Score: 125
    Period size: 32  Copynumber: 2.1  Consensus size: 32

        786 TAAAAATATT

                         *                  
        796 TAAATTAAATCCTGAAAACAAAAGATAATTTC
          1 TAAATTAAATCCTAAAAACAAAAGATAATTTC

                                            
        828 TAAATTAAATCCTAAAAACAAAAGATAATTTC
          1 TAAATTAAATCCTAAAAACAAAAGATAATTTC

               
        860 TAA
          1 TAA

        863 TTTTGAATTT


Statistics
Matches: 34,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  32   34  1.00

ACGTcount: A:0.55, C:0.12, G:0.04, T:0.28


Consensus pattern (32 bp):   
TAAATTAAATCCTAAAAACAAAAGATAATTTC

Found at i:931 original size:23 final size:23

Alignment explanation


    Indices: 905--955  Score: 93
    Period size: 23  Copynumber: 2.2  Consensus size: 23

        895 CCATCTTTGC

                                   
        905 TGACTAAACCTTCTAGAAGCTGT
          1 TGACTAAACCTTCTAGAAGCTGT

                  *                
        928 TGACTAGACCTTCTAGAAGCTGT
          1 TGACTAAACCTTCTAGAAGCTGT

                 
        951 TGACT
          1 TGACT

        956 GGATGCCACG


Statistics
Matches: 27,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  23   27  1.00

ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31


Consensus pattern (23 bp):   
TGACTAAACCTTCTAGAAGCTGT

Found at i:1739 original size:12 final size:11

Alignment explanation


    Indices: 1694--1740  Score: 51
    Period size: 11  Copynumber: 4.2  Consensus size: 11

       1684 TAAGCAACCA

                       
       1694 TTTTTTT-CTT
          1 TTTTTTTCCTT

                  *     
       1704 CTTTTTCTCCTT
          1 -TTTTTTTCCTT

                       
       1716 TTTTTTTCCTT
          1 TTTTTTTCCTT

                    *   
       1727 TTTTCTTTTCTT
          1 TTTT-TTTCCTT

              
       1739 TT
          1 TT

       1741 CGAACCTTTT


Statistics
Matches: 31,  Mismatches: 3, Indels: 3
        0.84            0.08        0.08

Matches are distributed among these distances:
  11   20  0.65
  12   11  0.35

ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81


Consensus pattern (11 bp):   
TTTTTTTCCTT
Done.