Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007416.1 Kokia drynarioides strain JFW-HI SEQ_122035, 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: 3841
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37


Found at i:2874 original size:24 final size:24

Alignment explanation


    Indices: 2828--2886  Score: 66
    Period size: 24  Copynumber: 2.4  Consensus size: 24

       2818 TTTTTTTTAT

                              *      
       2828 TATTCATTAATATTGTTCTTGAACA
          1 TATTCATT-ATATTGTTCATGAACA

                                     
       2853 TATTCAATTATA-TGTTCATGAACA
          1 TATTC-ATTATATTGTTCATGAACA

             *        
       2877 TGTTCGATTA
          1 TATTC-ATTA

       2887 AGTTAAATAA


Statistics
Matches: 30,  Mismatches: 3, Indels: 3
        0.83            0.08        0.08

Matches are distributed among these distances:
  24   19  0.63
  25    8  0.27
  26    3  0.10

ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46


Consensus pattern (24 bp):   
TATTCATTATATTGTTCATGAACA

Found at i:3753 original size:39 final size:37

Alignment explanation


    Indices: 3704--3784  Score: 99
    Period size: 37  Copynumber: 2.1  Consensus size: 37

       3694 GTAAATAATT

                           *                       
       3704 TTAAAATTATTAAAATTATTTTTTTAAAATATAAAACTA
          1 TTAAAATTATT-AAACTA-TTTTTTAAAATATAAAACTA

                *       *          *          *  
       3743 TTAATATTATTATACTATTTTTTGAAATATAAAATTA
          1 TTAAAATTATTAAACTATTTTTTAAAATATAAAACTA

                 
       3780 TTAAA
          1 TTAAA

       3785 TAATTTTAAT


Statistics
Matches: 36,  Mismatches: 6, Indels: 2
        0.82            0.14        0.05

Matches are distributed among these distances:
  37   22  0.61
  38    4  0.11
  39   10  0.28

ACGTcount: A:0.48, C:0.02, G:0.01, T:0.48


Consensus pattern (37 bp):   
TTAAAATTATTAAACTATTTTTTAAAATATAAAACTA
Done.