Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005090.1 Kokia drynarioides strain JFW-HI SEQ_118906, 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: 8441
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36


Found at i:6714 original size:20 final size:20

Alignment explanation


    Indices: 6691--6749  Score: 61
    Period size: 19  Copynumber: 3.0  Consensus size: 20

       6681 AAAATTACAA

                    *            
       6691 AAAAAATTTAAATAAATTT-T
          1 AAAAAATTCAAA-AAATTTAT

                         *      
       6711 -AAAAATTCAAAATATTTAT
          1 AAAAAATTCAAAAAATTTAT

                      *         
       6730 AAAAAATTC-CAAAATTTAT
          1 AAAAAATTCAAAAAATTTAT

             
       6749 A
          1 A

       6750 TTTTTTTAAA


Statistics
Matches: 33,  Mismatches: 4, Indels: 5
        0.79            0.10        0.12

Matches are distributed among these distances:
  18    5  0.15
  19   20  0.61
  20    8  0.24

ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36


Consensus pattern (20 bp):   
AAAAAATTCAAAAAATTTAT

Found at i:6732 original size:19 final size:18

Alignment explanation


    Indices: 6704--6749  Score: 58
    Period size: 20  Copynumber: 2.5  Consensus size: 18

       6694 AAATTTAAAT

                              
       6704 AAATTT-TAAAAATTCAA
          1 AAATTTATAAAAATTCAA

                              * 
       6721 AATATTTATAAAAAATTCCA
          1 AA-ATTTAT-AAAAATTCAA

                     
       6741 AAATTTATA
          1 AAATTTATA

       6750 TTTTTTTAAA


Statistics
Matches: 25,  Mismatches: 1, Indels: 5
        0.81            0.03        0.16

Matches are distributed among these distances:
  17    2  0.08
  18    5  0.20
  19    7  0.28
  20   11  0.44

ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37


Consensus pattern (18 bp):   
AAATTTATAAAAATTCAA

Found at i:6735 original size:21 final size:19

Alignment explanation


    Indices: 6711--6749  Score: 60
    Period size: 20  Copynumber: 2.0  Consensus size: 19

       6701 AATAAATTTT

                                
       6711 AAAAATTCAAAATATTTATA
          1 AAAAATTCAAAA-ATTTATA

                    *          
       6731 AAAAATTCCAAAATTTATA
          1 AAAAATTCAAAAATTTATA

       6750 TTTTTTTAAA


Statistics
Matches: 18,  Mismatches: 1, Indels: 1
        0.90            0.05        0.05

Matches are distributed among these distances:
  19    7  0.39
  20   11  0.61

ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33


Consensus pattern (19 bp):   
AAAAATTCAAAAATTTATA
Done.