Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01013991.1 Kokia drynarioides strain JFW-HI SEQ_129022, 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: 5213
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.37


Found at i:4482 original size:7 final size:7

Alignment explanation


    Indices: 4470--4523  Score: 56
    Period size: 7  Copynumber: 7.9  Consensus size: 7

       4460 TGACTCGACC

                   
       4470 CGTTGAT
          1 CGTTGAT

                   
       4477 CGTTGAT
          1 CGTTGAT

            * *   *
       4484 AGGTGAC
          1 CGTTGAT

                   
       4491 CGTTGAT
          1 CGTTGAT

                   
       4498 CGTTGAT
          1 CGTTGAT

            *      
       4505 AGTTGA-
          1 CGTTGAT

             *     
       4511 CTTTGAT
          1 CGTTGAT

                  
       4518 CGTTGA
          1 CGTTGA

       4524 CTTTTTTCAA


Statistics
Matches: 36,  Mismatches: 10, Indels: 2
        0.75            0.21        0.04

Matches are distributed among these distances:
   6    4  0.11
   7   32  0.89

ACGTcount: A:0.19, C:0.13, G:0.30, T:0.39


Consensus pattern (7 bp):   
CGTTGAT

Found at i:4495 original size:21 final size:21

Alignment explanation


    Indices: 4469--4523  Score: 85
    Period size: 21  Copynumber: 2.7  Consensus size: 21

       4459 TTGACTCGAC

                                 
       4469 CCGTTGATCGTTGATAGGTGA
          1 CCGTTGATCGTTGATAGGTGA

                             *   
       4490 CCGTTGATCGTTGATAGTTGA
          1 CCGTTGATCGTTGATAGGTGA

              *           
       4511 -CTTTGATCGTTGA
          1 CCGTTGATCGTTGA

       4524 CTTTTTTCAA


Statistics
Matches: 32,  Mismatches: 2, Indels: 1
        0.91            0.06        0.03

Matches are distributed among these distances:
  20   12  0.38
  21   20  0.62

ACGTcount: A:0.18, C:0.15, G:0.29, T:0.38


Consensus pattern (21 bp):   
CCGTTGATCGTTGATAGGTGA
Done.