Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002860.1 Kokia drynarioides strain JFW-HI SEQ_115260, 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: 2059
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32


Found at i:400 original size:8 final size:8

Alignment explanation


    Indices: 389--442  Score: 51
    Period size: 8  Copynumber: 6.8  Consensus size: 8

        379 TTTTATATTA

                    
        389 AAAAAATT
          1 AAAAAATT

                    
        397 --AAAATT
          1 AAAAAATT

                     
        403 AAAAAATCT
          1 AAAAAAT-T

                      
        412 AAAAATATAT
          1 AAAAA-AT-T

                    
        422 AAAAAATT
          1 AAAAAATT

             *      
        430 -TAAAATT
          1 AAAAAATT

                  
        437 AAAAAA
          1 AAAAAA

        443 AAAGCTAAAA


Statistics
Matches: 38,  Mismatches: 3, Indels: 10
        0.75            0.06        0.20

Matches are distributed among these distances:
   6    6  0.16
   7    6  0.16
   8   10  0.26
   9    8  0.21
  10    8  0.21

ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26


Consensus pattern (8 bp):   
AAAAAATT

Found at i:426 original size:19 final size:18

Alignment explanation


    Indices: 402--458  Score: 62
    Period size: 19  Copynumber: 3.2  Consensus size: 18

        392 AAATTAAAAT

                               
        402 TAAAAAATCTAAAAATATA
          1 TAAAAAATCTAAAAATA-A

                    *     *   
        421 TAAAAAATTTAAAATTAA
          1 TAAAAAATCTAAAAATAA

            *      *          
        439 AAAAAAAGCT-AAAATAA
          1 TAAAAAATCTAAAAATAA

               
        456 TAA
          1 TAA

        459 TTTTTGGATC


Statistics
Matches: 31,  Mismatches: 7, Indels: 2
        0.77            0.17        0.05

Matches are distributed among these distances:
  17    8  0.26
  18    8  0.26
  19   15  0.48

ACGTcount: A:0.70, C:0.04, G:0.02, T:0.25


Consensus pattern (18 bp):   
TAAAAAATCTAAAAATAA
Done.