Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01010804.1 Kokia drynarioides strain JFW-HI SEQ_125771, 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: 2183
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.37

Warning! 50 characters in sequence are not A, C, G, or T


Found at i:278 original size:17 final size:17

Alignment explanation


    Indices: 252--333  Score: 83
    Period size: 17  Copynumber: 4.7  Consensus size: 17

        242 AAATTTATTA

                       *      
        252 TAAATATAAATCTAAACT
          1 TAAA-ATAAATTTAAACT

                *           * 
        270 TAAATTAAATTTAAATTT
          1 TAAAATAAATTTAAA-CT

                **         * 
        288 TAAAGCAAATTTAAATT
          1 TAAAATAAATTTAAACT

                          *  
        305 TAAAATAAATTTAATCT
          1 TAAAATAAATTTAAACT

                        
        322 TAAAATAAATTT
          1 TAAAATAAATTT

        334 TAAAATGGGT


Statistics
Matches: 54,  Mismatches: 9, Indels: 3
        0.82            0.14        0.05

Matches are distributed among these distances:
  17   36  0.67
  18   18  0.33

ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40


Consensus pattern (17 bp):   
TAAAATAAATTTAAACT

Found at i:291 original size:7 final size:6

Alignment explanation


    Indices: 252--318  Score: 50
    Period size: 6  Copynumber: 11.5  Consensus size: 6

        242 AAATTTATTA

                 *      *     *                             * *     
        252 TAAATA TAAATC TAAACT TAAA-T TAAATT TAAATTT TAAA-G CAAATT
          1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAA-TT TAAATT TAAATT

                        *           
        299 TAAATT TAAA-A TAAATT TAA
          1 TAAATT TAAATT TAAATT TAA

        319 TCTTAAAATA


Statistics
Matches: 48,  Mismatches: 9, Indels: 8
        0.74            0.14        0.12

Matches are distributed among these distances:
   5   12  0.25
   6   30  0.62
   7    6  0.12

ACGTcount: A:0.55, C:0.04, G:0.01, T:0.39


Consensus pattern (6 bp):   
TAAATT
Done.