Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001092.1 Kokia drynarioides strain JFW-HI SEQ_112353, 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, 920

Length: 1534
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29


Found at i:238 original size:29 final size:29

Alignment explanation


    Indices: 206--436  Score: 243
    Period size: 29  Copynumber: 7.8  Consensus size: 29

        196 TTTGGGAAAA

                             *      *     
        206 TTCGGGGTCAAAAATGGGATTTTTAGAAG-
          1 TTCGGGGT-AAAAATGGAATTTTTGGAAGT

                                       *  
        235 TTCGAGGGTAAAAATGGAATTTTTGGAGGT
          1 TTCG-GGGTAAAAATGGAATTTTTGGAAGT

                *            *            
        265 TTCGAGGTCAAAAATGGGATTTTTGGAAG-
          1 TTCGGGGT-AAAAATGGAATTTTTGGAAGT

                           *         *    
        294 TTCGGGGGTAAAAATAGAATTTTTGAAAGT
          1 TTC-GGGGTAAAAATGGAATTTTTGGAAGT

                *            *            
        324 TTCGAGGTCAAAAATGGGATTTTTGGAAG-
          1 TTCGGGGT-AAAAATGGAATTTTTGGAAGT

                           *         *    
        353 TTCGGGGGTAAAAATAGAATTTTTGAAAGT
          1 TTC-GGGGTAAAAATGGAATTTTTGGAAGT

              *    *         *            
        383 TTTGAGGTTAAAAATGGGATTTTTGGAAGT
          1 TTCG-GGGTAAAAATGGAATTTTTGGAAGT

              *                     
        413 TTGGGGGTAAAAATGGAATTTTTG
          1 TTCGGGGTAAAAATGGAATTTTTG

        437 AATAATTTAG


Statistics
Matches: 167,  Mismatches: 26, Indels: 18
        0.79            0.12        0.09

Matches are distributed among these distances:
  29   87  0.52
  30   80  0.48

ACGTcount: A:0.32, C:0.04, G:0.30, T:0.34


Consensus pattern (29 bp):   
TTCGGGGTAAAAATGGAATTTTTGGAAGT

Found at i:435 original size:59 final size:59

Alignment explanation


    Indices: 206--438  Score: 376
    Period size: 59  Copynumber: 3.9  Consensus size: 59

        196 TTTGGGAAAA

                *                   *        *          *         * *  
        206 TTCGGGGTCAAAAATGGGATTTTTAGAAGTTCGAGGGTAAAAATGGAATTTTTGGAGGT
          1 TTCGAGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATAGAATTTTTGAAAGT

                                                                       
        265 TTCGAGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATAGAATTTTTGAAAGT
          1 TTCGAGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATAGAATTTTTGAAAGT

                                                                       
        324 TTCGAGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATAGAATTTTTGAAAGT
          1 TTCGAGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATAGAATTTTTGAAAGT

              *     *                      *            *           
        383 TTTGAGGTTAAAAATGGGATTTTTGGAAGTTTGGGGGTAAAAATGGAATTTTTGAA
          1 TTCGAGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATAGAATTTTTGAA

        439 TAATTTAGGG


Statistics
Matches: 164,  Mismatches: 10, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  59  164  1.00

ACGTcount: A:0.33, C:0.04, G:0.30, T:0.33


Consensus pattern (59 bp):   
TTCGAGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATAGAATTTTTGAAAGT
Done.