Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01011049.1 Kokia drynarioides strain JFW-HI SEQ_126020, 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: 21195
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34


Found at i:13910 original size:26 final size:24

Alignment explanation


    Indices: 13872--13946  Score: 87
    Period size: 24  Copynumber: 3.0  Consensus size: 24

      13862 AGCTTATAAC

                    *               
      13872 TGTTTACGCTCGTCAGCTTACATA
          1 TGTTTACGTTCGTCAGCTTACATA

                   *             *  * 
      13896 TGCGTTTGCGTTCGTCAGCTTGCACA
          1 T--GTTTACGTTCGTCAGCTTACATA

                           *        
      13922 TGTTTACGTTCGTCAACTTACATA
          1 TGTTTACGTTCGTCAGCTTACATA

             
      13946 T
          1 T

      13947 ATACTTACAC


Statistics
Matches: 41,  Mismatches: 8, Indels: 4
        0.77            0.15        0.08

Matches are distributed among these distances:
  24   21  0.51
  26   20  0.49

ACGTcount: A:0.19, C:0.24, G:0.19, T:0.39


Consensus pattern (24 bp):   
TGTTTACGTTCGTCAGCTTACATA

Found at i:13931 original size:24 final size:24

Alignment explanation


    Indices: 13872--13943  Score: 81
    Period size: 26  Copynumber: 2.9  Consensus size: 24

      13862 AGCTTATAAC

                    *             * 
      13872 TGTTTACGCTCGTCAGCTTACATA
          1 TGTTTACGTTCGTCAGCTTACACA

                   *             *    
      13896 TGCGTTTGCGTTCGTCAGCTTGCACA
          1 T--GTTTACGTTCGTCAGCTTACACA

                           *      
      13922 TGTTTACGTTCGTCAACTTACA
          1 TGTTTACGTTCGTCAGCTTACA

      13944 TATATACTTA


Statistics
Matches: 39,  Mismatches: 7, Indels: 4
        0.78            0.14        0.08

Matches are distributed among these distances:
  24   19  0.49
  26   20  0.51

ACGTcount: A:0.18, C:0.25, G:0.19, T:0.38


Consensus pattern (24 bp):   
TGTTTACGTTCGTCAGCTTACACA

Found at i:20130 original size:23 final size:23

Alignment explanation


    Indices: 20077--20130  Score: 56
    Period size: 23  Copynumber: 2.3  Consensus size: 23

      20067 AATTTATAAC

                                    
      20077 TTTTTGTTAATTATTTATTATTAA
          1 TTTTT-TTAATTATTTATTATTAA

            * *                *    
      20101 CTATTTTAATTATGTT-TTGTTAA
          1 TTTTTTTAATTAT-TTATTATTAA

                   
      20124 TTTTTTT
          1 TTTTTTT

      20131 TCAGAAGGAA


Statistics
Matches: 24,  Mismatches: 5, Indels: 3
        0.75            0.16        0.09

Matches are distributed among these distances:
  23   19  0.79
  24    5  0.21

ACGTcount: A:0.24, C:0.02, G:0.06, T:0.69


Consensus pattern (23 bp):   
TTTTTTTAATTATTTATTATTAA
Done.