Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012951.1 Kokia drynarioides strain JFW-HI SEQ_127969, 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: 6211
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35


Found at i:1805 original size:28 final size:28

Alignment explanation


    Indices: 1761--1863  Score: 77
    Period size: 27  Copynumber: 3.7  Consensus size: 28

       1751 AATTTTTATT

                                         
       1761 TTTTATTTTTTAA-TTTTAAGTGATCCAA
          1 TTTT-TTTTTTAATTTTTAAGTGATCCAA

                               *  * **  
       1789 TTTTTTTTTTAATTTTT-ATTGGTTAAA
          1 TTTTTTTTTTAATTTTTAAGTGATCCAA

                   * *  *       *  *     
       1816 TTTTTTTATCAACTTTTAAGGGTTTCCAA
          1 TTTTTTTTTTAATTTTTAAGTG-ATCCAA

                       *        
       1845 -TTTTTTTTTAGTTTTTAAG
          1 TTTTTTTTTTAATTTTTAAG

       1864 GGTTTAAATT


Statistics
Matches: 56,  Mismatches: 16, Indels: 6
        0.72            0.21        0.08

Matches are distributed among these distances:
  27   28  0.50
  28   25  0.45
  29    3  0.05

ACGTcount: A:0.23, C:0.06, G:0.09, T:0.62


Consensus pattern (28 bp):   
TTTTTTTTTTAATTTTTAAGTGATCCAA

Found at i:1839 original size:27 final size:27

Alignment explanation


    Indices: 1811--1874  Score: 74
    Period size: 28  Copynumber: 2.3  Consensus size: 27

       1801 TTTTTATTGG

                                        
       1811 TTAAATTTTTTTATCAACTTTTAAGGGT
          1 TTAAATTTTTTT-TCAACTTTTAAGGGT

               *          * **          
       1839 TTCCAATTTTTTTTTAGTTTTTAAGGGT
          1 TT-AAATTTTTTTTCAACTTTTAAGGGT

                    
       1867 TTAAATTT
          1 TTAAATTT

       1875 ATTGTTTTTA


Statistics
Matches: 30,  Mismatches: 5, Indels: 3
        0.79            0.13        0.08

Matches are distributed among these distances:
  27    5  0.17
  28   16  0.53
  29    9  0.30

ACGTcount: A:0.25, C:0.06, G:0.11, T:0.58


Consensus pattern (27 bp):   
TTAAATTTTTTTTCAACTTTTAAGGGT

Done.