Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005021.1 Kokia drynarioides strain JFW-HI SEQ_118782, 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: 1898
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29


Found at i:65 original size:29 final size:29

Alignment explanation


    Indices: 32--131  Score: 105
    Period size: 29  Copynumber: 3.4  Consensus size: 29

         22 ATTAAAATTA

                                         
         32 TTTAATAATTTTATTATTTAAAAAATAAT
          1 TTTAATAATTTTATTATTTAAAAAATAAT

                          *    *          
         61 TTTAATAATTTTA-AATTTTAAAAATAAAT
          1 TTTAATAATTTTATTATTTAAAAAAT-AAT

             **  *    *       *           
         90 TAAAAAAATTATATT-TTAAAAAAATAATT
          1 TTTAATAATTTTATTATTTAAAAAATAA-T

                         
        119 TTTAATAATTTTA
          1 TTTAATAATTTTA

        132 AAATTATTTG


Statistics
Matches: 55,  Mismatches: 13, Indels: 6
        0.74            0.18        0.08

Matches are distributed among these distances:
  28   12  0.22
  29   43  0.78

ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48


Consensus pattern (29 bp):   
TTTAATAATTTTATTATTTAAAAAATAAT

Found at i:121 original size:15 final size:16

Alignment explanation


    Indices: 89--123  Score: 54
    Period size: 16  Copynumber: 2.2  Consensus size: 16

         79 TAAAAATAAA

                      *     
         89 TTAAAAAAATTATATT
          1 TTAAAAAAATAATATT

                            
        105 TTAAAAAAATAAT-TT
          1 TTAAAAAAATAATATT

                
        120 TTAA
          1 TTAA

        124 TAATTTTAAA


Statistics
Matches: 18,  Mismatches: 1, Indels: 1
        0.90            0.05        0.05

Matches are distributed among these distances:
  15    6  0.33
  16   12  0.67

ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43


Consensus pattern (16 bp):   
TTAAAAAAATAATATT
Done.