Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007090.1 Kokia drynarioides strain JFW-HI SEQ_121699, 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: 5823
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.36


Found at i:433 original size:31 final size:34

Alignment explanation


    Indices: 398--461  Score: 89
    Period size: 33  Copynumber: 2.0  Consensus size: 34

        388 TTTTGGGCTA

                         *                    
        398 AAAAT-ATTTT-TGTTTTTAATTT-TTATTAAAT
          1 AAAATAATTTTATATTTTTAATTTATTATTAAAT

                                       *     
        429 AAAATAATTTTATATTTTTAATTTATTTTTAAA
          1 AAAATAATTTTATATTTTTAATTTATTATTAAA

        462 ATAATAAAAA


Statistics
Matches: 28,  Mismatches: 2, Indels: 3
        0.85            0.06        0.09

Matches are distributed among these distances:
  31    5  0.18
  32    5  0.18
  33   11  0.39
  34    7  0.25

ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59


Consensus pattern (34 bp):   
AAAATAATTTTATATTTTTAATTTATTATTAAAT

Found at i:2726 original size:29 final size:29

Alignment explanation


    Indices: 2694--2776  Score: 114
    Period size: 28  Copynumber: 2.9  Consensus size: 29

       2684 CGAAAATTAA

                    *                *   
       2694 TTTTTTCAGTTTTTAAGGGATCCAATTTT
          1 TTTTTTCAATTTTTAAGGGATCCAAATTT

                               *  *      
       2723 TTTTTTCAATTTTTAAGGGCT-TAAATTT
          1 TTTTTTCAATTTTTAAGGGATCCAAATTT

                     *                
       2751 TTTTTTCAACTTTTAAGGGATCCAAA
          1 TTTTTTCAATTTTTAAGGGATCCAAA

       2777 ACCCCAATTT


Statistics
Matches: 46,  Mismatches: 7, Indels: 2
        0.84            0.13        0.04

Matches are distributed among these distances:
  28   24  0.52
  29   22  0.48

ACGTcount: A:0.25, C:0.11, G:0.12, T:0.52


Consensus pattern (29 bp):   
TTTTTTCAATTTTTAAGGGATCCAAATTT

Done.