Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006320.1 Kokia drynarioides strain JFW-HI SEQ_120895, 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: 22715
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35

Warning! 6 characters in sequence are not A, C, G, or T


Found at i:3891 original size:79 final size:79

Alignment explanation


    Indices: 3756--3918  Score: 274
    Period size: 79  Copynumber: 2.1  Consensus size: 79

       3746 ACGTAAACGT

                                    *                *                       
       3756 TAAA-TTCTCCAAAAGTATTAAGATTTCTCAACTTTAATGGGTATCTTTCTAAGGTTGTAAAATA
          1 TAAATTTCTCCAAAAGTATTAAGAATTCTCAACTTTAATGGATATCTTTCTAAGGTTGTAAAATA

             *         *  
       3820 GTCTATTTATAGGC
         66 GCCTATTTATAAGC

                      *                                                      
       3834 TAAATTTCTCGAAAAGTATTAAGAATTCTCAACTTTAATGGATATCTTTCTAAGGTTGTAAAATA
          1 TAAATTTCTCCAAAAGTATTAAGAATTCTCAACTTTAATGGATATCTTTCTAAGGTTGTAAAATA

                          
       3899 GCCTATTTATAAGC
         66 GCCTATTTATAAGC

                  
       3913 TAAATT
          1 TAAATT

       3919 CCTAGGTCAA


Statistics
Matches: 79,  Mismatches: 5, Indels: 1
        0.93            0.06        0.01

Matches are distributed among these distances:
  78    4  0.05
  79   75  0.95

ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39


Consensus pattern (79 bp):   
TAAATTTCTCCAAAAGTATTAAGAATTCTCAACTTTAATGGATATCTTTCTAAGGTTGTAAAATA
GCCTATTTATAAGC

Found at i:21099 original size:34 final size:33

Alignment explanation


    Indices: 21049--21114  Score: 89
    Period size: 34  Copynumber: 2.0  Consensus size: 33

      21039 TAAATTAAAG

                       *      *               
      21049 TAATTAAATCATGTTATGTTA-ATTAAATTAGTT
          1 TAATTAAATCAAGTTAT-ATACATTAAATTAGTT

                                             
      21082 TAATTAAAATCAAGTTATATACATTAAATTAGT
          1 TAATT-AAATCAAGTTATATACATTAAATTAGT

      21115 GGATGAAAAA


Statistics
Matches: 29,  Mismatches: 2, Indels: 3
        0.85            0.06        0.09

Matches are distributed among these distances:
  33    7  0.24
  34   22  0.76

ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44


Consensus pattern (33 bp):   
TAATTAAATCAAGTTATATACATTAAATTAGTT
Done.