Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009594.1 Kokia drynarioides strain JFW-HI SEQ_124310, 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: 4416
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30


Found at i:2713 original size:21 final size:21

Alignment explanation


    Indices: 2689--2731  Score: 59
    Period size: 21  Copynumber: 2.0  Consensus size: 21

       2679 TAGGGTCTAT

                         *       
       2689 TTGCCCCGGAGGAGTAGAGTA
          1 TTGCCCCGGAGGAATAGAGTA

                * *              
       2710 TTGCTCGGGAGGAATAGAGTA
          1 TTGCCCCGGAGGAATAGAGTA

             
       2731 T
          1 T

       2732 CGCGATGGCT


Statistics
Matches: 19,  Mismatches: 3, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  21   19  1.00

ACGTcount: A:0.26, C:0.14, G:0.37, T:0.23


Consensus pattern (21 bp):   
TTGCCCCGGAGGAATAGAGTA

Found at i:2839 original size:45 final size:45

Alignment explanation


    Indices: 2726--2862  Score: 177
    Period size: 45  Copynumber: 3.0  Consensus size: 45

       2716 GGGAGGAATA

                  *   *            * *  *           **   
       2726 GAGTATCGCGATGGCTCGTCAAACTCAGCCTGATATCCTTCCCTT
          1 GAGTATTGCGGTGGCTCGTCAAATTGAGACTGATATCCTTGGCTT

                                                         
       2771 GAGTATTGCGGTGGCTCGTCAAATTGAGACTGATATCCTTGGCTT
          1 GAGTATTGCGGTGGCTCGTCAAATTGAGACTGATATCCTTGGCTT

                                        **                
       2816 GAGTATTGCGGTGGCTCGTCAAATTGAGGTTGATAAT-CTTGGCTT
          1 GAGTATTGCGGTGGCTCGTCAAATTGAGACTGAT-ATCCTTGGCTT

              
       2861 GA
          1 GA

       2863 TGAGCTATAC


Statistics
Matches: 82,  Mismatches: 9, Indels: 2
        0.88            0.10        0.02

Matches are distributed among these distances:
  45   80  0.98
  46    2  0.02

ACGTcount: A:0.20, C:0.20, G:0.27, T:0.32


Consensus pattern (45 bp):   
GAGTATTGCGGTGGCTCGTCAAATTGAGACTGATATCCTTGGCTT
Done.