Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008829.1 Kokia drynarioides strain JFW-HI SEQ_123513, 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: 7309
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33


Found at i:3573 original size:24 final size:24

Alignment explanation


    Indices: 3540--3585  Score: 76
    Period size: 24  Copynumber: 1.9  Consensus size: 24

       3530 AAGCAAATTA

                                    
       3540 GGCTGCACATGGCC-TGTGACACG
          1 GGCTGCACATGGCCGTGTGACACG

                                   
       3563 GGCTGTCACATGGCCGTGTGACA
          1 GGCTG-CACATGGCCGTGTGACA

       3586 TTTGAAGGTG


Statistics
Matches: 21,  Mismatches: 0, Indels: 2
        0.91            0.00        0.09

Matches are distributed among these distances:
  23    5  0.24
  24    9  0.43
  25    7  0.33

ACGTcount: A:0.17, C:0.28, G:0.35, T:0.20


Consensus pattern (24 bp):   
GGCTGCACATGGCCGTGTGACACG

Found at i:6936 original size:25 final size:25

Alignment explanation


    Indices: 6908--6957  Score: 82
    Period size: 25  Copynumber: 2.0  Consensus size: 25

       6898 CAACTTATAC

                                     
       6908 CTTCTCAACTTCTTCAATTTCTATT
          1 CTTCTCAACTTCTTCAATTTCTATT

                 *  *                
       6933 CTTCTGAATTTCTTCAATTTCTATT
          1 CTTCTCAACTTCTTCAATTTCTATT

       6958 GCTGTAACTT


Statistics
Matches: 23,  Mismatches: 2, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  25   23  1.00

ACGTcount: A:0.20, C:0.24, G:0.02, T:0.54


Consensus pattern (25 bp):   
CTTCTCAACTTCTTCAATTTCTATT

Found at i:7181 original size:30 final size:30

Alignment explanation


    Indices: 7145--7208  Score: 119
    Period size: 30  Copynumber: 2.1  Consensus size: 30

       7135 TGCTAGTAGT

                                          
       7145 GCATCAGTACTAAAAAAAGTCTAATTAGAA
          1 GCATCAGTACTAAAAAAAGTCTAATTAGAA

                                   *      
       7175 GCATCAGTACTAAAAAAAGTCTAGTTAGAA
          1 GCATCAGTACTAAAAAAAGTCTAATTAGAA

                
       7205 GCAT
          1 GCAT

       7209 TTTCGGTATT


Statistics
Matches: 33,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  30   33  1.00

ACGTcount: A:0.47, C:0.14, G:0.16, T:0.23


Consensus pattern (30 bp):   
GCATCAGTACTAAAAAAAGTCTAATTAGAA
Done.