Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001900.1 Kokia drynarioides strain JFW-HI SEQ_113685, 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: 4151
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32


Found at i:2680 original size:41 final size:40

Alignment explanation


    Indices: 2635--2712  Score: 93
    Period size: 40  Copynumber: 1.9  Consensus size: 40

       2625 TTTTTAACGG

                                            *        
       2635 CGTTTGGACAGAAAACACCGCAAAAGGTAAAGTAATAGTGA
          1 CGTTTGGACA-AAAACACCGCAAAAGGTAAAGCAATAGTGA

                 ***  *    *                     
       2676 CGTTTTTTCATAAACGCCGCAAAAGGTAAAGCAATAG
          1 CGTTTGGACAAAAACACCGCAAAAGGTAAAGCAATAG

       2713 CGGCCTTTAT


Statistics
Matches: 31,  Mismatches: 6, Indels: 1
        0.82            0.16        0.03

Matches are distributed among these distances:
  40   24  0.77
  41    7  0.23

ACGTcount: A:0.41, C:0.17, G:0.22, T:0.21


Consensus pattern (40 bp):   
CGTTTGGACAAAAACACCGCAAAAGGTAAAGCAATAGTGA

Found at i:2889 original size:41 final size:41

Alignment explanation


    Indices: 2737--2893  Score: 181
    Period size: 41  Copynumber: 3.8  Consensus size: 41

       2727 AAAATGCCGT

                              *            *     **   
       2737 TAAAGGTCAGAGCATTAGTGGCGTTTATGAGAAAG-AGTAGC
          1 TAAAGGTCAGAGCATTAGCGGCGTTTATGAGGAAGCACCA-C

                        *                 *        * 
       2778 TAAAGGTCAGAGTATTAGCGGCGTTTATGAAGAAGCACCGC
          1 TAAAGGTCAGAGCATTAGCGGCGTTTATGAGGAAGCACCAC

                     *      *  *         *           
       2819 TAAAGGTCAAAGCATTGGCAGCGTTTATGGGGAAGCACCAC
          1 TAAAGGTCAGAGCATTAGCGGCGTTTATGAGGAAGCACCAC

                    *                    *    
       2860 TAAAGGTCTGAGCATTAGCGGCGTTTATGGGGAA
          1 TAAAGGTCAGAGCATTAGCGGCGTTTATGAGGAA

       2894 AATGCTGCCA


Statistics
Matches: 97,  Mismatches: 18, Indels: 2
        0.83            0.15        0.02

Matches are distributed among these distances:
  41   96  0.99
  42    1  0.01

ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23


Consensus pattern (41 bp):   
TAAAGGTCAGAGCATTAGCGGCGTTTATGAGGAAGCACCAC
Done.