Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001981.1 Kokia drynarioides strain JFW-HI SEQ_113828, 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, 802

Length: 1338
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34


Found at i:536 original size:23 final size:24

Alignment explanation


    Indices: 506--591  Score: 80
    Period size: 23  Copynumber: 3.9  Consensus size: 24

        496 TGGAAGCTCT

                                    
        506 GCTAAAGGTCAGAGCA-TAGCGCC
          1 GCTAAAGGTCAGAGCATTAGCGCC

                        *         * 
        529 GCTAAAGGTCAGTGCATTAGCGAC
          1 GCTAAAGGTCAGAGCATTAGCGCC

                *               *   
        553 GCT-TAGG--AGA--A--AGTGCC
          1 GCTAAAGGTCAGAGCATTAGCGCC

                                  
        570 GCTAAAGGTCAGAGCATTAGCG
          1 GCTAAAGGTCAGAGCATTAGCG

        592 GCATTTATGA


Statistics
Matches: 47,  Mismatches: 8, Indels: 15
        0.67            0.11        0.21

Matches are distributed among these distances:
  17    7  0.15
  18    3  0.06
  19    1  0.02
  20    3  0.06
  21    2  0.04
  22    1  0.02
  23   18  0.38
  24   12  0.26

ACGTcount: A:0.30, C:0.21, G:0.31, T:0.17


Consensus pattern (24 bp):   
GCTAAAGGTCAGAGCATTAGCGCC

Found at i:587 original size:41 final size:41

Alignment explanation


    Indices: 526--679  Score: 227
    Period size: 41  Copynumber: 3.8  Consensus size: 41

        516 AGAGCATAGC

                           *         *  *   *   *    
        526 GCCGCTAAAGGTCAGTGCATTAGCGACGCTTAGGAGAAAGT
          1 GCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGGAAGT

                                       *            *
        567 GCCGCTAAAGGTCAGAGCATTAGCGGCATTTATGAGGAAGG
          1 GCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGGAAGT

                                                     
        608 GCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGGAAGT
          1 GCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGGAAGT

             *          *                  
        649 GTCGCTAAAGGTTAGAGCATTAGCGGCGTTT
          1 GCCGCTAAAGGTCAGAGCATTAGCGGCGTTT

        680 TCCCATAAGC


Statistics
Matches: 102,  Mismatches: 11, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  41  102  1.00

ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22


Consensus pattern (41 bp):   
GCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGGAAGT
Done.