Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006965.1 Kokia drynarioides strain JFW-HI SEQ_121571, 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: 4843
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33


Found at i:4403 original size:51 final size:50

Alignment explanation


    Indices: 4322--4441  Score: 159
    Period size: 51  Copynumber: 2.4  Consensus size: 50

       4312 TTCCTTAAGT

                             * *                       *    *  
       4322 GTTACTTAATGCATGACTTTATTTAAGATGCAAACTTTAACTATCATGGGA
          1 GTTACTTAATGCATGACATAATTTAAGATGCAAAC-TTAACTAACATGAGA

                           *         *                        
       4373 GTTACTTAATGCATGTCATAATTTATGATGCAAACTTAACTAACATGAGA
          1 GTTACTTAATGCATGACATAATTTAAGATGCAAACTTAACTAACATGAGA

             *   *             
       4423 GCTACATAATGCATGACAT
          1 GTTACTTAATGCATGACAT

       4442 TATTAAAAGT


Statistics
Matches: 60,  Mismatches: 9, Indels: 1
        0.86            0.13        0.01

Matches are distributed among these distances:
  50   29  0.48
  51   31  0.52

ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34


Consensus pattern (50 bp):   
GTTACTTAATGCATGACATAATTTAAGATGCAAACTTAACTAACATGAGA

Found at i:4436 original size:50 final size:51

Alignment explanation


    Indices: 4328--4441  Score: 149
    Period size: 50  Copynumber: 2.3  Consensus size: 51

       4318 AAGTGTTACT

                       * *                       *    *   *   *
       4328 TAATGCATGACTTTATTTAAGATGCAAACTTTAACTATCATGGGAGTTACT
          1 TAATGCATGACATAATTTAAGATGCAAACTTTAACTAACATGAGAGCTACA

                     *         *                               
       4379 TAATGCATGTCATAATTTATGATGCAAAC-TTAACTAACATGAGAGCTACA
          1 TAATGCATGACATAATTTAAGATGCAAACTTTAACTAACATGAGAGCTACA

                         
       4429 TAATGCATGACAT
          1 TAATGCATGACAT

       4442 TATTAAAAGT


Statistics
Matches: 54,  Mismatches: 9, Indels: 1
        0.84            0.14        0.02

Matches are distributed among these distances:
  50   29  0.54
  51   25  0.46

ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33


Consensus pattern (51 bp):   
TAATGCATGACATAATTTAAGATGCAAACTTTAACTAACATGAGAGCTACA
Done.