Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005416.1 Kokia drynarioides strain JFW-HI SEQ_119436, 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: 2516
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33


Found at i:1818 original size:22 final size:21

Alignment explanation


    Indices: 1791--1842  Score: 59
    Period size: 22  Copynumber: 2.4  Consensus size: 21

       1781 CAATACACCA

                    * *          
       1791 GGTTGTGGTTTAACTACCAAT
          1 GGTTGTGGATAAACTACCAAT

                   *          *   
       1812 GGTTTGTAGATAAACTACTAAT
          1 GG-TTGTGGATAAACTACCAAT

                     
       1834 GGTTGTGGA
          1 GGTTGTGGA

       1843 CACGCAACAA


Statistics
Matches: 25,  Mismatches: 5, Indels: 2
        0.78            0.16        0.06

Matches are distributed among these distances:
  21    8  0.32
  22   17  0.68

ACGTcount: A:0.27, C:0.10, G:0.27, T:0.37


Consensus pattern (21 bp):   
GGTTGTGGATAAACTACCAAT

Found at i:1910 original size:45 final size:46

Alignment explanation


    Indices: 1847--1943  Score: 108
    Period size: 45  Copynumber: 2.2  Consensus size: 46

       1837 TGTGGACACG

                        * *     *                         
       1847 CAAC-AAAATCTTGTAGATGGAATTTACCTCTAGCTATGG-GTACA
          1 CAACAAAAATCTAGCAGATGAAATTTACCTCTAGCTATGGAGTACA

                                      *   * *   *    *    
       1891 CAACAAAAATCTAGCAGATGAAATTTGCCTTTGGCTGTGGATTACA
          1 CAACAAAAATCTAGCAGATGAAATTTACCTCTAGCTATGGAGTACA

                   
       1937 CAACAAA
          1 CAACAAA

       1944 CAACCATAGA


Statistics
Matches: 43,  Mismatches: 8, Indels: 2
        0.81            0.15        0.04

Matches are distributed among these distances:
  44    4  0.09
  45   28  0.65
  46   11  0.26

ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27


Consensus pattern (46 bp):   
CAACAAAAATCTAGCAGATGAAATTTACCTCTAGCTATGGAGTACA
Done.