Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000670.1 Kokia drynarioides strain JFW-HI SEQ_111659, 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: 8224
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31


Found at i:7346 original size:88 final size:84

Alignment explanation


    Indices: 7242--7474  Score: 305
    Period size: 88  Copynumber: 2.8  Consensus size: 84

       7232 CAATGCCATA

                                     *                                       
       7242 CATATATATACACATAAGTATTTGCCATTCATCTTTGCTTAAACTACCGTGCAACCTTAACATCT
          1 CATATATATACACATAAGTATTTGCAATTCATCTTTGCTTAAACTACCGTGCAA-CTTAACATC-

                      *            
       7307 TCTGTTATAATACATAACAATGC
         64 -C-GTTATAACACATAACAATGC

                                                      * *                    
       7330 CATATATATACACATAAGTATTTGCAATTCATCTTTGCTTAACCAACCGTGCAAC----C-TCCG
          1 CATATATATACACATAAGTATTTGCAATTCATCTTTGCTTAAACTACCGTGCAACTTAACATCCG

                               
       7390 TTATAACACATAACAATGC
         66 TTATAACACATAACAATGC

                      *                       *               *              
       7409 CATATATACACACACATAAGTATTTGCAATTCATTTTTGCTTAAACTACCATGCAATCTTAACAT
          1 CATATAT--ATACACATAAGTATTTGCAATTCATCTTTGCTTAAACTACCGTGCAA-CTTAACAT

             
       7474 C
         63 C

       7475 ATCAAGAAGA


Statistics
Matches: 128,  Mismatches: 9, Indels: 17
        0.83            0.06        0.11

Matches are distributed among these distances:
  79   26  0.20
  80    1  0.01
  81   42  0.33
  82    3  0.02
  83    1  0.01
  86    1  0.01
  87    3  0.02
  88   51  0.40

ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33


Consensus pattern (84 bp):   
CATATATATACACATAAGTATTTGCAATTCATCTTTGCTTAAACTACCGTGCAACTTAACATCCG
TTATAACACATAACAATGC

Found at i:7464 original size:81 final size:79

Alignment explanation


    Indices: 7310--7464  Score: 238
    Period size: 81  Copynumber: 1.9  Consensus size: 79

       7300 AACATCTTCT

                   *                    *                                 *  
       7310 GTTATAATACATAACAATGCCATATATATACACATAAGTATTTGCAATTCATCTTTGCTTAACCA
          1 GTTATAACACATAACAATGCCATATATACACACATAAGTATTTGCAATTCATCTTTGCTTAAACA

               *          
       7375 ACCGTGCAACCTCC
         66 ACCATGCAACCTCC

                                                                  *          
       7389 GTTATAACACATAACAATGCCATATATACACACACATAAGTATTTGCAATTCATTTTTGCTTAAA
          1 GTTATAACACATAACAATGCCATATAT--ACACACATAAGTATTTGCAATTCATCTTTGCTTAAA

             *         
       7454 CTACCATGCAA
         64 CAACCATGCAA

       7465 TCTTAACATC


Statistics
Matches: 68,  Mismatches: 6, Indels: 2
        0.89            0.08        0.03

Matches are distributed among these distances:
  79   26  0.38
  81   42  0.62

ACGTcount: A:0.37, C:0.23, G:0.08, T:0.32


Consensus pattern (79 bp):   
GTTATAACACATAACAATGCCATATATACACACATAAGTATTTGCAATTCATCTTTGCTTAAACA
ACCATGCAACCTCC
Done.