Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004027.1 Kokia drynarioides strain JFW-HI SEQ_117154, 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: 2065
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.26

Warning! 71 characters in sequence are not A, C, G, or T


Found at i:1875 original size:29 final size:27

Alignment explanation


    Indices: 1841--2065  Score: 207
    Period size: 29  Copynumber: 7.7  Consensus size: 27

       1831 GTCCCTAAAC

                                         
       1841 CTTCCAAAAATTACCATTTTACCCCTGAA
          1 CTTCCAAAAA-TACCATTTTACCCC-GAA

                       *            *    
       1870 CTTCCAAAAATCCCATTTTTGACCTCGAA
          1 CTTCCAAAAATACCA-TTTT-ACCCCGAA

                          *               
       1899 CCTTCCAAAAATTATCATTTTACCCCCGAA
          1 -CTTCCAAAAA-TACCATTTTA-CCCCGAA

                       *                 *
       1929 CTTCCAAAAATCCCATTTTTGACCCCGACC
          1 CTTCCAAAAATACCA-TTTT-ACCCCGA-A

                          *    *         
       1959 CTTCCAAAAATTACAATTTCACCCTCGAA
          1 CTTCCAAAAA-TACCATTTTACCC-CGAA

                       *            *    
       1988 CTTCCAAAAATCCCATTTTTGACCTCGAA
          1 CTTCCAAAAATACCA-TTTT-ACCCCGAA

                                          
       2017 CCTTCCAAAAATTACCATTTTACTCCCGAA
          1 -CTTCCAAAAA-TACCATTTTAC-CCCGAA

                       *       
       2047 CTTCCAAAAATCCCATTTT
          1 CTTCCAAAAATACCATTTT


Statistics
Matches: 162,  Mismatches: 19, Indels: 31
        0.76            0.09        0.15

Matches are distributed among these distances:
  28   18  0.11
  29   71  0.44
  30   63  0.39
  31   10  0.06

ACGTcount: A:0.32, C:0.33, G:0.04, T:0.30


Consensus pattern (27 bp):   
CTTCCAAAAATACCATTTTACCCCGAA

Found at i:1930 original size:59 final size:59

Alignment explanation


    Indices: 1838--2065  Score: 384
    Period size: 59  Copynumber: 3.9  Consensus size: 59

       1828 GAGGTCCCTA

                                        *                              
       1838 AACCTTCCAAAAATTACCATTTTACCCCTGAACTTCCAAAAATCCCATTTTTGACCTCG
          1 AACCTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTCG

                            *                                       *  
       1897 AACCTTCCAAAAATTATCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCG
          1 AACCTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTCG

             *               *    *    *                               
       1956 ACCCTTCCAAAAATTACAATTTCACCCTCGAACTTCCAAAAATCCCATTTTTGACCTCG
          1 AACCTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTCG

                                     *                         
       2015 AACCTTCCAAAAATTACCATTTTACTCCCGAACTTCCAAAAATCCCATTTT
          1 AACCTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTT


Statistics
Matches: 155,  Mismatches: 14, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  59  155  1.00

ACGTcount: A:0.33, C:0.33, G:0.04, T:0.30


Consensus pattern (59 bp):   
AACCTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTCG

Done.