Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012875.1 Kokia drynarioides strain JFW-HI SEQ_127889, 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: 2123
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.30


Found at i:127 original size:24 final size:24

Alignment explanation


    Indices: 93--143  Score: 84
    Period size: 24  Copynumber: 2.1  Consensus size: 24

         83 AATTTGACTC

                  *              *  
         93 AAACAACTAAACAGAGTTTAATTG
          1 AAACAAATAAACAGAGTTTAACTG

                                    
        117 AAACAAATAAACAGAGTTTAACTG
          1 AAACAAATAAACAGAGTTTAACTG

               
        141 AAA
          1 AAA

        144 GATTACTTCT


Statistics
Matches: 25,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  24   25  1.00

ACGTcount: A:0.55, C:0.12, G:0.12, T:0.22


Consensus pattern (24 bp):   
AAACAAATAAACAGAGTTTAACTG

Found at i:2060 original size:24 final size:24

Alignment explanation


    Indices: 2028--2117  Score: 90
    Period size: 24  Copynumber: 3.8  Consensus size: 24

       2018 AATAATTTAG

                          *         
       2028 ACTAAAAAGAATTTGACTCAAACA
          1 ACTAAAAAGAATTTAACTCAAACA

                      *     *       
       2052 ACTAAAAAGAGTTTAATTCAAACA
          1 ACTAAAAAGAATTTAACTCAAACA

                  *   *     * *     
       2076 ACTAAACAGAGTTTAATTGAAACA
          1 ACTAAAAAGAATTTAACTCAAACA

             *    *   *       
       2100 AATAAACAGAGTTTAACT
          1 ACTAAAAAGAATTTAACT

       2118 GAAAGA


Statistics
Matches: 59,  Mismatches: 7, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  24   59  1.00

ACGTcount: A:0.52, C:0.13, G:0.10, T:0.24


Consensus pattern (24 bp):   
ACTAAAAAGAATTTAACTCAAACA

Found at i:2120 original size:24 final size:24

Alignment explanation


    Indices: 2047--2121  Score: 114
    Period size: 24  Copynumber: 3.1  Consensus size: 24

       2037 AATTTGACTC

                       *           *
       2047 AAACAACTAAAAAGAGTTTAATTC
          1 AAACAACTAAACAGAGTTTAATTG

                                    
       2071 AAACAACTAAACAGAGTTTAATTG
          1 AAACAACTAAACAGAGTTTAATTG

                  *              *  
       2095 AAACAAATAAACAGAGTTTAACTG
          1 AAACAACTAAACAGAGTTTAATTG

               
       2119 AAA
          1 AAA

       2122 GA


Statistics
Matches: 47,  Mismatches: 4, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  24   47  1.00

ACGTcount: A:0.55, C:0.12, G:0.11, T:0.23


Consensus pattern (24 bp):   
AAACAACTAAACAGAGTTTAATTG
Done.