Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009676.1 Kokia drynarioides strain JFW-HI SEQ_124394, 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: 3130
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30


Found at i:892 original size:45 final size:45

Alignment explanation


    Indices: 821--913  Score: 150
    Period size: 45  Copynumber: 2.1  Consensus size: 45

        811 ATAGCTCATA

                                 *                   *   
        821 AAGCCAAGGATATCAACCTCAGTTTGACGAGCCACCGCAATGCTC
          1 AAGCCAAGGATATCAACCTCAATTTGACGAGCCACCGCAATACTC

                           *   *                         
        866 AAGCCAAGGATATCAGCCTTAATTTGACGAGCCACCGCAATACTC
          1 AAGCCAAGGATATCAACCTCAATTTGACGAGCCACCGCAATACTC

               
        911 AAG
          1 AAG

        914 GGAAGAATAT


Statistics
Matches: 44,  Mismatches: 4, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  45   44  1.00

ACGTcount: A:0.33, C:0.29, G:0.19, T:0.18


Consensus pattern (45 bp):   
AAGCCAAGGATATCAACCTCAATTTGACGAGCCACCGCAATACTC

Found at i:924 original size:45 final size:45

Alignment explanation


    Indices: 821--955  Score: 144
    Period size: 45  Copynumber: 3.0  Consensus size: 45

        811 ATAGCTCATA

                    *      *   * *                   *   
        821 AAGCCAAGGATATCAACCTCAGTTTGACGAGCCACCGCAATGCTC
          1 AAGCCAAGAATATCAGCCTGAATTTGACGAGCCACCGCAATACTC

                    *          *                         
        866 AAGCCAAGGATATCAGCCTTAATTTGACGAGCCACCGCAATACTC
          1 AAGCCAAGAATATCAGCCTGAATTTGACGAGCCACCGCAATACTC

               **           *    *     *      *   *      
        911 AAGGGAAGAATATCAGGCTGAGTTTGATGAGCCATCGCGATACTC
          1 AAGCCAAGAATATCAGCCTGAATTTGACGAGCCACCGCAATACTC

        956 TATTCCTCCC


Statistics
Matches: 77,  Mismatches: 13, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  45   77  1.00

ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20


Consensus pattern (45 bp):   
AAGCCAAGAATATCAGCCTGAATTTGACGAGCCACCGCAATACTC

Found at i:976 original size:21 final size:21

Alignment explanation


    Indices: 950--992  Score: 59
    Period size: 21  Copynumber: 2.0  Consensus size: 21

        940 AGCCATCGCG

                    *            
        950 ATACTCTATTCCTCCCGGGCA
          1 ATACTCTACTCCTCCCGGGCA

                         * *     
        971 ATACTCTACTCCTTCGGGGCA
          1 ATACTCTACTCCTCCCGGGCA

             
        992 A
          1 A

        993 ATGGACCCTA


Statistics
Matches: 19,  Mismatches: 3, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  21   19  1.00

ACGTcount: A:0.21, C:0.35, G:0.16, T:0.28


Consensus pattern (21 bp):   
ATACTCTACTCCTCCCGGGCA
Done.