Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001320.1 Kokia drynarioides strain JFW-HI SEQ_112748, 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, 856

Length: 1427
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29


Found at i:175 original size:45 final size:45

Alignment explanation


    Indices: 40--176  Score: 175
    Period size: 45  Copynumber: 3.0  Consensus size: 45

         30 GCATAGCTCA

                 *                                       
         40 TCAAGCCAAGGATATCAGCCTCAGTTTGACGAGCCACCGCAATAC
          1 TCAAGGCAAGGATATCAGCCTCAGTTTGACGAGCCACCGCAATAC

            *    *                 *                     
         85 ACAAGTCAAGGATATCAGCCTCAATTTGACGAGCCACCGCAATAC
          1 TCAAGGCAAGGATATCAGCCTCAGTTTGACGAGCCACCGCAATAC

             *    *           *  *     *        *   *    
        130 TTAAGGGAAGGATATCAGGCTGAGTTTTACGAGCCATCGCGATAC
          1 TCAAGGCAAGGATATCAGCCTCAGTTTGACGAGCCACCGCAATAC

              
        175 TC
          1 TC

        177 TATTCCTCTC


Statistics
Matches: 78,  Mismatches: 14, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  45   78  1.00

ACGTcount: A:0.31, C:0.26, G:0.22, T:0.20


Consensus pattern (45 bp):   
TCAAGGCAAGGATATCAGCCTCAGTTTGACGAGCCACCGCAATAC

Found at i:213 original size:21 final size:21

Alignment explanation


    Indices: 171--209  Score: 62
    Period size: 21  Copynumber: 1.9  Consensus size: 21

        161 AGCCATCGCG

                    *            
        171 ATACTCTATTCCTCTCGGGCA
          1 ATACTCTACTCCTCTCGGGCA

                               
        192 ATACTCTACTCCTC-CGGG
          1 ATACTCTACTCCTCTCGGG

        210 GCAAATGGAC


Statistics
Matches: 17,  Mismatches: 1, Indels: 1
        0.89            0.05        0.05

Matches are distributed among these distances:
  20    4  0.24
  21   13  0.76

ACGTcount: A:0.18, C:0.36, G:0.15, T:0.31


Consensus pattern (21 bp):   
ATACTCTACTCCTCTCGGGCA
Done.