Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009981.1 Kokia drynarioides strain JFW-HI SEQ_124732, 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: 3210
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30


Found at i:284 original size:45 final size:45

Alignment explanation


    Indices: 220--390  Score: 225
    Period size: 45  Copynumber: 3.8  Consensus size: 45

        210 GCATAGTTCA

                     *            **     *               
        220 TCAAGCCAAAGATATCAGCCTCGGTTTGATGAGCCACCGCAATAC
          1 TCAAGCCAAGGATATCAGCCTCAATTTGACGAGCCACCGCAATAC

                                               *  *   *  
        265 TCAAGCCAAGGATATCAGCCTCAATTTGACGAGCCCCCACAACAC
          1 TCAAGCCAAGGATATCAGCCTCAATTTGACGAGCCACCGCAATAC

                      *                                  
        310 TCAAGCCAAGAATATCAGCCTCAATTTGACGAGCCACCGCAATAC
          1 TCAAGCCAAGGATATCAGCCTCAATTTGACGAGCCACCGCAATAC

                 **           *  * *            
        355 TCAAGGGAAGGATATCAGGCTGAGTTTGACGAGCCA
          1 TCAAGCCAAGGATATCAGCCTCAATTTGACGAGCCA

        391 TCACGATACT


Statistics
Matches: 109,  Mismatches: 17, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  45  109  1.00

ACGTcount: A:0.33, C:0.29, G:0.20, T:0.18


Consensus pattern (45 bp):   
TCAAGCCAAGGATATCAGCCTCAATTTGACGAGCCACCGCAATAC

Found at i:383 original size:90 final size:90

Alignment explanation


    Indices: 220--389  Score: 252
    Period size: 90  Copynumber: 1.9  Consensus size: 90

        210 GCATAGTTCA

                                  **     *                                   
        220 TCAAGCCAAAGATATCAGCCTCGGTTTGATGAGCCACCGCAATACTCAAGCCAAGGATATCAGCC
          1 TCAAGCCAAAGATATCAGCCTCAATTTGACGAGCCACCGCAATACTCAAGCCAAGGATATCAGCC

                                     
        285 TCAATTTGACGAGCCCCCACAACAC
         66 TCAATTTGACGAGCCCCCACAACAC

                                                               **           *
        310 TCAAGCC-AAGAATATCAGCCTCAATTTGACGAGCCACCGCAATACTCAAGGGAAGGATATCAGG
          1 TCAAGCCAAAG-ATATCAGCCTCAATTTGACGAGCCACCGCAATACTCAAGCCAAGGATATCAGC

              * *           
        374 CTGAGTTTGACGAGCC
         65 CTCAATTTGACGAGCC

        390 ATCACGATAC


Statistics
Matches: 71,  Mismatches: 8, Indels: 2
        0.88            0.10        0.02

Matches are distributed among these distances:
  89    3  0.04
  90   68  0.96

ACGTcount: A:0.32, C:0.29, G:0.21, T:0.18


Consensus pattern (90 bp):   
TCAAGCCAAAGATATCAGCCTCAATTTGACGAGCCACCGCAATACTCAAGCCAAGGATATCAGCC
TCAATTTGACGAGCCCCCACAACAC

Done.