Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008281.1 Kokia drynarioides strain JFW-HI SEQ_122946, 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: 2381
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37


Found at i:566 original size:52 final size:52

Alignment explanation


    Indices: 509--649  Score: 144
    Period size: 52  Copynumber: 2.7  Consensus size: 52

        499 TTTTTTTTGG

                                                                 
        509 ATCTGATGTTTTTAAATAAATATAAATATTTATTTAAAAGTGA-TTTGTTTAA
          1 ATCTGATGTTTTTAAATAAATATAAATATTTATTT-AAAGTGATTTTGTTTAA

                        *  **                      *            *
        561 ATCTGATGTTATATATTTAAA-ATAAATATTTATTT-AATTGATTTTGTTTAG
          1 ATCTGATGTT-TTTAAATAAATATAAATATTTATTTAAAGTGATTTTGTTTAA

                   *       *       *         *    
        612 ATCTGATATGTTTTACATAAATAAAAATAATTTGTTTA
          1 ATCTGATGT-TTTTAAATAAATATAAAT-ATTTATTTA

        650 TATATATTTC


Statistics
Matches: 72,  Mismatches: 11, Indels: 10
        0.77            0.12        0.11

Matches are distributed among these distances:
  50    5  0.07
  51   23  0.32
  52   30  0.42
  53   14  0.19

ACGTcount: A:0.39, C:0.03, G:0.09, T:0.49


Consensus pattern (52 bp):   
ATCTGATGTTTTTAAATAAATATAAATATTTATTTAAAGTGATTTTGTTTAA

Found at i:995 original size:82 final size:83

Alignment explanation


    Indices: 888--1045  Score: 210
    Period size: 83  Copynumber: 1.9  Consensus size: 83

        878 CTATATTTGG

                         *   *  *              *                       *     
        888 ATTTTGGTTCCAAGTAATAATTAAG-TAAATAAATTTGTTTCGGGATTTATTCCCATCGTTTAAC
          1 ATTTTGGTTCCAAATAAAAAATAAGTTAAATAAATCTGTTTCGGGATTTATTCCCATCGATTAAC

                 *            
        952 ATATTTTATTCCAGTTTA
         66 ATATTATATTCCAGTTTA

                  *                    * *                      *  *         
        970 ATTTTGTTTCCAAATAAAAAATAAGTTGACTAAATCTGTTTCGGGATTTATTTCCGTCGATTAAC
          1 ATTTTGGTTCCAAATAAAAAATAAGTTAAATAAATCTGTTTCGGGATTTATTCCCATCGATTAAC

                       
       1035 ATATTATATTC
         66 ATATTATATTC

       1046 TATATTTGGA


Statistics
Matches: 64,  Mismatches: 11, Indels: 1
        0.84            0.14        0.01

Matches are distributed among these distances:
  82   21  0.33
  83   43  0.67

ACGTcount: A:0.32, C:0.13, G:0.12, T:0.44


Consensus pattern (83 bp):   
ATTTTGGTTCCAAATAAAAAATAAGTTAAATAAATCTGTTTCGGGATTTATTCCCATCGATTAAC
ATATTATATTCCAGTTTA
Done.