Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000847.1 Kokia drynarioides strain JFW-HI SEQ_111948, 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: 9157
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.35


Found at i:631 original size:25 final size:25

Alignment explanation


    Indices: 602--650  Score: 89
    Period size: 25  Copynumber: 2.0  Consensus size: 25

        592 TCTAAGTCAT

                      *              
        602 TTGGAAAAAATAAATTATTTATTTA
          1 TTGGAAAAAAGAAATTATTTATTTA

                                    
        627 TTGGAAAAAAGAAATTATTTATTT
          1 TTGGAAAAAAGAAATTATTTATTT

        651 TGGAAGCAGT


Statistics
Matches: 23,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  25   23  1.00

ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43


Consensus pattern (25 bp):   
TTGGAAAAAAGAAATTATTTATTTA

Found at i:8422 original size:23 final size:23

Alignment explanation


    Indices: 8396--8468  Score: 76
    Period size: 23  Copynumber: 3.2  Consensus size: 23

       8386 AGCACGTTTC

                                   
       8396 GTGCCCTCTATTCAGCACTATGT
          1 GTGCCCTCTATTCAGCACTATGT

                   * *         *   
       8419 GTGCCCTTTGTTCAGCACTGTGT
          1 GTGCCCTCTATTCAGCACTATGT

                 *      *      * * 
       8442 GTG-CTTCTATTTAGCACTTTTT
          1 GTGCCCTCTATTCAGCACTATGT

                 
       8464 GTGCC
          1 GTGCC

       8469 TACTGTTGCC


Statistics
Matches: 40,  Mismatches: 9, Indels: 2
        0.78            0.18        0.04

Matches are distributed among these distances:
  22   16  0.40
  23   24  0.60

ACGTcount: A:0.12, C:0.26, G:0.21, T:0.41


Consensus pattern (23 bp):   
GTGCCCTCTATTCAGCACTATGT

Done.