Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01013405.1 Kokia drynarioides strain JFW-HI SEQ_128430, 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: 4948
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30


Found at i:1835 original size:19 final size:20

Alignment explanation


    Indices: 1797--1835  Score: 53
    Period size: 19  Copynumber: 2.0  Consensus size: 20

       1787 AGGGGAAGAA

                       *        
       1797 AAAAAGGAAAATAAAGAAAT
          1 AAAAAGGAAAAAAAAGAAAT

                           *    
       1817 AAAAA-GAAAAAAAATAAAT
          1 AAAAAGGAAAAAAAAGAAAT

       1836 TGTTCAAAAA


Statistics
Matches: 17,  Mismatches: 2, Indels: 1
        0.85            0.10        0.05

Matches are distributed among these distances:
  19   12  0.71
  20    5  0.29

ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10


Consensus pattern (20 bp):   
AAAAAGGAAAAAAAAGAAAT

Found at i:2659 original size:40 final size:40

Alignment explanation


    Indices: 2604--2700  Score: 104
    Period size: 40  Copynumber: 2.4  Consensus size: 40

       2594 GATAACCTAA

                    **           **       **    *   
       2604 CAGTGTTTGTAGTGTCACTACTGGTTCAATTGTAATCGTG
          1 CAGTGTTTACAGTGTCACTACCAGTTCAATAATAATAGTG

                               *                 *  
       2644 CAGTGTTTACAGTGTCACTGCCAGTTCAATAATAATATTG
          1 CAGTGTTTACAGTGTCACTACCAGTTCAATAATAATAGTG

              *              
       2684 CAATGTTTACAGTGTCA
          1 CAGTGTTTACAGTGTCA

       2701 TGCCCGTGTG


Statistics
Matches: 47,  Mismatches: 10, Indels: 0
        0.82            0.18        0.00

Matches are distributed among these distances:
  40   47  1.00

ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37


Consensus pattern (40 bp):   
CAGTGTTTACAGTGTCACTACCAGTTCAATAATAATAGTG
Done.