Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006346.1 Kokia drynarioides strain JFW-HI SEQ_120921, 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: 3259
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32


Found at i:640 original size:15 final size:15

Alignment explanation


    Indices: 616--671  Score: 51
    Period size: 15  Copynumber: 3.6  Consensus size: 15

        606 GATGAAGAAT

                 *         
        616 AATAATAATTTTAAA
          1 AATAAAAATTTTAAA

                        *    
        631 AATAAAAATTAGGTAAA
          1 AATAAAAATT--TTAAA

                 *          
        648 AATAATAA-TTTAATA
          1 AATAAAAATTTTAA-A

                     
        663 AATAAAAAT
          1 AATAAAAAT

        672 AAGATAGAAT


Statistics
Matches: 32,  Mismatches: 5, Indels: 7
        0.73            0.11        0.16

Matches are distributed among these distances:
  14    3  0.09
  15   17  0.53
  16    1  0.03
  17   11  0.34

ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32


Consensus pattern (15 bp):   
AATAAAAATTTTAAA

Found at i:3157 original size:20 final size:18

Alignment explanation


    Indices: 3120--3167  Score: 55
    Period size: 18  Copynumber: 2.7  Consensus size: 18

       3110 CTACAATATC

                 *            
       3120 TTAAAATAT-AAA-AAAA
          1 TTAAACTATAAAATAAAA

                                
       3136 TTAATAACTATAAAATAAAA
          1 TT-A-AACTATAAAATAAAA

                        
       3156 TTAAACTATAAA
          1 TTAAACTATAAA

       3168 CTTTAAAACA


Statistics
Matches: 27,  Mismatches: 1, Indels: 6
        0.79            0.03        0.18

Matches are distributed among these distances:
  16    2  0.07
  17    1  0.04
  18   14  0.52
  19    4  0.15
  20    6  0.22

ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29


Consensus pattern (18 bp):   
TTAAACTATAAAATAAAA
Done.