Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01013188.1 Kokia drynarioides strain JFW-HI SEQ_128207, 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: 11359
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:5575 original size:13 final size:13

Alignment explanation


    Indices: 5554--5587  Score: 50
    Period size: 13  Copynumber: 2.6  Consensus size: 13

       5544 ACAATATAAT

                         
       5554 AATAATAATCCTA
          1 AATAATAATCCTA

                *        
       5567 AATATTAATCCTA
          1 AATAATAATCCTA

              *     
       5580 AAAAATAA
          1 AATAATAA

       5588 AGTTTAAATT


Statistics
Matches: 18,  Mismatches: 3, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  13   18  1.00

ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29


Consensus pattern (13 bp):   
AATAATAATCCTA

Found at i:8767 original size:22 final size:22

Alignment explanation


    Indices: 8745--8804  Score: 63
    Period size: 20  Copynumber: 2.9  Consensus size: 22

       8735 ATACCAAATA

                    *             
       8745 AAAAATATTGATA-TTTTTGAT
          1 AAAAATATCGATACTTTTTGAT

                *                 
       8766 AAAAGTATCGATACTTTTTG--
          1 AAAAATATCGATACTTTTTGAT

               **              
       8786 AAATGTATCGATACTTTTT
          1 AAAAATATCGATACTTTTT

       8805 CATAGATTTC


Statistics
Matches: 35,  Mismatches: 3, Indels: 3
        0.85            0.07        0.07

Matches are distributed among these distances:
  20   18  0.51
  21   11  0.31
  22    6  0.17

ACGTcount: A:0.37, C:0.07, G:0.12, T:0.45


Consensus pattern (22 bp):   
AAAAATATCGATACTTTTTGAT

Found at i:8778 original size:21 final size:20

Alignment explanation


    Indices: 8766--8804  Score: 69
    Period size: 20  Copynumber: 1.9  Consensus size: 20

       8756 TATTTTTGAT

                                
       8766 AAAAGTATCGATACTTTTTG
          1 AAAAGTATCGATACTTTTTG

               *               
       8786 AAATGTATCGATACTTTTT
          1 AAAAGTATCGATACTTTTT

       8805 CATAGATTTC


Statistics
Matches: 18,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  20   18  1.00

ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44


Consensus pattern (20 bp):   
AAAAGTATCGATACTTTTTG

Found at i:10488 original size:23 final size:23

Alignment explanation


    Indices: 10462--10505  Score: 63
    Period size: 23  Copynumber: 1.9  Consensus size: 23

      10452 TTTTGTACCT

                                    
      10462 AAAAA-AAAAAAATTTAAAATTCG
          1 AAAAATAAAAAAA-TTAAAATTCG

                       *         
      10485 AAAAATAAAAAGATTAAAATT
          1 AAAAATAAAAAAATTAAAATT

      10506 GATCAATTCA


Statistics
Matches: 19,  Mismatches: 1, Indels: 2
        0.86            0.05        0.09

Matches are distributed among these distances:
  23   13  0.68
  24    6  0.32

ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23


Consensus pattern (23 bp):   
AAAAATAAAAAAATTAAAATTCG

Done.