Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008452.1 Kokia drynarioides strain JFW-HI SEQ_123127, 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: 20702
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33

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


Found at i:17920 original size:19 final size:19

Alignment explanation


    Indices: 17879--17920  Score: 52
    Period size: 18  Copynumber: 2.3  Consensus size: 19

      17869 AATTAAATAG

                            *  
      17879 TTCGAGTTATTTAAGTTAA
          1 TTCGAGTTATTTAAGTCAA

                                
      17898 -TCGAGTTATTTTAA-TCAA
          1 TTCGAGTTA-TTTAAGTCAA

                 
      17916 TTCGA
          1 TTCGA

      17921 ATAAAAAATT


Statistics
Matches: 20,  Mismatches: 1, Indels: 4
        0.80            0.04        0.16

Matches are distributed among these distances:
  18   11  0.55
  19    9  0.45

ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45


Consensus pattern (19 bp):   
TTCGAGTTATTTAAGTCAA

Found at i:18052 original size:21 final size:21

Alignment explanation


    Indices: 18028--18070  Score: 59
    Period size: 21  Copynumber: 2.0  Consensus size: 21

      18018 ATCCTTTCTA

                  *   *          
      18028 AAGTTATAAGTCAAAACCATT
          1 AAGTTAAAAGACAAAACCATT

                            *    
      18049 AAGTTAAAAGACAAAATCATT
          1 AAGTTAAAAGACAAAACCATT

             
      18070 A
          1 A

      18071 TATTGTTTAT


Statistics
Matches: 19,  Mismatches: 3, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  21   19  1.00

ACGTcount: A:0.53, C:0.12, G:0.09, T:0.26


Consensus pattern (21 bp):   
AAGTTAAAAGACAAAACCATT

Found at i:18834 original size:3 final size:3

Alignment explanation


    Indices: 18826--18854  Score: 58
    Period size: 3  Copynumber: 9.7  Consensus size: 3

      18816 TAGAAAACAA

                                                  
      18826 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
          1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA

      18855 ATCATATCTT


Statistics
Matches: 26,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   26  1.00

ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31


Consensus pattern (3 bp):   
AAT

Done.