Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006219.1 Kokia drynarioides strain JFW-HI SEQ_120790, 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: 21062
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32

Warning! 59 characters in sequence are not A, C, G, or T


Found at i:7493 original size:13 final size:13

Alignment explanation


    Indices: 7475--7507  Score: 50
    Period size: 12  Copynumber: 2.6  Consensus size: 13

       7465 GTAATTTTCA

                         
       7475 TAAATTTAAAATT
          1 TAAATTTAAAATT

                         
       7488 TAAATTT-AAATT
          1 TAAATTTAAAATT

               *    
       7500 TAATTTTA
          1 TAAATTTA

       7508 GTATTTTTAT


Statistics
Matches: 18,  Mismatches: 1, Indels: 2
        0.86            0.05        0.10

Matches are distributed among these distances:
  12   11  0.61
  13    7  0.39

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (13 bp):   
TAAATTTAAAATT

Found at i:7537 original size:23 final size:24

Alignment explanation


    Indices: 7501--7548  Score: 71
    Period size: 23  Copynumber: 2.0  Consensus size: 24

       7491 ATTTAAATTT

                   *                
       7501 AATTTTAGTATTTTT-ATTTTTAA
          1 AATTTTAATATTTTTAATTTTTAA

                     *              
       7524 AATTTTAATTTTTTTAATTTTTAA
          1 AATTTTAATATTTTTAATTTTTAA

             
       7548 A
          1 A

       7549 TTTCAAAATT


Statistics
Matches: 22,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  23   13  0.59
  24    9  0.41

ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65


Consensus pattern (24 bp):   
AATTTTAATATTTTTAATTTTTAA

Found at i:11224 original size:21 final size:19

Alignment explanation


    Indices: 11200--11238  Score: 51
    Period size: 19  Copynumber: 1.9  Consensus size: 19

      11190 AATTCTTAAT

                                 
      11200 TATATTATTTGTGAAAATTTA
          1 TATATT-TTT-TGAAAATTTA

                      *       
      11221 TATATTTTTTTAAAATTT
          1 TATATTTTTTGAAAATTT

      11239 TAAAAATAAT


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

Matches are distributed among these distances:
  19    8  0.47
  20    3  0.18
  21    6  0.35

ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59


Consensus pattern (19 bp):   
TATATTTTTTGAAAATTTA

Found at i:19925 original size:27 final size:27

Alignment explanation


    Indices: 19883--19938  Score: 85
    Period size: 27  Copynumber: 2.1  Consensus size: 27

      19873 GGTGGTGCAG

                       *       *       
      19883 CTCCTCCGCCAGCACCACCTCCTCCTC
          1 CTCCTCCGCCACCACCACCCCCTCCTC

                   *                   
      19910 CTCCTCCTCCACCACCACCCCCTCCTC
          1 CTCCTCCGCCACCACCACCCCCTCCTC

              
      19937 CT
          1 CT

      19939 GCCATTTTTT


Statistics
Matches: 26,  Mismatches: 3, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  27   26  1.00

ACGTcount: A:0.11, C:0.66, G:0.04, T:0.20


Consensus pattern (27 bp):   
CTCCTCCGCCACCACCACCCCCTCCTC
Done.