Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01013069.1 Kokia drynarioides strain JFW-HI SEQ_128087, 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: 3510
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.24

Warning! 51 characters in sequence are not A, C, G, or T


Found at i:3372 original size:17 final size:17

Alignment explanation


    Indices: 3350--3421  Score: 83
    Period size: 17  Copynumber: 4.2  Consensus size: 17

       3340 CAAACTCCCT

                             
       3350 TTAAATTTATTTTAAAA
          1 TTAAATTTATTTTAAAA

                    *   *    
       3367 TTAAATTTGTTTAAAAA
          1 TTAAATTTATTTTAAAA

                              
       3384 TTTAAATTTATTTT-AAA
          1 -TTAAATTTATTTTAAAA

              *       *       
       3401 TTTAATTTAAGTTTAAAA
          1 TTAAATTT-ATTTTAAAA

               
       3419 TTA
          1 TTA

       3422 TTTTCAAATT


Statistics
Matches: 45,  Mismatches: 7, Indels: 5
        0.79            0.12        0.09

Matches are distributed among these distances:
  16    7  0.16
  17   22  0.49
  18   16  0.36

ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53


Consensus pattern (17 bp):   
TTAAATTTATTTTAAAA

Found at i:3400 original size:11 final size:11

Alignment explanation


    Indices: 3382--3416  Score: 52
    Period size: 11  Copynumber: 3.2  Consensus size: 11

       3372 TTTGTTTAAA

                       
       3382 AATTTAAATTT
          1 AATTTAAATTT

             *         
       3393 ATTTTAAATTT
          1 AATTTAAATTT

                   *   
       3404 AATTTAAGTTT
          1 AATTTAAATTT

              
       3415 AA
          1 AA

       3417 AATTATTTTC


Statistics
Matches: 21,  Mismatches: 3, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  11   21  1.00

ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54


Consensus pattern (11 bp):   
AATTTAAATTT

Found at i:3420 original size:35 final size:35

Alignment explanation


    Indices: 3349--3418  Score: 106
    Period size: 35  Copynumber: 2.0  Consensus size: 35

       3339 CCAAACTCCC

                                               
       3349 TTTAAATTTATTTTAAAATTAAATTTGTTTAAAAA
          1 TTTAAATTTATTTTAAAATTAAATTTGTTTAAAAA

                                *               
       3384 TTTAAATTTATTTT-AAATTTAATTTAAGTTTAAAA
          1 TTTAAATTTATTTTAAAATTAAATTT--GTTTAAAA

       3419 TTATTTTCAA


Statistics
Matches: 32,  Mismatches: 1, Indels: 3
        0.89            0.03        0.08

Matches are distributed among these distances:
  34   10  0.31
  35   14  0.44
  36    8  0.25

ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53


Consensus pattern (35 bp):   
TTTAAATTTATTTTAAAATTAAATTTGTTTAAAAA
Done.