Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002238.1 Kokia drynarioides strain JFW-HI SEQ_114240, 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: 15647
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35

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


Found at i:55 original size:25 final size:24

Alignment explanation


    Indices: 27--77  Score: 59
    Period size: 24  Copynumber: 2.1  Consensus size: 24

         17 TAATATAATT

                         *            
         27 ATTATTAAAATATGA-ATTAGTAAAA
          1 ATTA-TAAAATATAATATTAG-AAAA

                   *                
         52 ATTATAATATATAATATTAGAAAA
          1 ATTATAAAATATAATATTAGAAAA

              
         76 AT
          1 AT

         78 AATATATGAC


Statistics
Matches: 23,  Mismatches: 2, Indels: 3
        0.82            0.07        0.11

Matches are distributed among these distances:
  24   14  0.61
  25    9  0.39

ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37


Consensus pattern (24 bp):   
ATTATAAAATATAATATTAGAAAA

Found at i:5222 original size:24 final size:23

Alignment explanation


    Indices: 5189--5233  Score: 63
    Period size: 24  Copynumber: 1.9  Consensus size: 23

       5179 AAAAATAATT

                 *       *          
       5189 TTTCAGTTAAATTTTGTTTATTTA
          1 TTTCAATTAAATTAT-TTTATTTA

                                 
       5213 TTTCAATTAAATTATTTTATT
          1 TTTCAATTAAATTATTTTATT

       5234 ATTATTTAAC


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

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

ACGTcount: A:0.29, C:0.04, G:0.04, T:0.62


Consensus pattern (23 bp):   
TTTCAATTAAATTATTTTATTTA

Found at i:15346 original size:31 final size:29

Alignment explanation


    Indices: 15306--15391  Score: 75
    Period size: 29  Copynumber: 2.9  Consensus size: 29

      15296 GAATAAATCT

                *                          
      15306 CAAAATTATACATGAATTTTGATTTAATATG
          1 CAAACTTATACATGAATTTTGATTT--TATG

               **     *                *  
      15337 CAATTTTATATATGAACTTTT-ATTTTGTG
          1 CAAACTTATACATGAA-TTTTGATTTTATG

            *                         
      15366 TAAACTTATACATGAAATTTTGATTT
          1 CAAACTTATACATG-AATTTTGATTT

      15392 GACTAAATTC


Statistics
Matches: 44,  Mismatches: 8, Indels: 7
        0.75            0.14        0.12

Matches are distributed among these distances:
  29   17  0.39
  30    6  0.14
  31   17  0.39
  32    4  0.09

ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48


Consensus pattern (29 bp):   
CAAACTTATACATGAATTTTGATTTTATG

Found at i:15618 original size:29 final size:30

Alignment explanation


    Indices: 15564--15620  Score: 82
    Period size: 29  Copynumber: 1.9  Consensus size: 30

      15554 TTTGAACAAC

                            *             
      15564 AATCAAAGTTTCATGTGTATAATTGCACCA
          1 AATCAAAGTTTCATGTATATAATTGCACCA

                                         
      15594 AATCAAAGTTT-ATGTATCA-AATTGCAC
          1 AATCAAAGTTTCATGTAT-ATAATTGCAC

      15621 GTTGAATCAA


Statistics
Matches: 25,  Mismatches: 1, Indels: 3
        0.86            0.03        0.10

Matches are distributed among these distances:
  29   13  0.52
  30   12  0.48

ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33


Consensus pattern (30 bp):   
AATCAAAGTTTCATGTATATAATTGCACCA
Done.