Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012065.1 Kokia drynarioides strain JFW-HI SEQ_127063, 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: 5087
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.33


Found at i:89 original size:28 final size:28

Alignment explanation


    Indices: 58--112  Score: 83
    Period size: 28  Copynumber: 2.0  Consensus size: 28

         48 AAATAGATTT

                *         *             
         58 TAAATTTAAATTTATAATAAATTTAAAA
          1 TAAACTTAAATTTAAAATAAATTTAAAA

                     *                 
         86 TAAACTTAATTTTAAAATAAATTTAAA
          1 TAAACTTAAATTTAAAATAAATTTAAA

        113 TTTATTGGGC


Statistics
Matches: 24,  Mismatches: 3, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  28   24  1.00

ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42


Consensus pattern (28 bp):   
TAAACTTAAATTTAAAATAAATTTAAAA

Found at i:99 original size:17 final size:17

Alignment explanation


    Indices: 75--116  Score: 66
    Period size: 17  Copynumber: 2.5  Consensus size: 17

         65 AAATTTATAA

                             
         75 TAAATTTAAAATAAACT
          1 TAAATTTAAAATAAACT

               *           * 
         92 TAATTTTAAAATAAATT
          1 TAAATTTAAAATAAACT

                    
        109 TAAATTTA
          1 TAAATTTA

        117 TTGGGCCCAG


Statistics
Matches: 22,  Mismatches: 3, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  17   22  1.00

ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43


Consensus pattern (17 bp):   
TAAATTTAAAATAAACT

Found at i:2875 original size:21 final size:20

Alignment explanation


    Indices: 2844--2892  Score: 57
    Period size: 21  Copynumber: 2.5  Consensus size: 20

       2834 AATAATAAAT

                         *       
       2844 AAAATT-AAAAAAGT-TTTAA
          1 AAAATTAAAAAAACTATTT-A

                                 
       2863 AAAATTAATAAAAACTATTTA
          1 AAAATTAA-AAAAACTATTTA

                     
       2884 AAAATTAAA
          1 AAAATTAAA

       2893 GTCCAAATGA


Statistics
Matches: 26,  Mismatches: 1, Indels: 5
        0.81            0.03        0.16

Matches are distributed among these distances:
  19    6  0.23
  20    2  0.08
  21   15  0.58
  22    3  0.12

ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31


Consensus pattern (20 bp):   
AAAATTAAAAAAACTATTTA
Done.