Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008381.1 Kokia drynarioides strain JFW-HI SEQ_123049, 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: 3161
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33


Found at i:169 original size:21 final size:21

Alignment explanation


    Indices: 123--170  Score: 62
    Period size: 21  Copynumber: 2.3  Consensus size: 21

        113 TAGTTTTTGT

                                *
        123 ATTTTATTTTTAAAATTTATT
          1 ATTTTATTTTTAAAATTTATA

            *                     
        144 TTTTTATTTTTAAAATTT-TAA
          1 ATTTTATTTTTAAAATTTAT-A

                  
        165 ATTTTA
          1 ATTTTA

        171 GGTTTATCTA


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

Matches are distributed among these distances:
  20    1  0.04
  21   22  0.96

ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67


Consensus pattern (21 bp):   
ATTTTATTTTTAAAATTTATA

Found at i:345 original size:28 final size:29

Alignment explanation


    Indices: 305--368  Score: 80
    Period size: 28  Copynumber: 2.3  Consensus size: 29

        295 CAGTTGAATT

                                          
        305 TAAA-TTTTGAAATAAAAAA-ATTAAGA-C
          1 TAAATTTTTGAAATAAAAAATA-TAAGAGC

                     *    *              
        332 TAAATTTTTTAAATTAAAAATATAAGAGC
          1 TAAATTTTTGAAATAAAAAATATAAGAGC

                    
        361 TAAATTTT
          1 TAAATTTT

        369 AAAGTTTTAG


Statistics
Matches: 32,  Mismatches: 2, Indels: 4
        0.84            0.05        0.11

Matches are distributed among these distances:
  27    4  0.12
  28   18  0.56
  29   10  0.31

ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38


Consensus pattern (29 bp):   
TAAATTTTTGAAATAAAAAATATAAGAGC

Found at i:349 original size:29 final size:28

Alignment explanation


    Indices: 305--368  Score: 78
    Period size: 29  Copynumber: 2.3  Consensus size: 28

        295 CAGTTGAATT

                                         
        305 TAAA-TTTTGAAATAAAAAAATTAAGA-C
          1 TAAATTTTTGAAATAAAAAAA-TAAGAGC

                     *          *        
        332 TAAATTTTTTAAATTAAAAATATAAGAGC
          1 TAAATTTTTGAAA-TAAAAAAATAAGAGC

                    
        361 TAAATTTT
          1 TAAATTTT

        369 AAAGTTTTAG


Statistics
Matches: 32,  Mismatches: 2, Indels: 4
        0.84            0.05        0.11

Matches are distributed among these distances:
  27    4  0.12
  28   12  0.38
  29   16  0.50

ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38


Consensus pattern (28 bp):   
TAAATTTTTGAAATAAAAAAATAAGAGC
Done.