Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012616.1 Kokia drynarioides strain JFW-HI SEQ_127625, 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: 9519
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30

Warning! 100 characters in sequence are not A, C, G, or T


Found at i:3618 original size:15 final size:15

Alignment explanation


    Indices: 3530--3619  Score: 59
    Period size: 15  Copynumber: 6.1  Consensus size: 15

       3520 TAATGTAAAC

                        *   
       3530 ATTAAAATTATCTTAA
          1 ATTAAAATTAT-ATAA

                           
       3546 A--AAAATTATATAA
          1 ATTAAAATTATATAA

                  *         
       3559 A--AAATTTCA-ATAA
          1 ATTAAAATT-ATATAA

                           
       3572 ATTAAAATTATATAA
          1 ATTAAAATTATATAA

                              
       3587 GATTATTAAA-TAT-TAA
          1 -ATTA--AAATTATATAA

                     *     
       3603 ATTAAAATTTTATAA
          1 ATTAAAATTATATAA

              
       3618 AT
          1 AT

       3620 ATTTTAAAAA


Statistics
Matches: 61,  Mismatches: 4, Indels: 19
        0.73            0.05        0.23

Matches are distributed among these distances:
  13   17  0.28
  14   12  0.20
  15   18  0.30
  16    8  0.13
  17    3  0.05
  18    3  0.05

ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40


Consensus pattern (15 bp):   
ATTAAAATTATATAA

Found at i:6663 original size:170 final size:170

Alignment explanation


    Indices: 6381--6721  Score: 682
    Period size: 170  Copynumber: 2.0  Consensus size: 170

       6371 TCCAAGTTAT

                                                                             
       6381 GTGCCAACATTTGGTCCCATTCCTCAATGTCCTCCTTCAGCAATGAATTAATTTTACTGCTCAGC
          1 GTGCCAACATTTGGTCCCATTCCTCAATGTCCTCCTTCAGCAATGAATTAATTTTACTGCTCAGC

                                                                             
       6446 TGGGATATATCAGCACTTCTATTGGTGTTAGAAGCGGGAGAACTGGAGCCGAGGCACAATAATCT
         66 TGGGATATATCAGCACTTCTATTGGTGTTAGAAGCGGGAGAACTGGAGCCGAGGCACAATAATCT

                                                    
       6511 ACCAAATCTCATATCATGAATTTCAATCGCATTACTGCTA
        131 ACCAAATCTCATATCATGAATTTCAATCGCATTACTGCTA

                                                                             
       6551 GTGCCAACATTTGGTCCCATTCCTCAATGTCCTCCTTCAGCAATGAATTAATTTTACTGCTCAGC
          1 GTGCCAACATTTGGTCCCATTCCTCAATGTCCTCCTTCAGCAATGAATTAATTTTACTGCTCAGC

                                                                             
       6616 TGGGATATATCAGCACTTCTATTGGTGTTAGAAGCGGGAGAACTGGAGCCGAGGCACAATAATCT
         66 TGGGATATATCAGCACTTCTATTGGTGTTAGAAGCGGGAGAACTGGAGCCGAGGCACAATAATCT

                                                    
       6681 ACCAAATCTCATATCATGAATTTCAATCGCATTACTGCTA
        131 ACCAAATCTCATATCATGAATTTCAATCGCATTACTGCTA

             
       6721 G
          1 G

       6722 GATTGTCAAC


Statistics
Matches: 171,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
 170  171  1.00

ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30


Consensus pattern (170 bp):   
GTGCCAACATTTGGTCCCATTCCTCAATGTCCTCCTTCAGCAATGAATTAATTTTACTGCTCAGC
TGGGATATATCAGCACTTCTATTGGTGTTAGAAGCGGGAGAACTGGAGCCGAGGCACAATAATCT
ACCAAATCTCATATCATGAATTTCAATCGCATTACTGCTA
Done.