Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007505.1 Kokia drynarioides strain JFW-HI SEQ_122129, 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: 24937
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33


Found at i:9648 original size:2 final size:2

Alignment explanation


    Indices: 9641--9671  Score: 62
    Period size: 2  Copynumber: 15.5  Consensus size: 2

       9631 AGCTGAACAC

                                                          
       9641 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A

       9672 ATTGAAAACT


Statistics
Matches: 29,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   29  1.00

ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48


Consensus pattern (2 bp):   
AT

Found at i:17917 original size:184 final size:184

Alignment explanation


    Indices: 17608--17976  Score: 702
    Period size: 184  Copynumber: 2.0  Consensus size: 184

      17598 TCTATAAAAA

                                                                             
      17608 TTTAAACTCTTTTATTAATTATTTATATCCTATTAATTTAATTAATTAAAGATAAAATAATTCTT
          1 TTTAAACTCTTTTATTAATTATTTATATCCTATTAATTTAATTAATTAAAGATAAAATAATTCTT

                                  *                                          
      17673 AGAAAATATAATTTCTTTATAAGAGAATTTTAAAATGATTTTATTTCCTTATTTATCTCTTTATT
         66 AGAAAATATAATTTCTTTATAAAAGAATTTTAAAATGATTTTATTTCCTTATTTATCTCTTTATT

                  *                                               
      17738 AATAAATTTTAATTTAATTAGAAATAAACATTAATGAGAGATGATGAACTTTGG
        131 AATAAAATTTAATTTAATTAGAAATAAACATTAATGAGAGATGATGAACTTTGG

                                                                       *     
      17792 TTTAAACTCTTTTATTAATTATTTATATCCTATTAATTTAATTAATTAAAGATAAAATAGTTCTT
          1 TTTAAACTCTTTTATTAATTATTTATATCCTATTAATTTAATTAATTAAAGATAAAATAATTCTT

                                                              *              
      17857 AGAAAATATAATTTCTTTATAAAAGAATTTTAAAATGATTTTATTTCCTTTTTTATCTCTTTATT
         66 AGAAAATATAATTTCTTTATAAAAGAATTTTAAAATGATTTTATTTCCTTATTTATCTCTTTATT

                                                                  
      17922 AATAAAATTTAATTTAATTAGAAATAAACATTAATGAGAGATGATGAACTTTGG
        131 AATAAAATTTAATTTAATTAGAAATAAACATTAATGAGAGATGATGAACTTTGG

             
      17976 T
          1 T

      17977 CAAAAAATTC


Statistics
Matches: 181,  Mismatches: 4, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
 184  181  1.00

ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46


Consensus pattern (184 bp):   
TTTAAACTCTTTTATTAATTATTTATATCCTATTAATTTAATTAATTAAAGATAAAATAATTCTT
AGAAAATATAATTTCTTTATAAAAGAATTTTAAAATGATTTTATTTCCTTATTTATCTCTTTATT
AATAAAATTTAATTTAATTAGAAATAAACATTAATGAGAGATGATGAACTTTGG

Found at i:23185 original size:8 final size:7

Alignment explanation


    Indices: 23156--23183  Score: 56
    Period size: 7  Copynumber: 4.0  Consensus size: 7

      23146 CTTTTAATTT

                   
      23156 TAAAAAA
          1 TAAAAAA

                   
      23163 TAAAAAA
          1 TAAAAAA

                   
      23170 TAAAAAA
          1 TAAAAAA

                   
      23177 TAAAAAA
          1 TAAAAAA

      23184 ATGGGGCAGA


Statistics
Matches: 21,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   7   21  1.00

ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14


Consensus pattern (7 bp):   
TAAAAAA
Done.