Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005964.1 Kokia drynarioides strain JFW-HI SEQ_120364, 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: 2079
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36


Found at i:588 original size:30 final size:30

Alignment explanation


    Indices: 554--658  Score: 111
    Period size: 30  Copynumber: 3.5  Consensus size: 30

        544 TAACCGGGCA

                          **              
        554 AGCTTTCTGGAAAGAGCGTTCAGCTGGAAG
          1 AGCTTTCTGGAAAGCCCGTTCAGCTGGAAG

                           **          ** 
        584 AGCTTTCTGGAAAGCTTGTTCAGCTGGGTG
          1 AGCTTTCTGGAAAGCCCGTTCAGCTGGAAG

                    *           *  *    * 
        614 AGCTTTCTAGAAAGCCCGTTTAGTTGGACG
          1 AGCTTTCTGGAAAGCCCGTTCAGCTGGAAG

                   *       
        644 AGCTTTCCGGAAAGC
          1 AGCTTTCTGGAAAGC

        659 TTGTCTGTAA


Statistics
Matches: 61,  Mismatches: 14, Indels: 0
        0.81            0.19        0.00

Matches are distributed among these distances:
  30   61  1.00

ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28


Consensus pattern (30 bp):   
AGCTTTCTGGAAAGCCCGTTCAGCTGGAAG

Found at i:1858 original size:37 final size:33

Alignment explanation


    Indices: 1804--1892  Score: 106
    Period size: 37  Copynumber: 2.6  Consensus size: 33

       1794 ATGCGGAAGG

                 *                 *             
       1804 AAGAGTAATACTAGCTCGTTTAAGCATACTCGCTAGT
          1 AAGAGCAATACTAGCTCGTTTAACCATACT---T-GT

                        *        *           
       1841 AAGAGCAATACTGGCTCGTTTGACCATACTTGT
          1 AAGAGCAATACTAGCTCGTTTAACCATACTTGT

                               
       1874 AAGAGCAATACTAGCTCGT
          1 AAGAGCAATACTAGCTCGT

       1893 AAGAGTAACA


Statistics
Matches: 47,  Mismatches: 5, Indels: 4
        0.84            0.09        0.07

Matches are distributed among these distances:
  33   20  0.43
  34    1  0.02
  37   26  0.55

ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28


Consensus pattern (33 bp):   
AAGAGCAATACTAGCTCGTTTAACCATACTTGT
Done.