Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012940.1 Kokia drynarioides strain JFW-HI SEQ_127958, 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: 2096
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.31

Warning! 50 characters in sequence are not A, C, G, or T


Found at i:1301 original size:44 final size:44

Alignment explanation


    Indices: 1233--1321  Score: 169
    Period size: 44  Copynumber: 2.0  Consensus size: 44

       1223 CATAAGCCTA

                                                        
       1233 AGTCATTAAGGGCTTGTTTTTGCTTCTGCTGCTTGTTTCAAGAG
          1 AGTCATTAAGGGCTTGTTTTTGCTTCTGCTGCTTGTTTCAAGAG

                *                                       
       1277 AGTCTTTAAGGGCTTGTTTTTGCTTCTGCTGCTTGTTTCAAGAG
          1 AGTCATTAAGGGCTTGTTTTTGCTTCTGCTGCTTGTTTCAAGAG

             
       1321 A
          1 A

       1322 CTCCCAAACA


Statistics
Matches: 44,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  44   44  1.00

ACGTcount: A:0.16, C:0.16, G:0.25, T:0.44


Consensus pattern (44 bp):   
AGTCATTAAGGGCTTGTTTTTGCTTCTGCTGCTTGTTTCAAGAG

Found at i:1721 original size:30 final size:30

Alignment explanation


    Indices: 1685--1812  Score: 170
    Period size: 30  Copynumber: 4.3  Consensus size: 30

       1675 CGAGCCATCA

                          *               *
       1685 AAAGTGCGAGCCT-ACTAAAGACAGTAAGCT
          1 AAAGTGCGAGCCTGTC-AAAGACAGTAAGCC

                                          
       1715 AAAGTGCGAGCCTGTCAAAGACAGTAAGCC
          1 AAAGTGCGAGCCTGTCAAAGACAGTAAGCC

                * *        *              
       1745 AAAGAGTGAGCCTGTTAAAGACAGTAAGCC
          1 AAAGTGCGAGCCTGTCAAAGACAGTAAGCC

                  *                 *     
       1775 AAAGTGTGAGCCTGTCAAAGACAGCAAG-C
          1 AAAGTGCGAGCCTGTCAAAGACAGTAAGCC

                     
       1804 AAAGTGCGA
          1 AAAGTGCGA

       1813 ATCTGTAAAA


Statistics
Matches: 88,  Mismatches: 9, Indels: 3
        0.88            0.09        0.03

Matches are distributed among these distances:
  29    9  0.10
  30   78  0.89
  31    1  0.01

ACGTcount: A:0.39, C:0.20, G:0.27, T:0.15


Consensus pattern (30 bp):   
AAAGTGCGAGCCTGTCAAAGACAGTAAGCC
Done.