Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01011175.1 Kokia drynarioides strain JFW-HI SEQ_126151, 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: 14337
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.33


Found at i:3692 original size:26 final size:26

Alignment explanation


    Indices: 3626--3676  Score: 93
    Period size: 26  Copynumber: 2.0  Consensus size: 26

       3616 ATAAAATTAG

                          *           
       3626 CCACAAAGACTCTTAAACAGAATCAA
          1 CCACAAAGACTCTTTAACAGAATCAA

                                     
       3652 CCACAAAGACTCTTTAACAGAATCA
          1 CCACAAAGACTCTTTAACAGAATCA

       3677 GCCATAGAAG


Statistics
Matches: 24,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  26   24  1.00

ACGTcount: A:0.47, C:0.27, G:0.08, T:0.18


Consensus pattern (26 bp):   
CCACAAAGACTCTTTAACAGAATCAA

Found at i:13416 original size:25 final size:26

Alignment explanation


    Indices: 13402--13481  Score: 107
    Period size: 25  Copynumber: 3.3  Consensus size: 26

      13392 GAGGTACATA

                                      
      13402 AGTGCTGGGGAAACAGAAGCACACAC
          1 AGTGCTGGGGAAACAGAAGCACACAC

                      *               
      13428 AGTGCT-GGGTAACAGAAGCACACAC
          1 AGTGCTGGGGAAACAGAAGCACACAC

                                     *
      13453 AGTGCT---G-AACAGAAGCACACAT
          1 AGTGCTGGGGAAACAGAAGCACACAC

                   
      13475 AGTGCTG
          1 AGTGCTG

      13482 AACAGTAAGC


Statistics
Matches: 51,  Mismatches: 2, Indels: 5
        0.88            0.03        0.09

Matches are distributed among these distances:
  22   20  0.39
  23    1  0.02
  25   24  0.47
  26    6  0.12

ACGTcount: A:0.36, C:0.23, G:0.29, T:0.12


Consensus pattern (26 bp):   
AGTGCTGGGGAAACAGAAGCACACAC

Found at i:13466 original size:22 final size:22

Alignment explanation


    Indices: 13413--13491  Score: 113
    Period size: 22  Copynumber: 3.4  Consensus size: 22

      13403 GTGCTGGGGA

                                    
      13413 AACAGAAGCACACACAGTGCTGGG
          1 AACAGAAGCACACACAGTGCT--G

                                   
      13437 TAACAGAAGCACACACAGTGCTG
          1 -AACAGAAGCACACACAGTGCTG

                          *       
      13460 AACAGAAGCACACATAGTGCTG
          1 AACAGAAGCACACACAGTGCTG

                      
      13482 AACAGTAAGC
          1 AACAG-AAGC

      13492 GCGCTAGCAT


Statistics
Matches: 52,  Mismatches: 1, Indels: 4
        0.91            0.02        0.07

Matches are distributed among these distances:
  22   26  0.50
  23    5  0.10
  25   21  0.40

ACGTcount: A:0.41, C:0.24, G:0.24, T:0.11


Consensus pattern (22 bp):   
AACAGAAGCACACACAGTGCTG
Done.