Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01015105.1 Kokia drynarioides strain JFW-HI SEQ_130149, 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: 23369
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34

Warning! 2 characters in sequence are not A, C, G, or T


Found at i:1380 original size:34 final size:33

Alignment explanation


    Indices: 1337--1401  Score: 121
    Period size: 34  Copynumber: 1.9  Consensus size: 33

       1327 TATTCTTCCT

                                             
       1337 CTATACACCATTCCTTCAAAAAAAAAAAAAAAA
          1 CTATACACCATTCCTTCAAAAAAAAAAAAAAAA

                                            
       1370 NCTATACACCATTCCTTCAAAAAAAAAAAAAA
          1 -CTATACACCATTCCTTCAAAAAAAAAAAAAA

       1402 GAGACCAATT


Statistics
Matches: 31,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  34   31  1.00

ACGTcount: A:0.58, C:0.22, G:0.00, T:0.18


Consensus pattern (33 bp):   
CTATACACCATTCCTTCAAAAAAAAAAAAAAAA

Found at i:12118 original size:31 final size:32

Alignment explanation


    Indices: 12065--12136  Score: 85
    Period size: 32  Copynumber: 2.3  Consensus size: 32

      12055 GCAAGACTAA

                 *       *            *     
      12065 AATTTGAAAAGTAGAAGAAC-AAAAATTGACC
          1 AATTTAAAAAGTACAAGAACAAAAAAATGACC

                                             
      12096 AATTTAAAAAGTACATAG-ACAAAAAAATGACC
          1 AATTTAAAAAGTACA-AGAACAAAAAAATGACC

              *      
      12128 AAATTAAAA
          1 AATTTAAAA

      12137 TACAGAGACT


Statistics
Matches: 35,  Mismatches: 4, Indels: 3
        0.83            0.10        0.07

Matches are distributed among these distances:
  31   15  0.43
  32   20  0.57

ACGTcount: A:0.60, C:0.10, G:0.11, T:0.19


Consensus pattern (32 bp):   
AATTTAAAAAGTACAAGAACAAAAAAATGACC

Found at i:12914 original size:16 final size:16

Alignment explanation


    Indices: 12880--12918  Score: 53
    Period size: 16  Copynumber: 2.4  Consensus size: 16

      12870 ATTCAACCAT

                            
      12880 TAAATATATATTAATA
          1 TAAATATATATTAATA

                      *      
      12896 TAAACTATATTTTAA-A
          1 TAAA-TATATATTAATA

                   
      12912 TAAATAT
          1 TAAATAT

      12919 GATAGAAATA


Statistics
Matches: 21,  Mismatches: 1, Indels: 3
        0.84            0.04        0.12

Matches are distributed among these distances:
  15    3  0.14
  16    9  0.43
  17    9  0.43

ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44


Consensus pattern (16 bp):   
TAAATATATATTAATA
Done.