Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006692.1 Kokia drynarioides strain JFW-HI SEQ_121286, 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: 3727
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33


Found at i:1072 original size:37 final size:33

Alignment explanation


    Indices: 1018--1106  Score: 106
    Period size: 37  Copynumber: 2.6  Consensus size: 33

       1008 ATGCGGAAGG

                 *                 *             
       1018 AAGAGTAATACTAGCTCGTTTAAGCATACTCGCTAGT
          1 AAGAGCAATACTAGCTCGTTTAACCATACT---T-GT

                        *        *           
       1055 AAGAGCAATACTGGCTCGTTTGACCATACTTGT
          1 AAGAGCAATACTAGCTCGTTTAACCATACTTGT

                               
       1088 AAGAGCAATACTAGCTCGT
          1 AAGAGCAATACTAGCTCGT

       1107 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

Found at i:2416 original size:19 final size:20

Alignment explanation


    Indices: 2388--2425  Score: 60
    Period size: 19  Copynumber: 1.9  Consensus size: 20

       2378 GGGATTATTT

                         *      
       2388 TAAAATAAATAAATTAAAAA
          1 TAAAATAAATAAAATAAAAA

                               
       2408 TAAAA-AAATAAAATAAAA
          1 TAAAATAAATAAAATAAAA

       2426 GAATTAGATT


Statistics
Matches: 17,  Mismatches: 1, Indels: 1
        0.89            0.05        0.05

Matches are distributed among these distances:
  19   12  0.71
  20    5  0.29

ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21


Consensus pattern (20 bp):   
TAAAATAAATAAAATAAAAA
Done.