Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007586.1 Kokia drynarioides strain JFW-HI SEQ_122216, 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: 12183
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.29


Found at i:4507 original size:13 final size:13

Alignment explanation


    Indices: 4491--4520  Score: 51
    Period size: 13  Copynumber: 2.3  Consensus size: 13

       4481 GAAAATTGAA

                         
       4491 AAAAAAAAAAAAG
          1 AAAAAAAAAAAAG

                *        
       4504 AAAAGAAAAAAAG
          1 AAAAAAAAAAAAG

                
       4517 AAAA
          1 AAAA

       4521 CTGAAGTTAA


Statistics
Matches: 16,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  13   16  1.00

ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00


Consensus pattern (13 bp):   
AAAAAAAAAAAAG

Found at i:5152 original size:151 final size:151

Alignment explanation


    Indices: 4878--5182  Score: 592
    Period size: 151  Copynumber: 2.0  Consensus size: 151

       4868 AACCGGATAA

                                                                             
       4878 TTAACTTTTCTTTTTTAAATGTCTAATTAGTAAGCTTTAAGTATCAATTTAATGATAGTCCGATC
          1 TTAACTTTTCTTTTTTAAATGTCTAATTAGTAAGCTTTAAGTATCAATTTAATGATAGTCCGATC

                                    *                                        
       4943 CTCATCGATGAGTAAAATAACATATTTTAGATTCAAGTTGATCTAACAGTTAATATTGGAGATTG
         66 CTCATCGATGAGTAAAATAACATACTTTAGATTCAAGTTGATCTAACAGTTAATATTGGAGATTG

                                 
       5008 AATAAGAAAACTATTTGAATT
        131 AATAAGAAAACTATTTGAATT

                                                                             
       5029 TTAACTTTTCTTTTTTAAATGTCTAATTAGTAAGCTTTAAGTATCAATTTAATGATAGTCCGATC
          1 TTAACTTTTCTTTTTTAAATGTCTAATTAGTAAGCTTTAAGTATCAATTTAATGATAGTCCGATC

                                                         *                   
       5094 CTCATCGATGAGTAAAATAACATACTTTAGATTCAAGTTGATCTAGCAGTTAATATTGGAGATTG
         66 CTCATCGATGAGTAAAATAACATACTTTAGATTCAAGTTGATCTAACAGTTAATATTGGAGATTG

                                 
       5159 AATAAGAAAACTATTTGAATT
        131 AATAAGAAAACTATTTGAATT

               
       5180 TTA
          1 TTA

       5183 GTATACAAAT


Statistics
Matches: 152,  Mismatches: 2, Indels: 0
        0.99            0.01        0.00

Matches are distributed among these distances:
 151  152  1.00

ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40


Consensus pattern (151 bp):   
TTAACTTTTCTTTTTTAAATGTCTAATTAGTAAGCTTTAAGTATCAATTTAATGATAGTCCGATC
CTCATCGATGAGTAAAATAACATACTTTAGATTCAAGTTGATCTAACAGTTAATATTGGAGATTG
AATAAGAAAACTATTTGAATT

Found at i:5657 original size:20 final size:22

Alignment explanation


    Indices: 5634--5679  Score: 78
    Period size: 22  Copynumber: 2.2  Consensus size: 22

       5624 CAATATTAAC

                                  
       5634 ATTTCAAAT-ATAAT-AAAAAA
          1 ATTTCAAATCATAATCAAAAAA

                                  
       5654 ATTTCAAATCATAATCAAAAAA
          1 ATTTCAAATCATAATCAAAAAA

                
       5676 ATTT
          1 ATTT

       5680 TATCGAATTC


Statistics
Matches: 24,  Mismatches: 0, Indels: 2
        0.92            0.00        0.08

Matches are distributed among these distances:
  20    9  0.38
  21    5  0.21
  22   10  0.42

ACGTcount: A:0.59, C:0.09, G:0.00, T:0.33


Consensus pattern (22 bp):   
ATTTCAAATCATAATCAAAAAA

Done.