Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008416.1 Kokia drynarioides strain JFW-HI SEQ_123087, 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: 11901
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33


Found at i:8815 original size:40 final size:41

Alignment explanation


    Indices: 8760--8854  Score: 165
    Period size: 40  Copynumber: 2.3  Consensus size: 41

       8750 TTGTTCATAG

                      *                              
       8760 AGAATTCTTGCTAAGGTGGAGATTGTTAGAATT-GGTGACT
          1 AGAATTCTTGTTAAGGTGGAGATTGTTAGAATTGGGTGACT

                                                     
       8800 AGAATTCTTGTTAAGGTGGAGATTGTTAGAATTGGGTGACT
          1 AGAATTCTTGTTAAGGTGGAGATTGTTAGAATTGGGTGACT

                   *      
       8841 AGAATTCATGTTAA
          1 AGAATTCTTGTTAA

       8855 AATAAAATTC


Statistics
Matches: 52,  Mismatches: 2, Indels: 1
        0.95            0.04        0.02

Matches are distributed among these distances:
  40   32  0.62
  41   20  0.38

ACGTcount: A:0.29, C:0.06, G:0.28, T:0.36


Consensus pattern (41 bp):   
AGAATTCTTGTTAAGGTGGAGATTGTTAGAATTGGGTGACT

Found at i:8865 original size:17 final size:18

Alignment explanation


    Indices: 8843--8880  Score: 60
    Period size: 18  Copynumber: 2.2  Consensus size: 18

       8833 GGGTGACTAG

                     *        
       8843 AATTCA-TGTTAAAATAA
          1 AATTCAGTGGTAAAATAA

                              
       8860 AATTCAGTGGTAAAATAA
          1 AATTCAGTGGTAAAATAA

               
       8878 AAT
          1 AAT

       8881 AAAAGTAAAA


Statistics
Matches: 19,  Mismatches: 1, Indels: 1
        0.90            0.05        0.05

Matches are distributed among these distances:
  17    6  0.32
  18   13  0.68

ACGTcount: A:0.53, C:0.05, G:0.11, T:0.32


Consensus pattern (18 bp):   
AATTCAGTGGTAAAATAA

Done.