Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000990.1 Kokia drynarioides strain JFW-HI SEQ_112187, 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: 4811
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32

Warning! 4 characters in sequence are not A, C, G, or T


Found at i:3024 original size:7 final size:7

Alignment explanation


    Indices: 3014--3056  Score: 50
    Period size: 7  Copynumber: 5.9  Consensus size: 7

       3004 AATTGAGAAA

                   
       3014 AAAAAAG
          1 AAAAAAG

                  *
       3021 AAAAAAA
          1 AAAAAAG

                    
       3028 AAGAAAAG
          1 AA-AAAAG

             *     
       3036 AGAAAAG
          1 AAAAAAG

                    
       3043 AAAAGAAG
          1 AAAA-AAG

                  
       3051 AAAAAA
          1 AAAAAA

       3057 ATGTTTGCTA


Statistics
Matches: 30,  Mismatches: 4, Indels: 4
        0.79            0.11        0.11

Matches are distributed among these distances:
   7   18  0.60
   8   12  0.40

ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00


Consensus pattern (7 bp):   
AAAAAAG

Found at i:3034 original size:17 final size:17

Alignment explanation


    Indices: 3014--3054  Score: 55
    Period size: 17  Copynumber: 2.4  Consensus size: 17

       3004 AATTGAGAAA

                             
       3014 AAAAAAGAAAAAAAAAG
          1 AAAAAAGAAAAAAAAAG

                *      *     
       3031 AAAAGAGAAAAGAAAAG
          1 AAAAAAGAAAAAAAAAG

                   
       3048 AAGAAAA
          1 AA-AAAA

       3055 AAATGTTTGC


Statistics
Matches: 20,  Mismatches: 3, Indels: 1
        0.83            0.12        0.04

Matches are distributed among these distances:
  17   17  0.85
  18    3  0.15

ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00


Consensus pattern (17 bp):   
AAAAAAGAAAAAAAAAG

Found at i:3056 original size:10 final size:10

Alignment explanation


    Indices: 3009--3046  Score: 58
    Period size: 10  Copynumber: 3.6  Consensus size: 10

       2999 AAGGAAATTG

                      
       3009 AGAAAAAAAA
          1 AGAAAAAAAA

                      
       3019 AGAAAAAAAA
          1 AGAAAAAAAA

                        
       3029 AGAAAAGAGAAA
          1 AGAAAA-A-AAA

                  
       3041 AGAAAA
          1 AGAAAA

       3047 GAAGAAAAAA


Statistics
Matches: 26,  Mismatches: 0, Indels: 2
        0.93            0.00        0.07

Matches are distributed among these distances:
  10   16  0.62
  11    1  0.04
  12    9  0.35

ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00


Consensus pattern (10 bp):   
AGAAAAAAAA
Done.