Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008896.1 Kokia drynarioides strain JFW-HI SEQ_123584, 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: 7338
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.35


Found at i:2143 original size:8 final size:8

Alignment explanation


    Indices: 2121--2149  Score: 51
    Period size: 8  Copynumber: 3.8  Consensus size: 8

       2111 TATATTATTT

                    
       2121 TAATTTAA
          1 TAATTTAA

                    
       2129 T-ATTTAA
          1 TAATTTAA

                    
       2136 TAATTTAA
          1 TAATTTAA

                  
       2144 TAATTT
          1 TAATTT

       2150 TTTTATTTAT


Statistics
Matches: 20,  Mismatches: 0, Indels: 2
        0.91            0.00        0.09

Matches are distributed among these distances:
   7    7  0.35
   8   13  0.65

ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55


Consensus pattern (8 bp):   
TAATTTAA

Found at i:5103 original size:22 final size:20

Alignment explanation


    Indices: 5061--5109  Score: 62
    Period size: 22  Copynumber: 2.4  Consensus size: 20

       5051 AAATAAATAG

                   *            
       5061 TAATTTTTATAATAATTTTA
          1 TAATTTTAATAATAATTTTA

             *                    
       5081 TTATTTTAATAATTATATTTTA
          1 TAATTTTAATAA-TA-ATTTTA

                   
       5103 TAATTTT
          1 TAATTTT

       5110 TAAATGATTA


Statistics
Matches: 24,  Mismatches: 3, Indels: 2
        0.83            0.10        0.07

Matches are distributed among these distances:
  20   10  0.42
  21    2  0.08
  22   12  0.50

ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63


Consensus pattern (20 bp):   
TAATTTTAATAATAATTTTA

Found at i:5995 original size:15 final size:15

Alignment explanation


    Indices: 5975--6008  Score: 68
    Period size: 15  Copynumber: 2.3  Consensus size: 15

       5965 CCACCCACCA

                           
       5975 CCGCTGCCTCCGCCG
          1 CCGCTGCCTCCGCCG

                           
       5990 CCGCTGCCTCCGCCG
          1 CCGCTGCCTCCGCCG

                
       6005 CCGC
          1 CCGC

       6009 CTTCCACTTC


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   19  1.00

ACGTcount: A:0.00, C:0.62, G:0.26, T:0.12


Consensus pattern (15 bp):   
CCGCTGCCTCCGCCG
Done.