Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008621.1 Kokia drynarioides strain JFW-HI SEQ_123300, 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: 7356
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.36


Found at i:2578 original size:17 final size:18

Alignment explanation


    Indices: 2547--2582  Score: 56
    Period size: 17  Copynumber: 2.1  Consensus size: 18

       2537 AAAACCTAAA

                              
       2547 CCCAATTTTTATTACAAG
          1 CCCAATTTTTATTACAAG

                      *       
       2565 CCCAA-TTTTGTTACAAG
          1 CCCAATTTTTATTACAAG

             
       2582 C
          1 C

       2583 TCAAAACTAA


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

Matches are distributed among these distances:
  17   12  0.71
  18    5  0.29

ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36


Consensus pattern (18 bp):   
CCCAATTTTTATTACAAG

Found at i:3869 original size:19 final size:19

Alignment explanation


    Indices: 3845--3884  Score: 55
    Period size: 19  Copynumber: 2.1  Consensus size: 19

       3835 TAGTCCCCTT

                   *            
       3845 TTATTTTCTATTA-TTTGTA
          1 TTATTTTAT-TTAGTTTGTA

                               
       3864 TTATTTTATTTAGTTTGTA
          1 TTATTTTATTTAGTTTGTA

              
       3883 TT
          1 TT

       3885 TTATTTTTAT


Statistics
Matches: 19,  Mismatches: 1, Indels: 2
        0.86            0.05        0.09

Matches are distributed among these distances:
  18    3  0.16
  19   16  0.84

ACGTcount: A:0.20, C:0.03, G:0.07, T:0.70


Consensus pattern (19 bp):   
TTATTTTATTTAGTTTGTA

Found at i:3904 original size:18 final size:18

Alignment explanation


    Indices: 3883--3921  Score: 62
    Period size: 18  Copynumber: 2.2  Consensus size: 18

       3873 TTAGTTTGTA

                               
       3883 TTTTATTT-TTATTTAATT
          1 TTTTATTTGTTATTT-ATT

                              
       3901 TTTTATTTGTTATTTATT
          1 TTTTATTTGTTATTTATT

               
       3919 TTT
          1 TTT

       3922 ATTACTAGTT


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

Matches are distributed among these distances:
  18   14  0.70
  19    6  0.30

ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79


Consensus pattern (18 bp):   
TTTTATTTGTTATTTATT

Done.