Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002020.1 Kokia drynarioides strain JFW-HI SEQ_113895, 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: 8729
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35


Found at i:2087 original size:14 final size:14

Alignment explanation


    Indices: 2068--2097  Score: 51
    Period size: 14  Copynumber: 2.1  Consensus size: 14

       2058 AAAATAAATT

                          
       2068 TTGAGTTAATCGAA
          1 TTGAGTTAATCGAA

                    *     
       2082 TTGAGTTATTCGAA
          1 TTGAGTTAATCGAA

              
       2096 TT
          1 TT

       2098 ATTCGAGTCA


Statistics
Matches: 15,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  14   15  1.00

ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43


Consensus pattern (14 bp):   
TTGAGTTAATCGAA

Found at i:2275 original size:20 final size:21

Alignment explanation


    Indices: 2248--2297  Score: 61
    Period size: 20  Copynumber: 2.5  Consensus size: 21

       2238 ATTATAAAAT

                                 
       2248 AATT-AAAATAAT-TTTCAAA
          1 AATTCAAAATAATATTTCAAA

                             **  
       2267 AATTCAAAA-AATATTTTTAA
          1 AATTCAAAATAATATTTCAAA

                       
       2287 AATTCAAAATA
          1 AATTCAAAATA

       2298 TTAATAAAAT


Statistics
Matches: 26,  Mismatches: 2, Indels: 4
        0.81            0.06        0.12

Matches are distributed among these distances:
  19    7  0.27
  20   18  0.69
  21    1  0.04

ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36


Consensus pattern (21 bp):   
AATTCAAAATAATATTTCAAA

Found at i:6761 original size:18 final size:18

Alignment explanation


    Indices: 6720--6763  Score: 52
    Period size: 18  Copynumber: 2.4  Consensus size: 18

       6710 TTTAAACTTT

                              *
       6720 ATTTAATATTTTTATAAAT
          1 ATTT-ATATTTTTATAAAA

            *           *     
       6739 TTTTATATTTTTTTAAAA
          1 ATTTATATTTTTATAAAA

                   
       6757 ATTTATA
          1 ATTTATA

       6764 AAAAAATAAA


Statistics
Matches: 21,  Mismatches: 4, Indels: 1
        0.81            0.15        0.04

Matches are distributed among these distances:
  18   18  0.86
  19    3  0.14

ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61


Consensus pattern (18 bp):   
ATTTATATTTTTATAAAA
Done.