Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01013996.1 Kokia drynarioides strain JFW-HI SEQ_129027, 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: 8369
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33


Found at i:277 original size:12 final size:12

Alignment explanation


    Indices: 260--288  Score: 51
    Period size: 12  Copynumber: 2.5  Consensus size: 12

        250 TTCTTAATCA

                        
        260 TGAAAATGAAAT
          1 TGAAAATGAAAT

                        
        272 TGAAAATGAAAT
          1 TGAAAATGAAAT

                  
        284 T-AAAA
          1 TGAAAA

        289 CTGTTTGGAC


Statistics
Matches: 17,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  11    4  0.24
  12   13  0.76

ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24


Consensus pattern (12 bp):   
TGAAAATGAAAT

Found at i:1207 original size:18 final size:18

Alignment explanation


    Indices: 1184--1220  Score: 65
    Period size: 18  Copynumber: 2.1  Consensus size: 18

       1174 TTTGTGATCA

                              
       1184 AAATTGAAAGTGAAAGTG
          1 AAATTGAAAGTGAAAGTG

                     *        
       1202 AAATTGAAATTGAAAGTG
          1 AAATTGAAAGTGAAAGTG

             
       1220 A
          1 A

       1221 TATGAATTGT


Statistics
Matches: 18,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  18   18  1.00

ACGTcount: A:0.51, C:0.00, G:0.24, T:0.24


Consensus pattern (18 bp):   
AAATTGAAAGTGAAAGTG

Found at i:1209 original size:12 final size:12

Alignment explanation


    Indices: 1184--1220  Score: 56
    Period size: 12  Copynumber: 3.1  Consensus size: 12

       1174 TTTGTGATCA

                        
       1184 AAATTGAAAGTG
          1 AAATTGAAAGTG

               *     *  
       1196 AAAGTGAAATTG
          1 AAATTGAAAGTG

                        
       1208 AAATTGAAAGTG
          1 AAATTGAAAGTG

             
       1220 A
          1 A

       1221 TATGAATTGT


Statistics
Matches: 21,  Mismatches: 4, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  12   21  1.00

ACGTcount: A:0.51, C:0.00, G:0.24, T:0.24


Consensus pattern (12 bp):   
AAATTGAAAGTG
Done.