Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001880.1 Kokia drynarioides strain JFW-HI SEQ_113652, 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: 14693
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.32


Found at i:1259 original size:7 final size:7

Alignment explanation


    Indices: 1247--1273  Score: 54
    Period size: 7  Copynumber: 3.9  Consensus size: 7

       1237 TGAAACCCCG

                   
       1247 TTCAATT
          1 TTCAATT

                   
       1254 TTCAATT
          1 TTCAATT

                   
       1261 TTCAATT
          1 TTCAATT

                  
       1268 TTCAAT
          1 TTCAAT

       1274 CTGTAATCCT


Statistics
Matches: 20,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   7   20  1.00

ACGTcount: A:0.30, C:0.15, G:0.00, T:0.56


Consensus pattern (7 bp):   
TTCAATT

Found at i:8351 original size:18 final size:18

Alignment explanation


    Indices: 8328--8364  Score: 65
    Period size: 18  Copynumber: 2.1  Consensus size: 18

       8318 TTTGTGATCA

                              
       8328 AAATTGAAAGTGAAAGTG
          1 AAATTGAAAGTGAAAGTG

                     *        
       8346 AAATTGAAATTGAAAGTG
          1 AAATTGAAAGTGAAAGTG

             
       8364 A
          1 A

       8365 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:8353 original size:12 final size:12

Alignment explanation


    Indices: 8328--8364  Score: 56
    Period size: 12  Copynumber: 3.1  Consensus size: 12

       8318 TTTGTGATCA

                        
       8328 AAATTGAAAGTG
          1 AAATTGAAAGTG

               *     *  
       8340 AAAGTGAAATTG
          1 AAATTGAAAGTG

                        
       8352 AAATTGAAAGTG
          1 AAATTGAAAGTG

             
       8364 A
          1 A

       8365 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

Found at i:13963 original size:26 final size:26

Alignment explanation


    Indices: 13928--13984  Score: 105
    Period size: 26  Copynumber: 2.2  Consensus size: 26

      13918 CTCCTTGGAA

                                      
      13928 GAAAGTGTTGAGATTTGGCCACAAAG
          1 GAAAGTGTTGAGATTTGGCCACAAAG

                                *     
      13954 GAAAGTGTTGAGATTTGGCCGCAAAG
          1 GAAAGTGTTGAGATTTGGCCACAAAG

                 
      13980 GAAAG
          1 GAAAG

      13985 CTTTACCTCC


Statistics
Matches: 30,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  26   30  1.00

ACGTcount: A:0.35, C:0.11, G:0.33, T:0.21


Consensus pattern (26 bp):   
GAAAGTGTTGAGATTTGGCCACAAAG
Done.