Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004143.1 Kokia drynarioides strain JFW-HI SEQ_117344, 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: 4337
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.34


Found at i:288 original size:21 final size:22

Alignment explanation


    Indices: 252--295  Score: 63
    Period size: 21  Copynumber: 2.0  Consensus size: 22

        242 AGTATAGATT

                       *          
        252 AAAATATAAATTAATTAAATTA
          1 AAAATATAAATAAATTAAATTA

                            *     
        274 AAAATATAAA-AAATTTAATTA
          1 AAAATATAAATAAATTAAATTA

             
        295 A
          1 A

        296 CATTTTTCCA


Statistics
Matches: 20,  Mismatches: 2, Indels: 1
        0.87            0.09        0.04

Matches are distributed among these distances:
  21   10  0.50
  22   10  0.50

ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34


Consensus pattern (22 bp):   
AAAATATAAATAAATTAAATTA

Found at i:291 original size:22 final size:21

Alignment explanation


    Indices: 252--295  Score: 54
    Period size: 22  Copynumber: 2.0  Consensus size: 21

        242 AGTATAGATT

                       *          
        252 AAAATATAAATTAATTAAATTA
          1 AAAATATAAATAAATT-AATTA

                                  
        274 AAAATATAAA-AAATTTAATTA
          1 AAAATATAAATAAA-TTAATTA

             
        295 A
          1 A

        296 CATTTTTCCA


Statistics
Matches: 20,  Mismatches: 1, Indels: 3
        0.83            0.04        0.12

Matches are distributed among these distances:
  21    8  0.40
  22   12  0.60

ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34


Consensus pattern (21 bp):   
AAAATATAAATAAATTAATTA

Found at i:2235 original size:22 final size:22

Alignment explanation


    Indices: 2179--2235  Score: 57
    Period size: 22  Copynumber: 2.6  Consensus size: 22

       2169 ATAAAAATGT

                      *           
       2179 ATAAAATT-ATTAAATATTAAA
          1 ATAAAATTAAATAAATATTAAA

                   *                
       2200 ATAAAA-CAATATAAATATTTAAA
          1 ATAAAATTAA-ATAAATA-TTAAA

                          
       2223 A-AAAATTAAATAA
          1 ATAAAATTAAATAA

       2236 TAATATTGGC


Statistics
Matches: 29,  Mismatches: 3, Indels: 7
        0.74            0.08        0.18

Matches are distributed among these distances:
  21    7  0.24
  22   14  0.48
  23    8  0.28

ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32


Consensus pattern (22 bp):   
ATAAAATTAAATAAATATTAAA
Done.