Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008372.1 Kokia drynarioides strain JFW-HI SEQ_123039, 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: 6826
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.34


Found at i:219 original size:26 final size:26

Alignment explanation


    Indices: 164--221  Score: 68
    Period size: 25  Copynumber: 2.3  Consensus size: 26

        154 ATGATTAAAT

                             *        
        164 ATAA-ATAAATAAATATGTATGTTTA
          1 ATAATATAAATAAATATATATGTTTA

                                       
        189 ATAATATAAA-AAATATAATAT-TTTA
          1 ATAATATAAATAAATAT-ATATGTTTA

                    
        214 ATTAATAT
          1 A-TAATAT

        222 TTTAATAATT


Statistics
Matches: 29,  Mismatches: 1, Indels: 5
        0.83            0.03        0.14

Matches are distributed among these distances:
  25   15  0.52
  26   14  0.48

ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41


Consensus pattern (26 bp):   
ATAATATAAATAAATATATATGTTTA

Found at i:240 original size:12 final size:12

Alignment explanation


    Indices: 203--252  Score: 54
    Period size: 12  Copynumber: 4.5  Consensus size: 12

        193 TATAAAAAAT

                        
        203 ATAATATTTTAA
          1 ATAATATTTTAA

            *           
        215 TTAATATTTT-A
          1 ATAATATTTTAA

                 *      
        226 ATAATTTTTTAA
          1 ATAATATTTTAA

                        
        238 AT-AT-TTTTAA
          1 ATAATATTTTAA

                  
        248 A-AATA
          1 ATAATA

        253 AAAAAATATT


Statistics
Matches: 32,  Mismatches: 3, Indels: 7
        0.76            0.07        0.17

Matches are distributed among these distances:
  10    9  0.28
  11   11  0.34
  12   12  0.38

ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54


Consensus pattern (12 bp):   
ATAATATTTTAA

Found at i:244 original size:9 final size:11

Alignment explanation


    Indices: 203--237  Score: 52
    Period size: 11  Copynumber: 3.1  Consensus size: 11

        193 TATAAAAAAT

                       
        203 ATAATATTTTA
          1 ATAATATTTTA

                        
        214 ATTAATATTTTA
          1 A-TAATATTTTA

                 *     
        226 ATAATTTTTTA
          1 ATAATATTTTA

             
        237 A
          1 A

        238 ATATTTTTAA


Statistics
Matches: 22,  Mismatches: 1, Indels: 2
        0.88            0.04        0.08

Matches are distributed among these distances:
  11   11  0.50
  12   11  0.50

ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57


Consensus pattern (11 bp):   
ATAATATTTTA
Done.