Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01011982.1 Kokia drynarioides strain JFW-HI SEQ_126980, 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: 5430
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30


Found at i:538 original size:25 final size:25

Alignment explanation


    Indices: 480--531  Score: 86
    Period size: 25  Copynumber: 2.1  Consensus size: 25

        470 TACACTAATA

                        *            
        480 AAAGTTTAAGTGTGAAACTAAAAAC
          1 AAAGTTTAAGTGGGAAACTAAAAAC

                          *          
        505 AAAGTTTAAGTGGGCAACTAAAAAC
          1 AAAGTTTAAGTGGGAAACTAAAAAC

              
        530 AA
          1 AA

        532 CATTTAACTA


Statistics
Matches: 25,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  25   25  1.00

ACGTcount: A:0.52, C:0.10, G:0.17, T:0.21


Consensus pattern (25 bp):   
AAAGTTTAAGTGGGAAACTAAAAAC

Found at i:2412 original size:153 final size:153

Alignment explanation


    Indices: 2134--2447  Score: 574
    Period size: 153  Copynumber: 2.1  Consensus size: 153

       2124 AACGAACAAG

                                                                             
       2134 CAAAATAACAAAGAAACTAAAAAGATCAAACACAAATATTTTACGTGGAAAAATTGTTCCGTAAA
          1 CAAAATAACAAAGAAACTAAAAAGATCAAACACAAATATTTTACGTGGAAAAATTGTTCCGTAAA

                                    *                                      * 
       2199 AGATAAAAAACCAAAGGTAAAGATGATTTCACTATAACGACAAAAACAAAAAGTATAAAAGATGG
         66 AGATAAAAAACCAAAGGTAAAGATAATTTCACTATAACGACAAAAACAAAAAGTATAAAAGATAG

                                   
       2264 AGATAAAACTAAACCATAAAACC
        131 AGATAAAACTAAACCATAAAACC

                                   *                                         
       2287 CAAAATAACAAAGAAACTAAAAATATCAAACACAAATATTTTACGTGGAAAAATTGTTCCGTAAA
          1 CAAAATAACAAAGAAACTAAAAAGATCAAACACAAATATTTTACGTGGAAAAATTGTTCCGTAAA

                         *                          *                        
       2352 AGATAAAAAACCACAGGTAAAGATAATTTCACTATAACGATAAAAACAAAAAGTATAAAAGATAG
         66 AGATAAAAAACCAAAGGTAAAGATAATTTCACTATAACGACAAAAACAAAAAGTATAAAAGATAG

                           *       
       2417 AGATAAAACTAAACCCTAAAACC
        131 AGATAAAACTAAACCATAAAACC

                    
       2440 CAAAATAA
          1 CAAAATAA

       2448 GAACCCTCAA


Statistics
Matches: 155,  Mismatches: 6, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
 153  155  1.00

ACGTcount: A:0.57, C:0.14, G:0.11, T:0.19


Consensus pattern (153 bp):   
CAAAATAACAAAGAAACTAAAAAGATCAAACACAAATATTTTACGTGGAAAAATTGTTCCGTAAA
AGATAAAAAACCAAAGGTAAAGATAATTTCACTATAACGACAAAAACAAAAAGTATAAAAGATAG
AGATAAAACTAAACCATAAAACC
Done.