Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008694.1 Kokia drynarioides strain JFW-HI SEQ_123376, 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: 5025
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33


Found at i:2712 original size:63 final size:62

Alignment explanation


    Indices: 2623--2747  Score: 155
    Period size: 63  Copynumber: 2.0  Consensus size: 62

       2613 TTGGTACATA

                                                                            
       2623 TATTTTCATAAAATATTAATATGGTACATAAATTATAAATATGTGA-TTTATTATTA-TATTTG
          1 TATTTTCATAAAATATTAATATGGTACATAAATTATAAATATGT-ATTTTATTA-TAGTATTTG

                  *     *        *      *        *   *                     
       2685 TATTTTTATAAATTATTTAATGTGGTACGTAAATTATTAATGTGTATTTTATTATAGTATTTG
          1 TATTTTCATAAAATA-TTAATATGGTACATAAATTATAAATATGTATTTTATTATAGTATTTG

       2748 GAGTTACCAC


Statistics
Matches: 54,  Mismatches: 6, Indels: 5
        0.83            0.09        0.08

Matches are distributed among these distances:
  62   16  0.30
  63   38  0.70

ACGTcount: A:0.36, C:0.02, G:0.10, T:0.51


Consensus pattern (62 bp):   
TATTTTCATAAAATATTAATATGGTACATAAATTATAAATATGTATTTTATTATAGTATTTG

Found at i:4211 original size:32 final size:33

Alignment explanation


    Indices: 4175--4241  Score: 84
    Period size: 32  Copynumber: 2.1  Consensus size: 33

       4165 GATTTCATTA

                                              
       4175 ATTTTTAAAAGAATT-AAATATAA-TTTTTATAT
          1 ATTTTT-AAAGAATTAAAATATAATTTTTTATAT

                   ** *                      
       4207 ATTTTTAGGGTATTAAAATATAATTTTTTATAT
          1 ATTTTTAAAGAATTAAAATATAATTTTTTATAT

              
       4240 AT
          1 AT

       4242 AAATTTATAA


Statistics
Matches: 30,  Mismatches: 3, Indels: 3
        0.83            0.08        0.08

Matches are distributed among these distances:
  31    5  0.17
  32   14  0.47
  33   11  0.37

ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52


Consensus pattern (33 bp):   
ATTTTTAAAGAATTAAAATATAATTTTTTATAT
Done.