Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008580.1 Kokia drynarioides strain JFW-HI SEQ_123258, 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, 710

Length: 1184
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33


Found at i:159 original size:61 final size:60

Alignment explanation


    Indices: 78--253  Score: 196
    Period size: 61  Copynumber: 2.9  Consensus size: 60

         68 AATTGAATCT

                                                                  *     
         78 TAAAAAAAA-TTTAGATACCAAATTAGGAAAAAAATGTCAAGTTCAAGTACCAATTTG-G
          1 TAAAAAAAAGTTTAGATACCAAATTAGGAAAAAAATGTCAAGTTCAAGTACCAAATTGAG

               *         *   *          *       *        *   *  *         
        136 ATCCAAAAAAAGTATAGGTACCAAATTAAG-AAAAAGTGTCAAGTCCAATTATCAAATTGAG
          1 -T-AAAAAAAAGTTTAGATACCAAATTAGGAAAAAAATGTCAAGTTCAAGTACCAAATTGAG

                                        *                * *         
        197 TAAAAAAAAGTTTAGATACCAAATTAGAAAAAAAAATGTCAAGTTTAGGTACCAAAT
          1 TAAAAAAAAGTTTAGATACCAAATTAG-GAAAAAAATGTCAAGTTCAAGTACCAAAT

        254 GTTACATTTA


Statistics
Matches: 92,  Mismatches: 20, Indels: 8
        0.77            0.17        0.07

Matches are distributed among these distances:
  59   23  0.25
  60   32  0.35
  61   37  0.40

ACGTcount: A:0.51, C:0.11, G:0.14, T:0.24


Consensus pattern (60 bp):   
TAAAAAAAAGTTTAGATACCAAATTAGGAAAAAAATGTCAAGTTCAAGTACCAAATTGAG

Found at i:217 original size:59 final size:59

Alignment explanation


    Indices: 78--240  Score: 177
    Period size: 60  Copynumber: 2.7  Consensus size: 59

         68 AATTGAATCT

                                      *                *          *     
         78 TAAAAAAAA-TTTAGATACCAAATTAGGAAAAAAATGTCAAGTTCAAGTACCAATTTGGA
          1 TAAAAAAAAGTTTAGATACCAAATTAAG-AAAAAATGTCAAGTCCAAGTACCAAATTGGA

              *         *   *                 *            *  *         
        137 TCCAAAAAAAGTATAGGTACCAAATTAAGAAAAAGTGTCAAGTCCAATTATCAAATT-GA
          1 T-AAAAAAAAGTTTAGATACCAAATTAAGAAAAAATGTCAAGTCCAAGTACCAAATTGGA

                                          *              
        196 GTAAAAAAAAGTTTAGATACCAAATTAGAAAAAAAAATGTCAAGT
          1 -TAAAAAAAAGTTTAGATACCAAATT--AAGAAAAAATGTCAAGT

        241 TTAGGTACCA


Statistics
Matches: 85,  Mismatches: 14, Indels: 8
        0.79            0.13        0.07

Matches are distributed among these distances:
  59   24  0.28
  60   31  0.36
  61   30  0.35

ACGTcount: A:0.52, C:0.10, G:0.13, T:0.24


Consensus pattern (59 bp):   
TAAAAAAAAGTTTAGATACCAAATTAAGAAAAAATGTCAAGTCCAAGTACCAAATTGGA
Done.