Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004314.1 Kokia drynarioides strain JFW-HI SEQ_117629, 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: 5319
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31


Found at i:250 original size:42 final size:42

Alignment explanation


    Indices: 152--262  Score: 141
    Period size: 42  Copynumber: 2.6  Consensus size: 42

        142 CTTTTTCCAG

                *         * *               *         
        152 GGAGTTGCTCAGTTGCGAGGGTTGAATGAGTCTCCTGAATAT
          1 GGAGATGCTCAGTTCCCAGGGTTGAATGAGTCCCCTGAATAT

                     *                           *    
        194 GGAGATGCTGAGTTCCCAGGGTTGAATGAGTCCCCTGGATAT
          1 GGAGATGCTCAGTTCCCAGGGTTGAATGAGTCCCCTGAATAT

            *   *             *        
        236 TGAGCTGCTCAGTTCCCATGGTTGAAT
          1 GGAGATGCTCAGTTCCCAGGGTTGAAT

        263 CAGATTCATG


Statistics
Matches: 59,  Mismatches: 10, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  42   59  1.00

ACGTcount: A:0.21, C:0.18, G:0.32, T:0.30


Consensus pattern (42 bp):   
GGAGATGCTCAGTTCCCAGGGTTGAATGAGTCCCCTGAATAT

Found at i:2771 original size:3 final size:3

Alignment explanation


    Indices: 2763--2789  Score: 54
    Period size: 3  Copynumber: 9.0  Consensus size: 3

       2753 AAACCCCCCA

                                               
       2763 TCT TCT TCT TCT TCT TCT TCT TCT TCT
          1 TCT TCT TCT TCT TCT TCT TCT TCT TCT

       2790 CGAACAATTG


Statistics
Matches: 24,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   24  1.00

ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67


Consensus pattern (3 bp):   
TCT

Found at i:4499 original size:42 final size:42

Alignment explanation


    Indices: 4401--4511  Score: 141
    Period size: 42  Copynumber: 2.6  Consensus size: 42

       4391 CTTTTTCCAG

                *         * *               *         
       4401 GGAGTTGCTCAGTTGCGAGGGTTGAATGAGTCTCCTGAATAT
          1 GGAGATGCTCAGTTCCCAGGGTTGAATGAGTCCCCTGAATAT

                     *                           *    
       4443 GGAGATGCTGAGTTCCCAGGGTTGAATGAGTCCCCTGGATAT
          1 GGAGATGCTCAGTTCCCAGGGTTGAATGAGTCCCCTGAATAT

            *   *             *        
       4485 TGAGCTGCTCAGTTCCCATGGTTGAAT
          1 GGAGATGCTCAGTTCCCAGGGTTGAAT

       4512 CAGATTCATG


Statistics
Matches: 59,  Mismatches: 10, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  42   59  1.00

ACGTcount: A:0.21, C:0.18, G:0.32, T:0.30


Consensus pattern (42 bp):   
GGAGATGCTCAGTTCCCAGGGTTGAATGAGTCCCCTGAATAT
Done.