Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009745.1 Kokia drynarioides strain JFW-HI SEQ_124464, 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, 676

Length: 1128
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34


Found at i:81 original size:23 final size:23

Alignment explanation


    Indices: 51--171  Score: 118
    Period size: 23  Copynumber: 5.2  Consensus size: 23

         41 AGTGCTGGGC

                                   
         51 AACAGAGAGCACACACAGTGCTA
          1 AACAGAGAGCACACACAGTGCTA

                     * *   *   *   
         74 AACAGAGAGTATACAGAGTACTA
          1 AACAGAGAGCACACACAGTGCTA

             *  *          *       
         97 ATCAAAGAGCACACAAAGTGCTA
          1 AACAGAGAGCACACACAGTGCTA

             *           *          
        120 ATCAGAGAGCACAAACAGTGCTAA
          1 AACAGAGAGCACACACAGTGCT-A

                           *         
        144 CAACAGAGAGCACGAGAC-GTGCTA
          1 -AACAGAGAGCAC-ACACAGTGCTA

                
        168 AACA
          1 AACA

        172 AATTAGTACA


Statistics
Matches: 80,  Mismatches: 15, Indels: 6
        0.79            0.15        0.06

Matches are distributed among these distances:
  23   59  0.74
  24    2  0.03
  25   16  0.20
  26    3  0.04

ACGTcount: A:0.45, C:0.21, G:0.21, T:0.12


Consensus pattern (23 bp):   
AACAGAGAGCACACACAGTGCTA

Found at i:200 original size:72 final size:68

Alignment explanation


    Indices: 53--201  Score: 174
    Period size: 72  Copynumber: 2.1  Consensus size: 68

         43 TGCTGGGCAA

                       *                    *            *                 * 
         53 CAGAGAGCACACACAGTGCTAAACAGAGAGTATACAGAGTACTAATCAAAGAGCACACAAAGTGC
          1 CAGAGAGCACAAACAGTGCTAAACAGAGAG-ACACAGAGTACTAAACAAAGAGCACACAAAGTAC

                
        118 TAAT
         65 TAAT

                                                       *          *  *       
        122 CAGAGAGCACAAACAGTGCTAACAACAGAGAG-CACGAGACGTGCTAAACAAATTAGTACACAAA
          1 CAGAGAGCACAAACAGTGCT-A-AACAGAGAGACAC-AGA-GTACTAAACAAA-GAGCACACAAA

                    
        186 GTACTAAT
         61 GTACTAAT

                    
        194 CAGAGAGC
          1 CAGAGAGC

        202 GCGCTAGTGT


Statistics
Matches: 68,  Mismatches: 7, Indels: 7
        0.83            0.09        0.09

Matches are distributed among these distances:
  69   21  0.31
  70    4  0.06
  71   19  0.28
  72   24  0.35

ACGTcount: A:0.45, C:0.21, G:0.21, T:0.13


Consensus pattern (68 bp):   
CAGAGAGCACAAACAGTGCTAAACAGAGAGACACAGAGTACTAAACAAAGAGCACACAAAGTACT
AAT
Done.